Diff of the two buildlogs: -- --- b1/build.log 2025-07-11 22:30:09.953746144 +0000 +++ b2/build.log 2025-07-11 22:13:09.138974817 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Thu Aug 13 16:36:17 -12 2026 -I: pbuilder-time-stamp: 1786682177 +I: Current time: Sat Jul 12 11:54:30 +14 2025 +I: pbuilder-time-stamp: 1752270870 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -53,52 +53,84 @@ dpkg-source: info: applying 0028-Fix-pip-invocation.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/503896/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/3645850/tmp/hooks/D01_modify_environment starting +debug: Running on codethink04-arm64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Jul 11 21:54 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/3645850/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/3645850/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='arm64' - DEBIAN_FRONTEND='noninteractive' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="37" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.2.37(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=arm64 + DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='unstable' - HOME='/root' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=unstable + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='4b157732885143549d88425f89c823a9' - LANG='C' - LANGUAGE='en_US:en' - LC_ALL='C' - MAIL='/var/mail/root' - OPTIND='1' - PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' - PBCURRENTCOMMANDLINEOPERATION='build' - PBUILDER_OPERATION='build' - PBUILDER_PKGDATADIR='/usr/share/pbuilder' - PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' - PBUILDER_SYSCONFDIR='/etc' - PPID='503896' - PS1='# ' - PS2='> ' + INVOCATION_ID=a324b54981f94554abe0fb4c9ae05533 + LANG=C + LANGUAGE=nl_BE:nl + LC_ALL=C + MACHTYPE=aarch64-unknown-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=3645850 PS4='+ ' - PWD='/' - SHELL='/bin/bash' - SHLVL='2' - SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.W68Ls0k6/pbuilderrc_kRMz --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.W68Ls0k6/b1 --logfile b1/build.log cctbx_2024.10+ds2+~3.22.1+ds1-5.dsc' - SUDO_GID='109' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://192.168.101.4:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.W68Ls0k6/pbuilderrc_EJ9g --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.W68Ls0k6/b2 --logfile b2/build.log cctbx_2024.10+ds2+~3.22.1+ds1-5.dsc' + SUDO_GID=109 + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://192.168.101.4:3128 I: uname -a - Linux codethink03-arm64 6.1.0-37-cloud-arm64 #1 SMP Debian 6.1.140-1 (2025-05-22) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-37-cloud-arm64 #1 SMP Debian 6.1.140-1 (2025-05-22) aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 May 12 2025 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/503896/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 May 12 19:25 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/3645850/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -742,7 +774,7 @@ Get: 501 http://deb.debian.org/debian unstable/main arm64 python3-tqdm all 4.67.1-5 [90.8 kB] Get: 502 http://deb.debian.org/debian unstable/main arm64 python3-wxgtk4.0 arm64 4.2.3+dfsg-2 [6910 kB] Get: 503 http://deb.debian.org/debian unstable/main arm64 scons all 4.8.1+dfsg-1 [548 kB] -Fetched 333 MB in 1s (273 MB/s) +Fetched 333 MB in 2s (220 MB/s) Preconfiguring packages ... Selecting previously unselected package libsystemd-shared:arm64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19963 files and directories currently installed.) @@ -2361,8 +2393,8 @@ Setting up tzdata (2025b-4) ... Current default time zone: 'Etc/UTC' -Local time is now: Fri Aug 14 04:37:45 UTC 2026. -Universal Time is now: Fri Aug 14 04:37:45 UTC 2026. +Local time is now: Fri Jul 11 21:55:39 UTC 2025. +Universal Time is now: Fri Jul 11 21:55:39 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libboost-atomic1.83.0:arm64 (1.83.0-4.2) ... @@ -2818,7 +2850,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../cctbx_2024.10+ds2+~3.22.1+ds1-5_source.changes +I: user script /srv/workspace/pbuilder/3645850/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/3645850/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../cctbx_2024.10+ds2+~3.22.1+ds1-5_source.changes dpkg-buildpackage: info: source package cctbx dpkg-buildpackage: info: source version 2024.10+ds2+~3.22.1+ds1-5 dpkg-buildpackage: info: source distribution unstable @@ -7092,59 +7128,59 @@ g++ -o cctbx/maptbx/dijkstra.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/maptbx/dijkstra.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/xplor/map_reader.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/xplor/map_reader.cpp -g++ -o iotbx/xplor/map_writer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/xplor/map_writer.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o iotbx/xplor/map_writer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/xplor/map_writer.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/direct_space_asu/proto/cut.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/direct_space_asu/proto/cut.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/direct_space_asu/proto/reference_table.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/direct_space_asu/proto/reference_table.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/direct_space_asu/proto/direct_space_asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/direct_space_asu/proto/direct_space_asu.cpp g++ -o cctbx/eltbx/basic.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/eltbx/basic.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/xray_scattering/it1992.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/eltbx/xray_scattering/it1992.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/xray_scattering/wk1995.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/eltbx/xray_scattering/wk1995.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/xray_scattering/n_gaussian_raw.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/eltbx/xray_scattering/n_gaussian_raw.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/xray_scattering/n_gaussian.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/eltbx/xray_scattering/n_gaussian.cpp -g++ -o cctbx/eltbx/fp_fdp.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/eltbx/fp_fdp.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/eltbx/fp_fdp.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/eltbx/fp_fdp.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include cctbx/eltbx/henke.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/libiotbx_xplor.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libiotbx_xplor.so.0 iotbx/xplor/map_reader.o iotbx/xplor/map_writer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lm g++ -o cctbx/eltbx/henke_tables_01_12.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include cctbx/eltbx/henke_tables_01_12.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/libiotbx_xplor.so.0.0.1' 'lib/libiotbx_xplor.so.0'->'lib/libiotbx_xplor.so.0.0.1' 'lib/libiotbx_xplor.so'->'lib/libiotbx_xplor.so.0.0.1' -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke_tables_13_24.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include cctbx/eltbx/henke_tables_13_24.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke_tables_25_36.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include cctbx/eltbx/henke_tables_25_36.cpp -g++ -o cctbx/eltbx/henke_tables_37_48.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include cctbx/eltbx/henke_tables_37_48.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/eltbx/henke_tables_37_48.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include cctbx/eltbx/henke_tables_37_48.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke_tables_49_60.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include cctbx/eltbx/henke_tables_49_60.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke_tables_61_72.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include cctbx/eltbx/henke_tables_61_72.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke_tables_73_84.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include cctbx/eltbx/henke_tables_73_84.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke_tables_85_92.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include cctbx/eltbx/henke_tables_85_92.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/icsd_radii.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/eltbx/icsd_radii.cpp -g++ -o cctbx/eltbx/covalent_radii.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/eltbx/covalent_radii.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/eltbx/covalent_radii.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/eltbx/covalent_radii.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/neutron.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/eltbx/neutron.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/sasaki.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include cctbx/eltbx/sasaki.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/sasaki_tables_01_12.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_01_12.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/sasaki_tables_13_24.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_13_24.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/sasaki_tables_25_36.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_25_36.cpp @@ -7158,13 +7194,13 @@ g++ -o cctbx/eltbx/sasaki_tables_73_82.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_73_82.cpp g++ -o cctbx/eltbx/tiny_pse.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/eltbx/tiny_pse.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o cctbx/eltbx/wavelengths.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/eltbx/wavelengths.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/eltbx/wavelengths.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/eltbx/wavelengths.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/electron_scattering/peng1996.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/eltbx/electron_scattering/peng1996.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/attenuation_coefficient.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/eltbx/attenuation_coefficient.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/miller/asu.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/bins.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/miller/bins.cpp @@ -7172,9 +7208,9 @@ g++ -o cctbx/miller/index_generator.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/miller/index_generator.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/index_span.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/miller/index_span.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/match_bijvoet_mates.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/miller/match_bijvoet_mates.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/match_indices.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/miller/match_indices.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/match_multi_indices.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/miller/match_multi_indices.cpp @@ -7200,8 +7236,8 @@ g++ -o cctbx/sgtbx/reciprocal_space_asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/reciprocal_space_asu.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/reciprocal_space_ref_asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/reciprocal_space_ref_asu.cpp -g++ -o cctbx/sgtbx/rot_mx.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/rot_mx.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/sgtbx/rot_mx.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/rot_mx.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/rot_mx_info.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/rot_mx_info.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ @@ -7216,17 +7252,17 @@ g++ -o cctbx/sgtbx/site_symmetry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/space_group.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/space_group.cpp -g++ -o cctbx/sgtbx/space_group_type.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/space_group_type.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/sgtbx/space_group_type.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/space_group_type.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/symbols.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/symbols.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/tensor_rank_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensor_rank_2.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/tr_group.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tr_group.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/tr_vec.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tr_vec.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/utils.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/wyckoff.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/wyckoff.cpp @@ -7240,35 +7276,35 @@ g++ -o cctbx/sgtbx/reference_settings/wyckoff.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/reference_settings/wyckoff.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/uctbx/uctbx.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/uctbx/uctbx.cpp -g++ -o cctbx/uctbx/spoil_optimization.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/uctbx/spoil_optimization.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/uctbx/spoil_optimization.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/uctbx/spoil_optimization.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/uctbx/crystal_orientation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/uctbx/crystal_orientation.cpp -g++ -o omptbx/stubs.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/omptbx/stubs.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o omptbx/stubs.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/omptbx/stubs.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/graph/breadth_first_search_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/breadth_first_search_ext.cpp -g++ -o lib/libomptbx.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libomptbx.so.0 omptbx/stubs.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/graph/clustering_algorithm_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/clustering_algorithm_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/libomptbx.so.0.0.1' - 'lib/libomptbx.so.0'->'lib/libomptbx.so.0.0.1' - 'lib/libomptbx.so'->'lib/libomptbx.so.0.0.1' +g++ -o lib/libomptbx.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libomptbx.so.0 omptbx/stubs.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system g++ -o boost_adaptbx/graph/connected_component_algorithm_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/connected_component_algorithm_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/graph/graph_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/graph_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/graph/graph_structure_comparison_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/graph_structure_comparison_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/libomptbx.so.0.0.1' + 'lib/libomptbx.so.0'->'lib/libomptbx.so.0.0.1' + 'lib/libomptbx.so'->'lib/libomptbx.so.0.0.1' g++ -o boost_adaptbx/graph/maximum_clique_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/maximum_clique_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/graph/metric_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/metric_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/graph/min_cut_max_flow_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/min_cut_max_flow_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/graph/utility_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/utility_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/hybrid_times_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/hybrid_times_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/libcctbx.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libcctbx.so.0 cctbx/eltbx/basic.o cctbx/eltbx/xray_scattering/it1992.o cctbx/eltbx/xray_scattering/wk1995.o cctbx/eltbx/xray_scattering/n_gaussian_raw.o cctbx/eltbx/xray_scattering/n_gaussian.o cctbx/eltbx/fp_fdp.o cctbx/eltbx/henke.o cctbx/eltbx/henke_tables_01_12.o cctbx/eltbx/henke_tables_13_24.o cctbx/eltbx/henke_tables_25_36.o cctbx/eltbx/henke_tables_37_48.o cctbx/eltbx/henke_tables_49_60.o cctbx/eltbx/henke_tables_61_72.o cctbx/eltbx/henke_tables_73_84.o cctbx/eltbx/henke_tables_85_92.o cctbx/eltbx/icsd_radii.o cctbx/eltbx/covalent_radii.o cctbx/eltbx/neutron.o cctbx/eltbx/sasaki.o cctbx/eltbx/sasaki_tables_01_12.o cctbx/eltbx/sasaki_tables_13_24.o cctbx/eltbx/sasaki_tables_25_36.o cctbx/eltbx/sasaki_tables_37_48.o cctbx/eltbx/sasaki_tables_49_60.o cctbx/eltbx/sasaki_tables_61_72.o cctbx/eltbx/sasaki_tables_73_82.o cctbx/eltbx/tiny_pse.o cctbx/eltbx/wavelengths.o cctbx/eltbx/electron_scattering/peng1996.o cctbx/eltbx/attenuation_coefficient.o cctbx/miller/asu.o cctbx/miller/bins.o cctbx/miller/index_generator.o cctbx/miller/index_span.o cctbx/miller/match_bijvoet_mates.o cctbx/miller/match_indices.o cctbx/miller/match_multi_indices.o cctbx/miller/sym_equiv.o cctbx/sgtbx/bricks.o cctbx/sgtbx/change_of_basis_op.o cctbx/sgtbx/find_affine.o cctbx/sgtbx/group_codes.o cctbx/sgtbx/hall_in.o cctbx/sgtbx/lattice_tr.o cctbx/sgtbx/lattice_symmetry.o cctbx/sgtbx/miller.o cctbx/sgtbx/reciprocal_space_asu.o cctbx/sgtbx/reciprocal_space_ref_asu.o cctbx/sgtbx/rot_mx.o cctbx/sgtbx/rot_mx_info.o cctbx/sgtbx/row_echelon_solve.o cctbx/sgtbx/rt_mx.o cctbx/sgtbx/select_generators.o cctbx/sgtbx/seminvariant.o cctbx/sgtbx/site_symmetry.o cctbx/sgtbx/space_group.o cctbx/sgtbx/space_group_type.o cctbx/sgtbx/symbols.o cctbx/sgtbx/tensor_rank_2.o cctbx/sgtbx/tr_group.o cctbx/sgtbx/tr_vec.o cctbx/sgtbx/utils.o cctbx/sgtbx/wyckoff.o cctbx/sgtbx/reference_settings/hall_symbol_table.o cctbx/sgtbx/reference_settings/matrix_group_code_table.o cctbx/sgtbx/reference_settings/normalizer.o cctbx/sgtbx/reference_settings/wyckoff.o cctbx/uctbx/uctbx.o cctbx/uctbx/spoil_optimization.o cctbx/uctbx/crystal_orientation.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lm @@ -7292,7 +7328,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/graph_type.hpp:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/clustering_algorithm_ext.cpp:1: + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/graph_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -7309,7 +7345,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/graph_type.hpp:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/breadth_first_search_ext.cpp:1: + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/clustering_algorithm_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -7326,7 +7362,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/graph_type.hpp:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/connected_component_algorithm_ext.cpp:1: + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/utility_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -7343,7 +7379,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/graph_type.hpp:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/graph_ext.cpp:1: + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/maximum_clique_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -7360,7 +7396,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/graph_type.hpp:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/graph_structure_comparison_ext.cpp:1: + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/breadth_first_search_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -7377,7 +7413,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/graph_type.hpp:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/maximum_clique_ext.cpp:1: + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/metric_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -7394,7 +7430,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/graph_type.hpp:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/metric_ext.cpp:1: + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/graph_structure_comparison_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -7411,7 +7447,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/graph_type.hpp:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/min_cut_max_flow_ext.cpp:1: + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/connected_component_algorithm_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -7428,7 +7464,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/graph_type.hpp:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/utility_ext.cpp:1: + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/graph/min_cut_max_flow_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -7442,12 +7478,12 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/tests/tst_optional_copy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/tests/tst_optional_copy.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o boost_adaptbx/tests/tst_optional_copy -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread boost_adaptbx/tests/tst_optional_copy.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system g++ -o boost_adaptbx/tuple_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/boost_adaptbx/tuple_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o boost_adaptbx/tests/tst_optional_copy -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread boost_adaptbx/tests/tst_optional_copy.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system g++ -o cbflib_adaptbx/detectors/boost_python/cbflib_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DSWIG_PYTHON_STRICT_BYTE_CHAR -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include/hdf5/serial -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx/detectors/boost_python/cbflib_ext.cpp -g++ -o cbflib_adaptbx/detectors/buffer_based_service.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include/hdf5/serial -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx/detectors/buffer_based_service.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cbflib_adaptbx/detectors/buffer_based_service.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include/hdf5/serial -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx/detectors/buffer_based_service.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cbflib_adaptbx/detectors/cbf_adaptor.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include/hdf5/serial -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx/detectors/cbf_adaptor.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ @@ -7458,18 +7494,18 @@ g++ -o cbflib_adaptbx/detectors/tst_memory.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DCBF_NO_REGEX -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx/detectors/tst_memory.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o ccp4io_adaptbx/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/ccp4io -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/ccp4io_adaptbx/ext.cpp -gcc -o ccp4io_adaptbx/fortran_call_stubs.o -c -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/ccp4io -I. -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/ccp4io_adaptbx/fortran_call_stubs.c cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +gcc -o ccp4io_adaptbx/fortran_call_stubs.o -c -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/ccp4io -I. -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/ccp4io_adaptbx/fortran_call_stubs.c gcc -o ccp4io_adaptbx/printf_wrappers.o -c -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/ccp4io -I. -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/ccp4io_adaptbx/printf_wrappers.c g++ -o cctbx/adp_restraints/adp_restraints_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/adp_restraints/adp_restraints_bpl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/adp_restraints/adp_restraints_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/adp_restraints/adp_restraints_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/adp_restraints/adp_similarity_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/adp_restraints/adp_similarity_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/adp_restraints/aniso_restraints_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/adp_restraints/aniso_restraints_bpl.cpp -g++ -o cctbx/adp_restraints/fixed_u_eq_adp_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/adp_restraints/fixed_u_eq_adp_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/adp_restraints/fixed_u_eq_adp_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/adp_restraints/fixed_u_eq_adp_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/adp_restraints/isotropic_adp_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/adp_restraints/isotropic_adp_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ @@ -7490,18 +7526,18 @@ g++ -o cctbx/array_family/boost_python/flex_miller_index.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/array_family/boost_python/flex_miller_index.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/libcctbx_sgtbx_asu.so.0.0.1 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread -shared -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -Wl,-soname=libcctbx_sgtbx_asu.so.0 cctbx/sgtbx/direct_space_asu/proto/cut.o cctbx/sgtbx/direct_space_asu/proto/reference_table.o cctbx/sgtbx/direct_space_asu/proto/direct_space_asu.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lm -g++ -o cctbx/array_family/boost_python/flex_xray_scatterer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/array_family/boost_python/flex_xray_scatterer.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/libcctbx_sgtbx_asu.so.0.0.1' 'lib/libcctbx_sgtbx_asu.so.0'->'lib/libcctbx_sgtbx_asu.so.0.0.1' 'lib/libcctbx_sgtbx_asu.so'->'lib/libcctbx_sgtbx_asu.so.0.0.1' g++ -o lib/libasymmetric_map.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libasymmetric_map.so.0 cctbx/maptbx/asymmetric_map.o cctbx/maptbx/skeletons.o cctbx/maptbx/dijkstra.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -liotbx_xplor -lcctbx_sgtbx_asu -lcctbx -lomptbx -lm -g++ -o cctbx/boost_python/emma_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/boost_python/emma_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/libasymmetric_map.so.0.0.1' 'lib/libasymmetric_map.so.0'->'lib/libasymmetric_map.so.0.0.1' 'lib/libasymmetric_map.so'->'lib/libasymmetric_map.so.0.0.1' g++ -o bin/cctbx_blobs -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/maptbx/blobs_cmd.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lasymmetric_map -liotbx_xplor -lcctbx_sgtbx_asu -lcctbx -lomptbx -lm +g++ -o cctbx/array_family/boost_python/flex_xray_scatterer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/array_family/boost_python/flex_xray_scatterer.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/boost_python/emma_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/boost_python/emma_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/boost_python/french_wilson_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/boost_python/french_wilson_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/boost_python/orientation_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/boost_python/orientation_ext.cpp @@ -7521,9 +7557,9 @@ g++ -o cctbx/crystal/direct_space_asu_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/crystal/direct_space_asu_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/crystal/incremental_pairs_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/crystal/incremental_pairs_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/crystal/neighbors_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/crystal/neighbors_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/crystal/pair_tables_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/crystal/pair_tables_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/crystal/site_cluster_analysis_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/crystal/site_cluster_analysis_bpl.cpp @@ -7533,9 +7569,9 @@ g++ -o cctbx/dmtbx/boost_python/dmtbx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/dmtbx/boost_python/dmtbx_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/dmtbx/boost_python/triplet_generator.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/dmtbx/boost_python/triplet_generator.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/dmtbx/boost_python/triplet_phase_relation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/dmtbx/boost_python/triplet_phase_relation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/boost_python/attenuation_coefficient_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/eltbx/boost_python/attenuation_coefficient_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/boost_python/chemical_elements_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/eltbx/boost_python/chemical_elements_ext.cpp @@ -7567,9 +7603,9 @@ g++ -o cctbx/examples/lattice_symmetry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Icctbx/examples -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/examples /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/examples/lattice_symmetry.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/examples/sym_equiv_sites.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Icctbx/examples -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/examples /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/examples/sym_equiv_sites.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/examples/sys_abs_equiv_space_groups.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Icctbx/examples -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/examples /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/examples/sys_abs_equiv_space_groups.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/geometry/boost_python/geometry_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry/boost_python/geometry_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/geometry_restraints/angle_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/angle_bpl.cpp @@ -7586,6 +7622,14 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/restraints.h:6, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/chirality.h:5, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/chirality_bpl.cpp:13: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 100 | for (int i=0; i::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/chirality_bpl.cpp:11: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::angle_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::chirality_proxy; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, @@ -7638,11 +7682,11 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/angle_bpl.cpp:75:65: required from here - 75 | scitbx::af::boost_python::shared_wrapper::wrap( - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ - 76 | "shared_angle_proxy") - | ~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/chirality_bpl.cpp:75:60: required from here + 75 | scitbx::af::boost_python::shared_wrapper::wrap( + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ + 76 | "shared_chirality_proxy") + | ~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ @@ -7683,14 +7727,62 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scatterer.h:5, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/restraints.h:6, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/chirality.h:5, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/chirality_bpl.cpp:13: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ + 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); + | ^~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here + 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); + | ^ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 185 | for (int j = 0; j < tensor_t::size(); j++) { + | ~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ + 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); + | ^~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here + 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); + | ^ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 185 | for (int j = 0; j < tensor_t::size(); j++) { + | ~~^~~~~~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/cassert:44, + from /usr/include/boost/move/detail/type_traits.hpp:33, + from /usr/include/boost/move/traits.hpp:31, + from /usr/include/boost/move/utility.hpp:30, + from /usr/include/boost/optional/optional.hpp:59, + from /usr/include/boost/optional.hpp:15, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref_reductions.h:8, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:5, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:31, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/angle_bpl.cpp:11: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ + 146 | &convertible, + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::angle_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ + 130 | scitbx::boost_python::container_conversions::from_python_sequence< + | ^~~~~~~~~~~~~~~~~~~~~ + 131 | w_t, + | ~~~~ + 132 | scitbx::boost_python::container_conversions + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 133 | ::variable_capacity_policy>(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/angle_bpl.cpp:75:65: required from here + 75 | scitbx::af::boost_python::shared_wrapper::wrap( + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ + 76 | "shared_angle_proxy") + | ~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +g++ -o cctbx/geometry_restraints/geometry_restraints_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/geometry_restraints_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/c++/14/cassert:44, from /usr/include/boost/move/detail/type_traits.hpp:33, from /usr/include/boost/move/traits.hpp:31, @@ -7749,27 +7841,8 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:6: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ - 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); - | ^~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here - 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); - | ^ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 185 | for (int j = 0; j < tensor_t::size(); j++) { - | ~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ - 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); - | ^~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here - 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); - | ^ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 185 | for (int j = 0; j < tensor_t::size(); j++) { - | ~~^~~~~~~~~~~~~~~~~~ +g++ -o cctbx/geometry_restraints/motif_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/motif_bpl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/wyckoff.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/sym_equiv_sites.h:5, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/crystal/direct_space_asu.h:4, @@ -7792,39 +7865,45 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ - 146 | &convertible, - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::chirality_proxy; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ - 130 | scitbx::boost_python::container_conversions::from_python_sequence< - | ^~~~~~~~~~~~~~~~~~~~~ - 131 | w_t, - | ~~~~ - 132 | scitbx::boost_python::container_conversions - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 133 | ::variable_capacity_policy>(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/chirality_bpl.cpp:75:60: required from here - 75 | scitbx::af::boost_python::shared_wrapper::wrap( - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ - 76 | "shared_chirality_proxy") - | ~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ +g++ -o cctbx/geometry_restraints/nonbonded_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/nonbonded_bpl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scatterer.h:5, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/restraints.h:6, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/dihedral.h:6, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/dihedral_bpl.cpp:12: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ + 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); + | ^~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here + 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); + | ^ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 185 | for (int j = 0; j < tensor_t::size(); j++) { + | ~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ + 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); + | ^~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here + 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); + | ^ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 185 | for (int j = 0; j < tensor_t::size(); j++) { + | ~~^~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/dihedral_bpl.cpp:13: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/proxy_select.h: In instantiation of ‘scitbx::af::shared cctbx::geometry_restraints::shared_proxy_remove(const scitbx::af::const_ref&, const scitbx::af::const_ref&) [with ProxyType = dihedral_proxy]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/dihedral_bpl.cpp:110:17: required from here + 110 | shared_proxy_remove, ( + | ^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/proxy_select.h:187:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 187 | if (match_ctr != i_seqs.size()) { + | ~~~~~~~~~~^~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -7846,8 +7925,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ -g++ -o cctbx/geometry_restraints/geometry_restraints_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/geometry_restraints_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/crystal/direct_space_asu.h: In instantiation of ‘int cctbx::crystal::direct_space_asu::asu_mappings::find_i_sym(unsigned int, const cctbx::sgtbx::rt_mx&) const [with FloatType = double; IntShiftType = int]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/crystal/pair_tables.h:643:46: required from ‘bool cctbx::crystal::pair_asu_table::process_pair(unsigned int, unsigned int, const cctbx::sgtbx::rt_mx&) [with FloatType = double; IntShiftType = int]’ 643 | int j_sym = asu_mappings_->find_i_sym(j_seq, rt_mx_j); @@ -7864,8 +7941,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/crystal/direct_space_asu.h:869:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, std::allocator > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 869 | for(int i_sym=0; i_sym::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -7898,6 +7973,39 @@ from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/dihedral_bpl.cpp:11: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ + 146 | &convertible, + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::dihedral_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ + 130 | scitbx::boost_python::container_conversions::from_python_sequence< + | ^~~~~~~~~~~~~~~~~~~~~ + 131 | w_t, + | ~~~~ + 132 | scitbx::boost_python::container_conversions + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 133 | ::variable_capacity_policy>(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/dihedral_bpl.cpp:84:65: required from here + 84 | scitbx::af::boost_python::shared_wrapper::wrap( + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ + 85 | "shared_dihedral_proxy") + | ~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +In file included from /usr/include/c++/14/cassert:44, + from /usr/include/boost/move/detail/type_traits.hpp:33, + from /usr/include/boost/move/traits.hpp:31, + from /usr/include/boost/move/utility.hpp:30, + from /usr/include/boost/optional/optional.hpp:59, + from /usr/include/boost/optional.hpp:15, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref_reductions.h:8, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:5, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:31, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/bond_bpl.cpp:10: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ @@ -7962,45 +8070,44 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scatterer.h:5, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/restraints.h:6, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/dihedral.h:6, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/dihedral_bpl.cpp:12: +g++ -o cctbx/geometry_restraints/nonbonded_sorted_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/nonbonded_sorted_bpl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/geometry_restraints/parallelity_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/parallelity_bpl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] + 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/memory:69, + from /usr/include/boost/config/no_tr1/memory.hpp:21, + from /usr/include/boost/get_pointer.hpp:14, + from /usr/include/boost/python/object/pointer_holder.hpp:11, + from /usr/include/boost/python/to_python_indirect.hpp:10, + from /usr/include/boost/python/converter/arg_to_python.hpp:10, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/object.hpp:9, + from /usr/include/boost/python/tuple.hpp:10, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/shared_wrapper_pickle.hpp:6, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/angle_bpl.cpp:2: +/usr/include/c++/14/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here + 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) + | ^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here + 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); + | ^~~~~~~~~~~~~ +g++ -o cctbx/geometry_restraints/planarity_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/planarity_bpl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/wyckoff.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/sym_equiv_sites.h:5, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/crystal/direct_space_asu.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/asu_cache.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/nonbonded.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/nonbonded_bpl.cpp:11: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i cctbx::geometry_restraints::shared_proxy_remove(const scitbx::af::const_ref&, const scitbx::af::const_ref&) [with ProxyType = dihedral_proxy]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/dihedral_bpl.cpp:110:17: required from here - 110 | shared_proxy_remove, ( - | ^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/proxy_select.h:187:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 187 | if (match_ctr != i_seqs.size()) { - | ~~~~~~~~~~^~~~~~~~~~~~~~~~ -g++ -o cctbx/geometry_restraints/nonbonded_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/nonbonded_bpl.cpp -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:6: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ - 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); - | ^~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here - 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); - | ^ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 185 | for (int j = 0; j < tensor_t::size(); j++) { - | ~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ - 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); - | ^~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here - 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); - | ^ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 185 | for (int j = 0; j < tensor_t::size(); j++) { - | ~~^~~~~~~~~~~~~~~~~~ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/c++/14/cassert:44, from /usr/include/boost/move/detail/type_traits.hpp:33, from /usr/include/boost/move/traits.hpp:31, @@ -8012,12 +8119,12 @@ from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/dihedral_bpl.cpp:11: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/parallelity_bpl.cpp:11: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::dihedral_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::parallelity_proxy; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, @@ -8026,46 +8133,21 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/dihedral_bpl.cpp:84:65: required from here - 84 | scitbx::af::boost_python::shared_wrapper::wrap( - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ - 85 | "shared_dihedral_proxy") - | ~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/parallelity_bpl.cpp:82:60: required from here + 82 | scitbx::af::boost_python::shared_wrapper::wrap( + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ + 83 | "shared_parallelity_proxy") + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -g++ -o cctbx/geometry_restraints/nonbonded_sorted_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/nonbonded_sorted_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o cctbx/geometry_restraints/parallelity_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/parallelity_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] - 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/memory:69, - from /usr/include/boost/config/no_tr1/memory.hpp:21, - from /usr/include/boost/get_pointer.hpp:14, - from /usr/include/boost/python/object/pointer_holder.hpp:11, - from /usr/include/boost/python/to_python_indirect.hpp:10, - from /usr/include/boost/python/converter/arg_to_python.hpp:10, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/object.hpp:9, - from /usr/include/boost/python/tuple.hpp:10, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/shared_wrapper_pickle.hpp:6, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/angle_bpl.cpp:2: -/usr/include/c++/14/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here - 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) - | ^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here - 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); - | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/wyckoff.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/sym_equiv_sites.h:5, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/crystal/direct_space_asu.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/asu_cache.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/nonbonded.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/nonbonded_bpl.cpp:11: + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/nonbonded_sorted.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/nonbonded_sorted_bpl.cpp:8: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -8203,41 +8270,6 @@ from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/parallelity_bpl.cpp:11: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ - 146 | &convertible, - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::parallelity_proxy; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ - 130 | scitbx::boost_python::container_conversions::from_python_sequence< - | ^~~~~~~~~~~~~~~~~~~~~ - 131 | w_t, - | ~~~~ - 132 | scitbx::boost_python::container_conversions - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 133 | ::variable_capacity_policy>(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/parallelity_bpl.cpp:82:60: required from here - 82 | scitbx::af::boost_python::shared_wrapper::wrap( - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ - 83 | "shared_parallelity_proxy") - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -g++ -o cctbx/maptbx/bcr/bcr_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/maptbx/bcr/bcr_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /usr/include/c++/14/cassert:44, - from /usr/include/boost/move/detail/type_traits.hpp:33, - from /usr/include/boost/move/traits.hpp:31, - from /usr/include/boost/move/utility.hpp:30, - from /usr/include/boost/optional/optional.hpp:59, - from /usr/include/boost/optional.hpp:15, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref_reductions.h:8, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:5, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:31, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/planarity_bpl.cpp:11: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ @@ -8260,6 +8292,10 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ +g++ -o cctbx/maptbx/asymmetric_map_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/maptbx/asymmetric_map_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/maptbx/bcr/bcr_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/maptbx/bcr/bcr_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/boost_python/coordinate_transformers.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/maptbx/boost_python/coordinate_transformers.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/boost_python/grid_indices_around_sites.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/maptbx/boost_python/grid_indices_around_sites.cpp @@ -8358,9 +8394,9 @@ g++ -o cctbx/sgtbx/boost_python/space_group.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/boost_python/space_group.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/space_group_type.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/boost_python/space_group_type.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/sym_equiv_sites.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/boost_python/sym_equiv_sites.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/symbols.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/boost_python/symbols.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/tensor_rank_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/boost_python/tensor_rank_2.cpp @@ -8377,11 +8413,11 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/symmetry_search/boost_python/symmetry_search_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/symmetry_search/boost_python/symmetry_search_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o cctbx/sgtbx/direct_space_asu/proto/tst_asu -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/sgtbx/direct_space_asu/proto/tst_asu.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lm g++ -o cctbx/translation_search/boost_python/fast_nv1995.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/translation_search/boost_python/fast_nv1995.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/translation_search/boost_python/fast_terms.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/translation_search/boost_python/fast_terms.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/sgtbx/direct_space_asu/proto/tst_asu -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/sgtbx/direct_space_asu/proto/tst_asu.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lm g++ -o cctbx/translation_search/boost_python/symmetry_flags.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/translation_search/boost_python/symmetry_flags.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/translation_search/boost_python/translation_search_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/translation_search/boost_python/translation_search_ext.cpp @@ -8395,11 +8431,17 @@ g++ -o cctbx/xray/boost_python/conversions.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/conversions.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/curvatures_simple.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/curvatures_simple.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/each_hkl_gradients_direct.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/each_hkl_gradients_direct.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/extinction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/extinction.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/xray/boost_python/f_model_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/f_model_bpl.cpp +g++ -o cctbx/xray/boost_python/fast_gradients.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/fast_gradients.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/xray/boost_python/gradient_flags.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/gradient_flags.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scattering_type_registry.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/curvatures_simple.h:4, @@ -8408,8 +8450,15 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -8421,6 +8470,7 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ +g++ -o cctbx/xray/boost_python/gradients_direct.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/gradients_direct.cpp /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); @@ -8431,6 +8481,7 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/uctbx.h:11, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/change_of_basis_op.h:6, @@ -8453,17 +8504,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ -g++ -o cctbx/xray/boost_python/fast_gradients.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/fast_gradients.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scatterer.h:5, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scattering_type_registry.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/gradients_direct.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/each_hkl_gradients_direct.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/each_hkl_gradients_direct.cpp:3: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -8485,6 +8525,8 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ +g++ -o cctbx/xray/boost_python/grouped_data.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/grouped_data.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/uctbx.h:11, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/change_of_basis_op.h:6, @@ -8507,14 +8549,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ -g++ -o cctbx/xray/boost_python/gradient_flags.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/gradient_flags.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o cctbx/xray/boost_python/gradients_direct.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/gradients_direct.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o cctbx/xray/boost_python/grouped_data.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/grouped_data.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o cctbx/xray/boost_python/minimization.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/minimization.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scattering_type_registry.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/sampling_base.h:4, @@ -8524,7 +8558,7 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: @@ -8611,14 +8645,8 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scatterer.h:5, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scattering_type_registry.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/gradients_direct.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/gradients_direct.cpp:3: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 100 | for (int i=0; i cctbx::xray::f_model_core_data::f_model_core_data::select(const scitbx::af::const_ref&) const [with FloatType = double]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/f_model_bpl.cpp:174:32: required from here 174 | .def("select", &w_t::select) @@ -8633,6 +8661,16 @@ | ^~~~~~~~~~~~ g++ -o cctbx/xray/boost_python/sampled_model_density.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/sampled_model_density.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/xray/boost_python/sampling_base.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/sampling_base.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scatterer.h:5, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scattering_type_registry.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/gradients_direct.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/gradients_direct.cpp:3: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -8676,38 +8714,16 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ +g++ -o cctbx/xray/boost_python/scatterer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/scatterer.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scatterer.h:5, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/minimization.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/minimization.cpp:8: + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scattering_type_registry.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/sampling_base.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/sampling_base.cpp:3: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ - 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); - | ^~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here - 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); - | ^ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 185 | for (int j = 0; j < tensor_t::size(); j++) { - | ~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ - 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); - | ^~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here - 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); - | ^ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 185 | for (int j = 0; j < tensor_t::size(); j++) { - | ~~^~~~~~~~~~~~~~~~~~ -g++ -o cctbx/xray/boost_python/sampling_base.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/sampling_base.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o cctbx/xray/boost_python/scatterer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/scatterer.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/parameter_map.cpp:10: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: @@ -8756,8 +8772,73 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:6: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ + 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); + | ^~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here + 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); + | ^ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 185 | for (int j = 0; j < tensor_t::size(); j++) { + | ~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ + 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); + | ^~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here + 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); + | ^ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 185 | for (int j = 0; j < tensor_t::size(); j++) { + | ~~^~~~~~~~~~~~~~~~~~ g++ -o cctbx/xray/boost_python/scatterer_flags.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/scatterer_flags.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scatterer.h:5, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/minimization.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/minimization.cpp:8: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 100 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 100 | for (int i=0; i::bic() [with FloatType = double]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/grouped_data.cpp:68:29: required from here + 68 | .def("bic", &w_t::bic) + | ^~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/grouped_data.h:257:30: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 257 | for (long int ii=0;ii::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ + 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); + | ^~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here + 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); + | ^ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 185 | for (int j = 0; j < tensor_t::size(); j++) { + | ~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ + 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); + | ^~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here + 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); + | ^ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 185 | for (int j = 0; j < tensor_t::size(); j++) { + | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -8779,6 +8860,15 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ +g++ -o cctbx/xray/boost_python/scattering_type_registry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/scattering_type_registry.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/grouped_data.h: In instantiation of ‘FloatType cctbx::xray::grouped_data::merger::r_abs() [with FloatType = double]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/grouped_data.cpp:69:31: required from here + 69 | .def("r_abs", &w_t::r_abs) + | ^~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/grouped_data.h:271:30: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 271 | for (long int ii=0;ii::init_scatterer_part(const scitbx::af::const_ref&) [with XRayScattererType = cctbx::xray::scatterer<>]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/parameter_map.h:54:7: required from ‘cctbx::xray::parameter_map::parameter_map(const scitbx::af::const_ref&) [with XRayScattererType = cctbx::xray::scatterer<>]’ @@ -8845,20 +8935,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/parameter_map.h:61:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref, scitbx::af::trivial_accessor>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 61 | for(int i_sc=0; i_sc < scatterers.size(); ++i_sc) { | ~~~~~^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/grouped_data.h: In instantiation of ‘FloatType cctbx::xray::grouped_data::merger::bic() [with FloatType = double]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/grouped_data.cpp:68:29: required from here - 68 | .def("bic", &w_t::bic) - | ^~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/grouped_data.h:257:30: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 257 | for (long int ii=0;ii::r_abs() [with FloatType = double]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/grouped_data.cpp:69:31: required from here - 69 | .def("r_abs", &w_t::r_abs) - | ^~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/grouped_data.h:271:30: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 271 | for (long int ii=0;ii cctbx::xray::grouped_data::merger::combine_obs(long int) [with FloatType = double]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/grouped_data.h:258:24: required from ‘FloatType cctbx::xray::grouped_data::merger::bic() [with FloatType = double]’ 258 | tmp_result = combine_obs( ii ); @@ -8872,7 +8948,28 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/grouped_data.h:231:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 231 | for (int ii=1;ii::small_plain(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small.h:50:33: required from ‘scitbx::af::small::small(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’ + 50 | : base_class(first, last) + | ^ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/eltbx/xray_scattering.h:155:11: required from ‘cctbx::eltbx::xray_scattering::gaussian cctbx::eltbx::xray_scattering::base::fetch() const [with long unsigned int N = 4]’ + 155 | small_t(entry_->a, entry_->a+N), + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scattering_type_registry.h:192:40: required from here + 191 | ugs[ui] = eltbx::xray_scattering::it1992( + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 192 | pair->first, exact).fetch(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] + 69 | if (N < last - first) throw_range_error(); + | ~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/grouped_data.h: In instantiation of ‘cctbx::xray::grouped_data::unmerged_data::unmerged_data(scitbx::af::const_ref >, scitbx::af::const_ref >, const cctbx::sgtbx::space_group&, const bool&) [with FloatType = double]’: /usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0, A1, A2, A3) [with A0 = boost::python::objects::reference_to_value >&>; A1 = boost::python::objects::reference_to_value >&>; A2 = boost::python::objects::reference_to_value; A3 = boost::python::objects::reference_to_value; Value = cctbx::xray::grouped_data::unmerged_data; PyObject = _object]’ 131 | PyObject* self BOOST_PP_COMMA_IF(N) BOOST_PP_ENUM_BINARY_PARAMS_Z(1, N, A, a)) @@ -9069,24 +9166,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/grouped_data.h:167:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 167 | for (int ii=0; ii::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 100 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -9108,28 +9187,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/uctbx.h:11, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/change_of_basis_op.h:6, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tr_group.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/space_group.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_constraints.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:4: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small.h:50:33: required from ‘scitbx::af::small::small(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’ - 50 | : base_class(first, last) - | ^ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/eltbx/xray_scattering.h:155:11: required from ‘cctbx::eltbx::xray_scattering::gaussian cctbx::eltbx::xray_scattering::base::fetch() const [with long unsigned int N = 4]’ - 155 | small_t(entry_->a, entry_->a+N), - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scattering_type_registry.h:192:40: required from here - 191 | ugs[ui] = eltbx::xray_scattering::it1992( - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 192 | pair->first, exact).fetch(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] - 69 | if (N < last - first) throw_range_error(); - | ~~^~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scatterer_utils.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/scatterer.cpp:3: @@ -9137,27 +9194,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ - 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); - | ^~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here - 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); - | ^ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 185 | for (int j = 0; j < tensor_t::size(); j++) { - | ~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ - 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); - | ^~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here - 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); - | ^ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 185 | for (int j = 0; j < tensor_t::size(); j++) { - | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/uctbx.h:11, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/change_of_basis_op.h:6, @@ -9215,12 +9251,23 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ +g++ -o cctbx/xray/boost_python/sigmaa.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/sigmaa.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/xray/boost_python/structure_factors_direct.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/structure_factors_direct.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/scatterer_flags.cpp:7: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -9242,6 +9289,8 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ +g++ -o cctbx/xray/boost_python/structure_factors_simple.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/structure_factors_simple.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/assert.hpp:58, from /usr/include/boost/smart_ptr/shared_array.hpp:23, from /usr/include/boost/shared_array.hpp:17, @@ -9270,14 +9319,7 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scatterer.h:5, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scattering_type_registry.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/scattering_type_registry.cpp:3: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 100 | for (int i=0; i class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -9302,9 +9344,6 @@ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ -g++ -o cctbx/xray/boost_python/structure_factors_direct.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/structure_factors_direct.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o cctbx/xray/boost_python/structure_factors_simple.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/structure_factors_simple.cpp In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -9326,6 +9365,9 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ +g++ -o cctbx/xray/boost_python/twin_components.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/twin_components.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/xray/boost_python/twin_targets.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/twin_targets.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/uctbx.h:11, @@ -9349,18 +9391,11 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ -g++ -o cctbx/xray/boost_python/targets.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/targets.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o cctbx/xray/boost_python/twin_components.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/twin_components.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o cctbx/xray/boost_python/twin_targets.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/twin_targets.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/xray_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/xray_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/observations/boost_python/observations.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/observations/boost_python/observations.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/observations/boost_python/observations_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/observations/boost_python/observations_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/sigmaa.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/sigmaa.cpp:8: @@ -9368,6 +9403,7 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -9397,6 +9433,8 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ - 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); - | ^~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here - 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); - | ^ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 185 | for (int j = 0; j < tensor_t::size(); j++) { - | ~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ - 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); - | ^~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here - 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); - | ^ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 185 | for (int j = 0; j < tensor_t::size(); j++) { - | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -9471,6 +9486,29 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ +g++ -o chiltbx/handle_test.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/chiltbx/handle_test.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:6: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ + 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); + | ^~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here + 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); + | ^ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 185 | for (int j = 0; j < tensor_t::size(); j++) { + | ~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ + 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); + | ^~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here + 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); + | ^ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 185 | for (int j = 0; j < tensor_t::size(); j++) { + | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/uctbx.h:11, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/change_of_basis_op.h:6, @@ -9493,7 +9531,8 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ -g++ -o chiltbx/handle_test.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/chiltbx/handle_test.cpp +g++ -o chiltbx/handle_test -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread chiltbx/handle_test.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system +g++ -o cma_es/cma/cmaes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cma_es/cma/cmaes.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/assert.hpp:58, from /usr/include/boost/smart_ptr/shared_ptr.hpp:25, @@ -9554,9 +9593,45 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -g++ -o chiltbx/handle_test -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread chiltbx/handle_test.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -g++ -o cma_es/cma/cmaes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cma_es/cma/cmaes.cpp +g++ -o cma_es/cma_es_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cma_es/cma_es_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/io.hpp:8, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/close_chain.hpp:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/common.hpp:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/read.hpp:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/major_types.hpp:6, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem.hpp:10, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/targets/shelxl_wght_ls.hpp:1, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/targets/shelxl_wght_ls_bpl.cpp:23: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/simple_streams.hpp: In member function ‘virtual void fem::utils::simple_ostream_to_char_ptr_and_size::put(char)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/simple_streams.hpp:63:13: warning: comparison of integer expressions of different signedness: ‘fem::ssize_t’ {aka ‘long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 63 | if (i < sz) s[i++] = c; + | ~~^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/common.hpp: In member function ‘void fem::common::getarg(int, fem::str_ref) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/common.hpp:40:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 40 | if (pos < 0 || pos >= command_line_args.buffer.size()) { + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/string_to_double_fmt.hpp:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/read.hpp:9: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/string_to_double.hpp: In member function ‘void fem::utils::string_to_double::convert(fem::utils::simple_istream&, unsigned int, int)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/string_to_double.hpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] + 115 | if (dexp <= ad_hoc_limits::max_digit_count) { + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/read.hpp: In member function ‘double fem::read_loop::read_fmt_double()’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/read.hpp:653:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 653 | if (iw+1 != ed.size()) { + | ~~~~~^~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/variant.hpp:5, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/major_types.hpp:7: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/equivalence.hpp: In member function ‘void fem::utils::equivalence::array_alignment::infer_diffs0_from_diff_matrix()’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/equivalence.hpp:93:28: warning: comparison of integer expressions of different signedness: ‘const fem::ssize_t’ {aka ‘const long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 93 | if (c0e[0] == i0) { + | ~~~~~~~^~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/major_types.hpp:8: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/write.hpp: In destructor ‘fem::write_loop::~write_loop()’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/write.hpp:704:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] + 704 | while (pos < internal_file_len) { + | ~~~~^~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/miller/match_indices.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/miller/lookup_utils.h:11, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/twin_targets.h:14, @@ -9599,6 +9674,8 @@ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +g++ -o dxtbx/src/dxtbx/boost_python/compression.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/compression.cc +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/twin_targets.h: In instantiation of ‘scitbx::af::shared cctbx::xray::twin_targets::twin_completion::get_free_model_selection(scitbx::af::const_ref >, const scitbx::af::const_ref&) [with FloatType = double]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/boost_python/twin_targets.cpp:42:50: required from here 42 | .def("get_free_model_selection", &w_t::get_free_model_selection) @@ -9799,9 +9876,28 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/twin_targets.h:948:17: note: in expansion of macro ‘CCTBX_ASSERT’ 948 | CCTBX_ASSERT(f_model.size() > loc_twin_calc); // XXX trap for long standing seg. fault bug | ^~~~~~~~~~~~ -g++ -o cma_es/cma_es_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cma_es/cma_es_ext.cpp +g++ -o dxtbx/src/dxtbx/boost_python/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o dxtbx/src/dxtbx/boost_python/compression.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/compression.cc +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/compression.cc: In function ‘unsigned int dxtbx::boost_python::cbf_decompress(const char*, std::size_t, int*, std::size_t)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:124:50: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 124 | while ((j < packed_sz) && ((values - original) < values_sz)) { + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/compression.cc: In function ‘void dxtbx::boost_python::rod_TY6_decompress(int*, const char*, const char*, int, int)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:204:26: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] + 204 | for (size_t iy = 0; iy < slow; iy++) { + | ~~~^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:225:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] + 225 | for (int k = 0; k < nblock; k++) { + | ~~^~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:251:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] + 251 | for (int j = 0; j < nbit; j++) { + | ~~^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:258:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] + 258 | for (int j = 0; j < BLOCKSIZE; j++) { + | ~~^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:279:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] + 279 | for (int i = 0; i < nrest; i++) { + | ~~^~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/twin_targets.h: In instantiation of ‘cctbx::xray::twin_targets::hemihedral_r_values::hemihedral_r_values(const scitbx::af::const_ref >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&) [with FloatType = double]’: /usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0, A1, A2, A3, A4) [with A0 = boost::python::objects::reference_to_value >&>; A1 = boost::python::objects::reference_to_value >&>; A2 = boost::python::objects::reference_to_value; A3 = boost::python::objects::reference_to_value; A4 = boost::python::objects::reference_to_value&>; Value = cctbx::xray::twin_targets::hemihedral_r_values; PyObject = _object]’ 131 | PyObject* self BOOST_PP_COMMA_IF(N) BOOST_PP_ENUM_BINARY_PARAMS_Z(1, N, A, a)) @@ -9896,7 +9992,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/twin_targets.h:544:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 544 | for (long ii=0;ii::refine(const FloatType&) [with FloatType = double]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/quadrature.h:523:14: required from ‘scitbx::math::quadrature::gauss_legendre_engine::gauss_legendre_engine(const int&) [with FloatType = double]’ @@ -9987,77 +10082,20 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/quadrature.h:546:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 546 | for (int ii=0;ii >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 40 | if (pos < 0 || pos >= command_line_args.buffer.size()) { - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/string_to_double_fmt.hpp:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/read.hpp:9: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/string_to_double.hpp: In member function ‘void fem::utils::string_to_double::convert(fem::utils::simple_istream&, unsigned int, int)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/string_to_double.hpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] - 115 | if (dexp <= ad_hoc_limits::max_digit_count) { - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/read.hpp: In member function ‘double fem::read_loop::read_fmt_double()’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/read.hpp:653:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 653 | if (iw+1 != ed.size()) { - | ~~~~~^~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/variant.hpp:5, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/major_types.hpp:7: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/equivalence.hpp: In member function ‘void fem::utils::equivalence::array_alignment::infer_diffs0_from_diff_matrix()’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/equivalence.hpp:93:28: warning: comparison of integer expressions of different signedness: ‘const fem::ssize_t’ {aka ‘const long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 93 | if (c0e[0] == i0) { - | ~~~~~~~^~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/compression.cc: In function ‘unsigned int dxtbx::boost_python::cbf_decompress(const char*, std::size_t, int*, std::size_t)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:124:50: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 124 | while ((j < packed_sz) && ((values - original) < values_sz)) { - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/compression.cc: In function ‘void dxtbx::boost_python::rod_TY6_decompress(int*, const char*, const char*, int, int)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:204:26: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] - 204 | for (size_t iy = 0; iy < slow; iy++) { - | ~~~^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:225:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] - 225 | for (int k = 0; k < nblock; k++) { - | ~~^~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:251:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] - 251 | for (int j = 0; j < nbit; j++) { - | ~~^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:258:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] - 258 | for (int j = 0; j < BLOCKSIZE; j++) { - | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:279:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] - 279 | for (int i = 0; i < nrest; i++) { - | ~~^~~~~~~ -g++ -o dxtbx/src/dxtbx/boost_python/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/ext.cpp -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/major_types.hpp:8: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/write.hpp: In destructor ‘fem::write_loop::~write_loop()’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/write.hpp:704:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] - 704 | while (pos < internal_file_len) { - | ~~~~^~~~~~~~~~~~~~~~~~~ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/boost_python/flumpy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/boost_python/imageset_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/format/boost_python/cbf_read_buffer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/format/boost_python/cbf_read_buffer.cpp -g++ -o dxtbx/src/dxtbx/format/boost_python/image_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o dxtbx/src/dxtbx/format/boost_python/image_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/format/boost_python/nexus_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/format/boost_python/nexus_ext.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/masking/boost_python/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/boost_python/ext.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o dxtbx/src/dxtbx/model/boost_python/beam.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, @@ -10077,8 +10115,9 @@ 219 | for (std::size_t y = upper_left[1]; y < lower_right[1]; y++) { /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/ext.cpp:220:45: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 220 | for (std::size_t x = upper_left[0]; x < lower_right[0]; x++) { -g++ -o dxtbx/src/dxtbx/model/boost_python/beam.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/format/boost_python/cbf_read_buffer.cpp:10:1: warning: ‘typedef’ was ignored in this declaration + 10 | typedef struct cbf_handle_struct; + | ^~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘std::shared_ptr > dxtbx::format::boost_python::make_image_from_tuple(boost::python::tuple) [with T = bool]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:125:40: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = bool]’ 125 | .def("__init__", make_constructor(&make_image_from_tuple)) @@ -10146,6 +10185,57 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:98:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 98 | for (std::size_t i = 0; i < boost::python::len(tile_list); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:17: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] + 562 | double wavelength_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] + 551 | vec3 direction_; + | ^~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] + 93 | Beam() + | ^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] + 562 | double wavelength_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] + 552 | double divergence_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] + 126 | Beam(vec3 direction, double wavelength) + | ^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] + 562 | double wavelength_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] + 552 | double divergence_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] + 165 | Beam(vec3 direction, + | ^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] + 562 | double wavelength_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] + 552 | double divergence_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] + 193 | Beam(vec3 direction, + | ^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] + 562 | double wavelength_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] + 552 | double divergence_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] + 227 | Beam(vec3 direction, + | ^~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘static void dxtbx::format::boost_python::ImagePickleSuite::setstate(dxtbx::format::Image&, boost::python::tuple) [with T = int]’: /usr/include/boost/python/class.hpp:345:9: required from ‘boost::python::class_::self& boost::python::class_::def_pickle(const PickleSuiteType&) [with PickleSuiteType = dxtbx::format::boost_python::ImagePickleSuite; W = dxtbx::format::Image; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 345 | &PickleSuiteType::setstate, @@ -10183,6 +10273,13 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:98:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 98 | for (std::size_t i = 0; i < boost::python::len(tile_list); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] + 760 | return scitbx::af::shared >(1, (0., 0., 0.)); + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] + 760 | return scitbx::af::shared >(1, (0., 0., 0.)); + | ^~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘static void dxtbx::format::boost_python::ImagePickleSuite::setstate(dxtbx::format::Image&, boost::python::tuple) [with T = double]’: /usr/include/boost/python/class.hpp:345:9: required from ‘boost::python::class_::self& boost::python::class_::def_pickle(const PickleSuiteType&) [with PickleSuiteType = dxtbx::format::boost_python::ImagePickleSuite; W = dxtbx::format::Image; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 345 | &PickleSuiteType::setstate, @@ -10220,9 +10317,92 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:98:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 98 | for (std::size_t i = 0; i < boost::python::len(tile_list); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/format/boost_python/cbf_read_buffer.cpp:10:1: warning: ‘typedef’ was ignored in this declaration - 10 | typedef struct cbf_handle_struct; - | ^~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:22, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/detector.h:25, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:18, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:18: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:367:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 367 | for (std::size_t y = y0; y < y1; ++y) { + | ~~^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:368:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 368 | for (std::size_t x = x0; x < x1; ++x) { + | ~~^~~~ +g++ -o dxtbx/src/dxtbx/model/boost_python/crystal.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:22, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:20: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 89 | for (std::size_t i = 0; i < n_angles; ++i) { + | ~~^~~~~~~~~~ +g++ -o dxtbx/src/dxtbx/model/boost_python/detector.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/vec3.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:17: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >&, int)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:148:44: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 148 | DXTBX_ASSERT(properties_table.size() == num_images_); + | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:148:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 148 | DXTBX_ASSERT(properties_table.size() == num_images_); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_properties(dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:242:37: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 242 | DXTBX_ASSERT(new_table.size() == num_images_); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:242:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 242 | DXTBX_ASSERT(new_table.size() == num_images_); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_oscillation(scitbx::vec2)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:397:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 397 | for (std::size_t i = 0; i < num_images_; ++i) { + | ~~^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:411:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:411:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:417:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 417 | DXTBX_ASSERT(epochs.size() == num_images_); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 417 | DXTBX_ASSERT(epochs.size() == num_images_); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 556 | DXTBX_ASSERT(properties_.size() == num_images_); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 556 | DXTBX_ASSERT(properties_.size() == num_images_); + | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = bool; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:247:31: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 247 | return get_buffer_specific(obj); @@ -10236,6 +10416,22 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc: In function ‘void dxtbx::model::boost_python::beam_detail::Beam_set_s0_at_scan_points_from_tuple(dxtbx::model::Beam&, boost::python::tuple)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:209:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 209 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc: In function ‘void dxtbx::model::boost_python::beam_detail::Beam_set_s0_at_scan_points_from_list(dxtbx::model::Beam&, boost::python::list)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:219:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 219 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc: In static member function ‘static boost::python::tuple dxtbx::model::boost_python::PolychromaticBeamPickleSuite::getstate(boost::python::api::object)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:302:32: warning: unused variable ‘beam’ [-Wunused-variable] + 302 | const PolychromaticBeam &beam = + | ^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc: In static member function ‘static void dxtbx::model::boost_python::PolychromaticBeamPickleSuite::setstate(boost::python::api::object, boost::python::tuple)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:308:26: warning: unused variable ‘beam’ [-Wunused-variable] + 308 | PolychromaticBeam &beam = boost::python::extract(obj)(); + | ^~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = long unsigned int; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:247:31: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 247 | return get_buffer_specific(obj); @@ -10252,6 +10448,65 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h:24, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:9: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] + 562 | double wavelength_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] + 551 | vec3 direction_; + | ^~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] + 93 | Beam() + | ^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] + 562 | double wavelength_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] + 552 | double divergence_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] + 126 | Beam(vec3 direction, double wavelength) + | ^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] + 562 | double wavelength_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] + 552 | double divergence_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] + 165 | Beam(vec3 direction, + | ^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] + 562 | double wavelength_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] + 552 | double divergence_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] + 193 | Beam(vec3 direction, + | ^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] + 562 | double wavelength_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] + 552 | double divergence_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] + 227 | Beam(vec3 direction, + | ^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] + 760 | return scitbx::af::shared >(1, (0., 0., 0.)); + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] + 760 | return scitbx::af::shared >(1, (0., 0., 0.)); + | ^~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = unsigned char; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); @@ -10266,8 +10521,44 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ -g++ -o dxtbx/src/dxtbx/model/boost_python/crystal.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:22, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/detector.h:25, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h:25: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:367:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 367 | for (std::size_t y = y0; y < y1; ++y) { + | ~~^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:368:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 368 | for (std::size_t x = x0; x < x1; ++x) { + | ~~^~~~ +g++ -o dxtbx/src/dxtbx/model/boost_python/experiment.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/experiment.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:22, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h:27: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 89 | for (std::size_t i = 0; i < n_angles; ++i) { + | ~~^~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = short unsigned int; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); @@ -10282,6 +10573,8 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ +g++ -o dxtbx/src/dxtbx/model/boost_python/experiment_list.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = unsigned int; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); @@ -10338,6 +10631,27 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:31, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:6: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >&, int)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:148:44: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 148 | DXTBX_ASSERT(properties_table.size() == num_images_); + | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:148:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 148 | DXTBX_ASSERT(properties_table.size() == num_images_); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_properties(dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:242:37: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 242 | DXTBX_ASSERT(new_table.size() == num_images_); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:242:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 242 | DXTBX_ASSERT(new_table.size() == num_images_); + | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = short int; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); @@ -10352,6 +10666,24 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_oscillation(scitbx::vec2)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:397:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 397 | for (std::size_t i = 0; i < num_images_; ++i) { + | ~~^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:411:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:411:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:417:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 417 | DXTBX_ASSERT(epochs.size() == num_images_); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 417 | DXTBX_ASSERT(epochs.size() == num_images_); + | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = float; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); @@ -10408,6 +10740,13 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:90:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 90 | for (int j = i + 1; j < dim_sizes.size(); ++j) { | ~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 556 | DXTBX_ASSERT(properties_.size() == num_images_); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 556 | DXTBX_ASSERT(properties_.size() == num_images_); + | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid >) [with T = double; grid > = scitbx::af::versa, scitbx::af::flex_grid<> >]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); @@ -10478,8 +10817,8 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:115:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 115 | for (int j = i + 1; j < dim_sizes.size(); ++j) { | ~~^~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h:24, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:9: +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/masking.h:16, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/boost_python/ext.cc:3: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; @@ -10538,8 +10877,7 @@ 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:22, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/detector.h:25, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h:25: + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/masking.h:17: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; @@ -10567,124 +10905,53 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:368:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 368 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:22, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h:27: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 89 | for (std::size_t i = 0; i < n_angles; ++i) { - | ~~^~~~~~~~~~ -g++ -o dxtbx/src/dxtbx/model/boost_python/detector.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:31, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:6: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >&, int)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:148:44: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 148 | DXTBX_ASSERT(properties_table.size() == num_images_); - | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:148:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 148 | DXTBX_ASSERT(properties_table.size() == num_images_); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_properties(dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:242:37: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 242 | DXTBX_ASSERT(new_table.size() == num_images_); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:242:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 242 | DXTBX_ASSERT(new_table.size() == num_images_); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_oscillation(scitbx::vec2)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:397:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 397 | for (std::size_t i = 0; i < num_images_; ++i) { - | ~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:411:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:411:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:417:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 417 | DXTBX_ASSERT(epochs.size() == num_images_); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 417 | DXTBX_ASSERT(epochs.size() == num_images_); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 556 | DXTBX_ASSERT(properties_.size() == num_images_); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 556 | DXTBX_ASSERT(properties_.size() == num_images_); - | ^~~~~~~~~~~~ -g++ -o dxtbx/src/dxtbx/model/boost_python/experiment.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/experiment.cc +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/masking.h: In function ‘void dxtbx::masking::mask_untrusted_circle(scitbx::af::ref >, double, double, double)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/masking.h:79:32: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 79 | for (std::size_t j = y0; j < y1; ++j) { + | ~~^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/masking.h:80:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 80 | for (std::size_t i = x0; i < x1; ++i) { + | ~~^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/masking.h: In function ‘void dxtbx::masking::mask_untrusted_polygon(scitbx::af::ref >, const scitbx::af::const_ref >&)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/masking.h:143:32: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 143 | for (std::size_t j = y0; j < y1; ++j) { + | ~~^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/masking.h:144:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 144 | for (std::size_t i = x0; i < x1; ++i) { + | ~~^~~~ +g++ -o dxtbx/src/dxtbx/model/boost_python/goniometer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/goniometer.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:17: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] - 562 | double wavelength_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] - 551 | vec3 direction_; - | ^~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] - 93 | Beam() - | ^~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] - 562 | double wavelength_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] - 552 | double divergence_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] - 126 | Beam(vec3 direction, double wavelength) - | ^~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] - 562 | double wavelength_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] - 552 | double divergence_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] - 165 | Beam(vec3 direction, - | ^~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] - 562 | double wavelength_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] - 552 | double divergence_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] - 193 | Beam(vec3 direction, - | ^~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] - 562 | double wavelength_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] - 552 | double divergence_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] - 227 | Beam(vec3 direction, - | ^~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] - 760 | return scitbx::af::shared >(1, (0., 0., 0.)); - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] - 760 | return scitbx::af::shared >(1, (0., 0., 0.)); - | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc: In function ‘void dxtbx::model::boost_python::Crystal_set_A_at_scan_points_from_tuple(dxtbx::model::CrystalBase&, boost::python::tuple)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc:119:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 119 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc: In function ‘void dxtbx::model::boost_python::Crystal_set_A_at_scan_points_from_list(dxtbx::model::CrystalBase&, boost::python::list)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc:129:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 129 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc: In function ‘void dxtbx::model::boost_python::Crystal_set_B_covariance_from_tuple(dxtbx::model::CrystalBase&, boost::python::api::object)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc:141:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 141 | for (std::size_t i = 0; i < boost::python::len(obj); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/goniometer_shadow_masking.h:12, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h:30: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/masking.h: In function ‘void dxtbx::masking::mask_untrusted_circle(scitbx::af::ref >, double, double, double)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/masking.h:79:32: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 79 | for (std::size_t j = y0; j < y1; ++j) { + | ~~^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/masking.h:80:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 80 | for (std::size_t i = x0; i < x1; ++i) { + | ~~^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/masking.h: In function ‘void dxtbx::masking::mask_untrusted_polygon(scitbx::af::ref >, const scitbx::af::const_ref >&)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/masking.h:143:32: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 143 | for (std::size_t j = y0; j < y1; ++j) { + | ~~^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/masking.h:144:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 144 | for (std::size_t i = x0; i < x1; ++i) { + | ~~^~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/detector.h:25, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:18, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:18: + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:22: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; @@ -10712,14 +10979,8 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:368:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 368 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:22, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:20: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 89 | for (std::size_t i = 0; i < n_angles; ++i) { - | ~~^~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/masking.h:16, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/boost_python/ext.cc:3: +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:16, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:23: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; @@ -10770,6 +11031,10 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] 227 | Beam(vec3 direction, | ^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h: In member function ‘dxtbx::format::ImageBuffer dxtbx::ImageSet::get_raw_data(std::size_t)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h:648:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 648 | if (data_cache_.index == index) { + | ~~~~~~~~~~~~~~~~~~^~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); @@ -10777,134 +11042,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ -g++ -o dxtbx/src/dxtbx/model/boost_python/experiment_list.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:22, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/masking.h:17: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:367:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 367 | for (std::size_t y = y0; y < y1; ++y) { - | ~~^~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:368:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 368 | for (std::size_t x = x0; x < x1; ++x) { - | ~~^~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/masking.h: In function ‘void dxtbx::masking::mask_untrusted_circle(scitbx::af::ref >, double, double, double)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/masking.h:79:32: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 79 | for (std::size_t j = y0; j < y1; ++j) { - | ~~^~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/masking.h:80:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 80 | for (std::size_t i = x0; i < x1; ++i) { - | ~~^~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/masking.h: In function ‘void dxtbx::masking::mask_untrusted_polygon(scitbx::af::ref >, const scitbx::af::const_ref >&)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/masking.h:143:32: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 143 | for (std::size_t j = y0; j < y1; ++j) { - | ~~^~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/masking.h:144:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 144 | for (std::size_t i = x0; i < x1; ++i) { - | ~~^~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/vec3.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:17: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >&, int)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:148:44: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 148 | DXTBX_ASSERT(properties_table.size() == num_images_); - | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:148:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 148 | DXTBX_ASSERT(properties_table.size() == num_images_); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_properties(dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:242:37: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 242 | DXTBX_ASSERT(new_table.size() == num_images_); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:242:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 242 | DXTBX_ASSERT(new_table.size() == num_images_); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_oscillation(scitbx::vec2)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:397:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 397 | for (std::size_t i = 0; i < num_images_; ++i) { - | ~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:411:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:411:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:417:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 417 | DXTBX_ASSERT(epochs.size() == num_images_); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 417 | DXTBX_ASSERT(epochs.size() == num_images_); - | ^~~~~~~~~~~~ -g++ -o dxtbx/src/dxtbx/model/boost_python/goniometer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/goniometer.cc -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 556 | DXTBX_ASSERT(properties_.size() == num_images_); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 556 | DXTBX_ASSERT(properties_.size() == num_images_); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc: In function ‘void dxtbx::model::boost_python::beam_detail::Beam_set_s0_at_scan_points_from_tuple(dxtbx::model::Beam&, boost::python::tuple)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:209:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 209 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc: In function ‘void dxtbx::model::boost_python::beam_detail::Beam_set_s0_at_scan_points_from_list(dxtbx::model::Beam&, boost::python::list)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:219:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 219 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc: In static member function ‘static boost::python::tuple dxtbx::model::boost_python::PolychromaticBeamPickleSuite::getstate(boost::python::api::object)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:302:32: warning: unused variable ‘beam’ [-Wunused-variable] - 302 | const PolychromaticBeam &beam = - | ^~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc: In static member function ‘static void dxtbx::model::boost_python::PolychromaticBeamPickleSuite::setstate(boost::python::api::object, boost::python::tuple)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:308:26: warning: unused variable ‘beam’ [-Wunused-variable] - 308 | PolychromaticBeam &beam = boost::python::extract(obj)(); - | ^~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/goniometer_shadow_masking.h:12, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h:30: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/masking.h: In function ‘void dxtbx::masking::mask_untrusted_circle(scitbx::af::ref >, double, double, double)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/masking.h:79:32: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 79 | for (std::size_t j = y0; j < y1; ++j) { - | ~~^~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/masking.h:80:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 80 | for (std::size_t i = x0; i < x1; ++i) { - | ~~^~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/masking.h: In function ‘void dxtbx::masking::mask_untrusted_polygon(scitbx::af::ref >, const scitbx::af::const_ref >&)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/masking.h:143:32: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 143 | for (std::size_t j = y0; j < y1; ++j) { - | ~~^~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/masking/masking.h:144:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 144 | for (std::size_t i = x0; i < x1; ++i) { - | ~~^~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h: In member function ‘dxtbx::format::ImageBuffer dxtbx::ImageSet::get_raw_data(std::size_t)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h:648:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 648 | if (data_cache_.index == index) { - | ~~~~~~~~~~~~~~~~~~^~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h: In member function ‘dxtbx::format::Image dxtbx::ImageSet::get_raw_data_as_double(std::size_t)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h:1116:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 1116 | if (double_raw_data_cache_.index == index) { @@ -10943,6 +11080,12 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h:1277:26: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 1277 | if (indices.size() != scan->get_num_images()) { | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:22, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:20: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 89 | for (std::size_t i = 0; i < n_angles; ++i) { + | ~~^~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h: In member function ‘void dxtbx::ImageSequence::set_scan(const dxtbx::ImageSet::scan_ptr&)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h:1399:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 1399 | if (scan->get_num_images() != size()) { @@ -10953,139 +11096,9 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h:1415:5: note: in expansion of macro ‘DXTBX_ASSERT’ 1415 | DXTBX_ASSERT(scan->get_num_images() == size()); | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc: In function ‘void dxtbx::model::boost_python::Crystal_set_A_at_scan_points_from_tuple(dxtbx::model::CrystalBase&, boost::python::tuple)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc:119:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 119 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc: In function ‘void dxtbx::model::boost_python::Crystal_set_A_at_scan_points_from_list(dxtbx::model::CrystalBase&, boost::python::list)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc:129:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 129 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc: In function ‘void dxtbx::model::boost_python::Crystal_set_B_covariance_from_tuple(dxtbx::model::CrystalBase&, boost::python::api::object)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc:141:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 141 | for (std::size_t i = 0; i < boost::python::len(obj); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ g++ -o dxtbx/src/dxtbx/model/boost_python/kappa_goniometer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/kappa_goniometer.cc -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h: In instantiation of ‘dxtbx::format::Image dxtbx::ImageSetData::get_image_from_tuple(boost::python::tuple) [with T = double]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h:469:56: required from here - 469 | buffer = ImageBuffer(get_image_from_tuple(obj)); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h:502:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 502 | for (std::size_t i = 0; i < boost::python::len(obj); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h: In instantiation of ‘dxtbx::format::Image dxtbx::ImageSetData::get_image_from_tuple(boost::python::tuple) [with T = float]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h:471:55: required from here - 471 | buffer = ImageBuffer(get_image_from_tuple(obj)); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h:502:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 502 | for (std::size_t i = 0; i < boost::python::len(obj); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h: In instantiation of ‘dxtbx::format::Image dxtbx::ImageSetData::get_image_from_tuple(boost::python::tuple) [with T = int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h:473:53: required from here - 473 | buffer = ImageBuffer(get_image_from_tuple(obj)); - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h:502:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 502 | for (std::size_t i = 0; i < boost::python::len(obj); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::BeamBase; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:249:56: required from here - 249 | ImageSetDataPickleSuite::set_model_list( - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ - 250 | obj, - | ~~~~ - 251 | boost::python::extract(models[0])(), - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 252 | &ImageSetData::set_beam); - | ~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:231:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 231 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:235:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 235 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::Detector; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:253:56: required from here - 253 | ImageSetDataPickleSuite::set_model_list( - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ - 254 | obj, - | ~~~~ - 255 | boost::python::extract(models[1]), - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 256 | &ImageSetData::set_detector); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:231:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 231 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:235:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 235 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::Goniometer; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:257:58: required from here - 257 | ImageSetDataPickleSuite::set_model_list( - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ - 258 | obj, - | ~~~~ - 259 | boost::python::extract(models[2]), - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 260 | &ImageSetData::set_goniometer); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:231:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 231 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:235:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 235 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::Scan; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:261:52: required from here - 261 | ImageSetDataPickleSuite::set_model_list( - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ - 262 | obj, - | ~~~~ - 263 | boost::python::extract(models[3]), - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 264 | &ImageSetData::set_scan); - | ~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:231:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 231 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:235:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 235 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o dxtbx/src/dxtbx/model/boost_python/model_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/model_ext.cc -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:22, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/detector.h:25, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:22: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:367:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 367 | for (std::size_t y = y0; y < y1; ++y) { - | ~~^~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:368:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 368 | for (std::size_t x = x0; x < x1; ++x) { - | ~~^~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:16, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:23: +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/experiment.h:22, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/experiment.cc:17: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; @@ -11110,6 +11123,7 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ @@ -11143,12 +11157,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:22, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:20: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 89 | for (std::size_t i = 0; i < n_angles; ++i) { - | ~~^~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/flex_types.h:6, @@ -11186,72 +11194,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/experiment.h:22, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/experiment.cc:17: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] - 562 | double wavelength_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] - 551 | vec3 direction_; - | ^~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] - 93 | Beam() - | ^~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] - 562 | double wavelength_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] - 552 | double divergence_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] - 126 | Beam(vec3 direction, double wavelength) - | ^~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] - 562 | double wavelength_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] - 552 | double divergence_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] - 165 | Beam(vec3 direction, - | ^~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] - 562 | double wavelength_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] - 552 | double divergence_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] - 193 | Beam(vec3 direction, - | ^~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] - 562 | double wavelength_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] - 552 | double divergence_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] - 227 | Beam(vec3 direction, - | ^~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] - 760 | return scitbx::af::shared >(1, (0., 0., 0.)); - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] - 760 | return scitbx::af::shared >(1, (0., 0., 0.)); - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 556 | DXTBX_ASSERT(properties_.size() == num_images_); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 556 | DXTBX_ASSERT(properties_.size() == num_images_); - | ^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/experiment.h:23: @@ -11279,9 +11221,107 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:367:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 367 | for (std::size_t y = y0; y < y1; ++y) { | ~~^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 556 | DXTBX_ASSERT(properties_.size() == num_images_); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 556 | DXTBX_ASSERT(properties_.size() == num_images_); + | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:368:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 368 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h: In instantiation of ‘dxtbx::format::Image dxtbx::ImageSetData::get_image_from_tuple(boost::python::tuple) [with T = double]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h:469:56: required from here + 469 | buffer = ImageBuffer(get_image_from_tuple(obj)); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h:502:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 502 | for (std::size_t i = 0; i < boost::python::len(obj); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h: In instantiation of ‘dxtbx::format::Image dxtbx::ImageSetData::get_image_from_tuple(boost::python::tuple) [with T = float]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h:471:55: required from here + 471 | buffer = ImageBuffer(get_image_from_tuple(obj)); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h:502:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 502 | for (std::size_t i = 0; i < boost::python::len(obj); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h: In instantiation of ‘dxtbx::format::Image dxtbx::ImageSetData::get_image_from_tuple(boost::python::tuple) [with T = int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h:473:53: required from here + 473 | buffer = ImageBuffer(get_image_from_tuple(obj)); + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/imageset.h:502:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 502 | for (std::size_t i = 0; i < boost::python::len(obj); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:22, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/experiment.h:25: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 89 | for (std::size_t i = 0; i < n_angles; ++i) { + | ~~^~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::BeamBase; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:249:56: required from here + 249 | ImageSetDataPickleSuite::set_model_list( + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ + 250 | obj, + | ~~~~ + 251 | boost::python::extract(models[0])(), + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 252 | &ImageSetData::set_beam); + | ~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:231:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 231 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:235:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 235 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::Detector; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:253:56: required from here + 253 | ImageSetDataPickleSuite::set_model_list( + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ + 254 | obj, + | ~~~~ + 255 | boost::python::extract(models[1]), + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 256 | &ImageSetData::set_detector); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:231:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 231 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:235:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 235 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::Goniometer; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:257:58: required from here + 257 | ImageSetDataPickleSuite::set_model_list( + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ + 258 | obj, + | ~~~~ + 259 | boost::python::extract(models[2]), + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 260 | &ImageSetData::set_goniometer); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:231:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 231 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:235:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 235 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::Scan; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:261:52: required from here + 261 | ImageSetDataPickleSuite::set_model_list( + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ + 262 | obj, + | ~~~~ + 263 | boost::python::extract(models[3]), + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 264 | &ImageSetData::set_scan); + | ~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:231:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 231 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:235:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 235 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc: In function ‘void dxtbx::model::boost_python::detector_detail::node_from_dict(boost::python::dict, dxtbx::model::Detector::Node*, boost::python::list, scitbx::af::ref)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:88:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 88 | DXTBX_ASSERT(used.size() == boost::python::len(panels)); @@ -11298,12 +11338,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:100:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 100 | for (std::size_t i = 0; i < boost::python::len(obj["children"]); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:22, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/experiment.h:25: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 89 | for (std::size_t i = 0; i < n_angles; ++i) { - | ~~^~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc: In function ‘dxtbx::model::Detector* dxtbx::model::boost_python::detector_detail::detector_from_dict(dxtbx::model::Detector*, boost::python::dict)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:124:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 124 | for (std::size_t i = 0; i < boost::python::len(hierarchy["children"]); ++i) { @@ -11515,6 +11549,28 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘dxtbx::model::ExperimentList* dxtbx::model::boost_python::make_experiment_list(boost::python::api::object)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:30:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 30 | for (std::size_t i = 0; i < boost::python::len(items); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘void dxtbx::model::boost_python::experiment_list_setitem(dxtbx::model::ExperimentList&, int, dxtbx::model::Experiment)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:174:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 174 | if (n >= self.size() || n < 0) { + | ~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘dxtbx::model::Experiment& dxtbx::model::boost_python::experiment_list_getitem(dxtbx::model::ExperimentList&, int)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:184:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 184 | if (n >= self.size() || n < 0) { + | ~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘dxtbx::model::ExperimentList dxtbx::model::boost_python::experiment_list_getitem_slice(const dxtbx::model::ExperimentList&, boost::python::slice)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:193:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] + 193 | for (std::size_t i = as.start; i < as.stop && i < self.size(); i += as.step) { + | ~~^~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘void dxtbx::model::boost_python::experiment_list_delitem(dxtbx::model::ExperimentList&, int)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:203:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 203 | if (n >= self.size() || n < 0) { + | ~~^~~~~~~~~~~~~~ +g++ -o dxtbx/src/dxtbx/model/boost_python/model_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/model_ext.cc +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:16, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/goniometer.cc:20: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: @@ -11574,26 +11630,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘dxtbx::model::ExperimentList* dxtbx::model::boost_python::make_experiment_list(boost::python::api::object)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:30:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 30 | for (std::size_t i = 0; i < boost::python::len(items); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘void dxtbx::model::boost_python::experiment_list_setitem(dxtbx::model::ExperimentList&, int, dxtbx::model::Experiment)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:174:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 174 | if (n >= self.size() || n < 0) { - | ~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘dxtbx::model::Experiment& dxtbx::model::boost_python::experiment_list_getitem(dxtbx::model::ExperimentList&, int)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:184:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 184 | if (n >= self.size() || n < 0) { - | ~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘dxtbx::model::ExperimentList dxtbx::model::boost_python::experiment_list_getitem_slice(const dxtbx::model::ExperimentList&, boost::python::slice)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:193:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] - 193 | for (std::size_t i = as.start; i < as.stop && i < self.size(); i += as.step) { - | ~~^~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘void dxtbx::model::boost_python::experiment_list_delitem(dxtbx::model::ExperimentList&, int)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:203:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 203 | if (n >= self.size() || n < 0) { - | ~~^~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:18: @@ -11630,7 +11666,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 89 | for (std::size_t i = 0; i < n_angles; ++i) { | ~~^~~~~~~~~~ -g++ -o dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.cc In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, @@ -11670,7 +11705,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 556 | DXTBX_ASSERT(properties_.size() == num_images_); @@ -11686,7 +11720,11 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/goniometer.cc:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 89 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~ +g++ -o dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.cc +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/model/boost_python/panel.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/panel.cc +g++ -o dxtbx/src/dxtbx/model/boost_python/parallax_correction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/parallax_correction.cc +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:16, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.cc:18: @@ -11829,6 +11867,8 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ^~~~~~~~~~~~ +g++ -o dxtbx/src/dxtbx/model/boost_python/pixel_to_millimeter.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/pixel_to_millimeter.cc +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.cc: In function ‘T* dxtbx::model::boost_python::from_dict(boost::python::dict) [with T = dxtbx::model::MultiAxisGoniometer]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.cc:105:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 105 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { @@ -11971,14 +12011,19 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ^~~~~~~~~~~~ -g++ -o dxtbx/src/dxtbx/model/boost_python/parallax_correction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/parallax_correction.cc -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o dxtbx/src/dxtbx/model/boost_python/pixel_to_millimeter.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/pixel_to_millimeter.cc -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/model/boost_python/scan.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/model/boost_python/scan_helpers.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/scan_helpers.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o dxtbx/src/dxtbx/model/boost_python/spectrum.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/spectrum.cc +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/libcbf-private.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libcbf-private.so.0 cbflib_adaptbx/detectors/mar_adaptor.o cbflib_adaptbx/detectors/cbf_adaptor.o cbflib_adaptbx/detectors/cbf_byte_offset_optimized.o cbflib_adaptbx/detectors/buffer_based_service.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lboost_thread -lboost_system -lhdf5 -lcbf +Create symlinks for: 'lib/libcbf-private.so.0.0.1' + 'lib/libcbf-private.so.0'->'lib/libcbf-private.so.0.0.1' + 'lib/libcbf-private.so'->'lib/libcbf-private.so.0.0.1' +g++ -o exe_dev/cbflib.tst_memory -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cbflib_adaptbx/detectors/tst_memory.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lcbf -lcbf-private -lm -lhdf5 +g++ -o exe_dev/cctbx.convert_ccp4_symop_lib -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/convert_ccp4_symop_lib.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lboost_system -lm +g++ -o exe_dev/cctbx.find_distances -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/find_distances.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lboost_system -lm In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/pixel_to_millimeter.cc:14: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: @@ -12008,15 +12053,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:368:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 368 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ -g++ -o dxtbx/src/dxtbx/model/boost_python/spectrum.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/spectrum.cc -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/libcbf-private.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libcbf-private.so.0 cbflib_adaptbx/detectors/mar_adaptor.o cbflib_adaptbx/detectors/cbf_adaptor.o cbflib_adaptbx/detectors/cbf_byte_offset_optimized.o cbflib_adaptbx/detectors/buffer_based_service.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lboost_thread -lboost_system -lhdf5 -lcbf -Create symlinks for: 'lib/libcbf-private.so.0.0.1' - 'lib/libcbf-private.so.0'->'lib/libcbf-private.so.0.0.1' - 'lib/libcbf-private.so'->'lib/libcbf-private.so.0.0.1' -g++ -o exe_dev/cbflib.tst_memory -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cbflib_adaptbx/detectors/tst_memory.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lcbf -lcbf-private -lm -lhdf5 -g++ -o exe_dev/cctbx.convert_ccp4_symop_lib -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/convert_ccp4_symop_lib.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lboost_system -lm -g++ -o exe_dev/cctbx.find_distances -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/find_distances.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lboost_system -lm g++ -o exe_dev/cctbx.getting_started -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/getting_started.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lboost_system -lm g++ -o exe_dev/cctbx.lattice_symmetry -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/lattice_symmetry.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lboost_system -lm g++ -o exe_dev/cctbx.sym_equiv_sites -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/sym_equiv_sites.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lboost_system -lm @@ -12027,12 +12063,118 @@ g++ -o gltbx/font_ucs_8x13.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/font_ucs_8x13.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o gltbx/font_ucs_9x15.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/font_ucs_9x15.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/scan_helpers.cc:16: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 89 | for (std::size_t i = 0; i < n_angles; ++i) { + | ~~^~~~~~~~~~ +g++ -o gltbx/fonts_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/gltbx/fonts_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:19: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 89 | for (std::size_t i = 0; i < n_angles; ++i) { | ~~^~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:16, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/spectrum.cc:10: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] + 562 | double wavelength_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] + 551 | vec3 direction_; + | ^~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] + 93 | Beam() + | ^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] + 562 | double wavelength_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] + 552 | double divergence_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] + 126 | Beam(vec3 direction, double wavelength) + | ^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] + 562 | double wavelength_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] + 552 | double divergence_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] + 165 | Beam(vec3 direction, + | ^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] + 562 | double wavelength_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] + 552 | double divergence_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] + 193 | Beam(vec3 direction, + | ^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] + 562 | double wavelength_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] + 552 | double divergence_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] + 227 | Beam(vec3 direction, + | ^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] + 760 | return scitbx::af::shared >(1, (0., 0., 0.)); + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] + 760 | return scitbx::af::shared >(1, (0., 0., 0.)); + | ^~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:22, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/detector.h:25, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:18: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; +g++ -o gltbx/gl_defines_00_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_defines_00_bpl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:367:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 367 | for (std::size_t y = y0; y < y1; ++y) { + | ~~^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:368:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 368 | for (std::size_t x = x0; x < x1; ++x) { + | ~~^~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:22, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:20: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 89 | for (std::size_t i = 0; i < n_angles; ++i) { + | ~~^~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, @@ -12071,6 +12213,7 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ +g++ -o gltbx/gl_defines_01_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_defines_01_bpl.cpp /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 556 | DXTBX_ASSERT(properties_.size() == num_images_); @@ -12078,6 +12221,21 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ^~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:31, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/spectrum.h:9, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/spectrum.cc:9: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >&, int)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:148:44: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 148 | DXTBX_ASSERT(properties_table.size() == num_images_); + | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:148:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 148 | DXTBX_ASSERT(properties_table.size() == num_images_); + | ^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:16, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:20: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: @@ -12130,6 +12288,32 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] 227 | Beam(vec3 direction, | ^~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_properties(dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:242:37: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 242 | DXTBX_ASSERT(new_table.size() == num_images_); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:242:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 242 | DXTBX_ASSERT(new_table.size() == num_images_); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_oscillation(scitbx::vec2)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:397:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 397 | for (std::size_t i = 0; i < num_images_; ++i) { + | ~~^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:411:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:411:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:417:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 417 | DXTBX_ASSERT(epochs.size() == num_images_); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 417 | DXTBX_ASSERT(epochs.size() == num_images_); + | ^~~~~~~~~~~~ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); @@ -12137,6 +12321,13 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 556 | DXTBX_ASSERT(properties_.size() == num_images_); + | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 556 | DXTBX_ASSERT(properties_.size() == num_images_); + | ^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:18: @@ -12167,7 +12358,7 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:368:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 368 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ -g++ -o gltbx/font_ucs_9x15.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/font_ucs_9x15.cpp +g++ -o gltbx/gl_defines_02_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_defines_02_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc: In static member function ‘static void dxtbx::model::boost_python::ScanPickleSuite::setstate(dxtbx::model::Scan&, boost::python::tuple)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:162:41: warning: comparison of integer expressions of different signedness: ‘boost::python::ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] @@ -12184,15 +12375,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:374:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 374 | for (int k = 0; k < ranges.size(); ++k) { | ~~^~~~~~~~~~~~~~~ -g++ -o gltbx/fonts_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/gltbx/fonts_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o gltbx/gl_defines_00_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_defines_00_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/scan_helpers.cc:16: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 89 | for (std::size_t i = 0; i < n_angles; ++i) { - | ~~^~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:24: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h: In instantiation of ‘T* dxtbx::af::flex_table_suite::make_flex_table(boost::python::list) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:1233:42: required from ‘static dxtbx::af::flex_table_suite::flex_table_wrapper::class_type dxtbx::af::flex_table_suite::flex_table_wrapper::wrap(const char*) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >; class_type = boost::python::class_, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ @@ -12531,103 +12713,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:890:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 890 | for (std::size_t i = 0; i < len(keys); ++i) { | ~~^~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:16, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/spectrum.cc:10: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] - 562 | double wavelength_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] - 551 | vec3 direction_; - | ^~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] - 93 | Beam() - | ^~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] - 562 | double wavelength_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] - 552 | double divergence_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] - 126 | Beam(vec3 direction, double wavelength) - | ^~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] - 562 | double wavelength_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] - 552 | double divergence_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] - 165 | Beam(vec3 direction, - | ^~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] - 562 | double wavelength_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] - 552 | double divergence_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] - 193 | Beam(vec3 direction, - | ^~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] - 562 | double wavelength_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] - 552 | double divergence_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] - 227 | Beam(vec3 direction, - | ^~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] - 760 | return scitbx::af::shared >(1, (0., 0., 0.)); - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] - 760 | return scitbx::af::shared >(1, (0., 0., 0.)); - | ^~ -g++ -o gltbx/gl_defines_01_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_defines_01_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:22, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/detector.h:25, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:18: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:367:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 367 | for (std::size_t y = y0; y < y1; ++y) { - | ~~^~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:368:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 368 | for (std::size_t x = x0; x < x1; ++x) { - | ~~^~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:22, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:20: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 89 | for (std::size_t i = 0; i < n_angles; ++i) { - | ~~^~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/ext.cpp:5: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/equivalence.hpp: In member function ‘void fem::utils::equivalence::array_alignment::infer_diffs0_from_diff_matrix()’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/equivalence.hpp:93:28: warning: comparison of integer expressions of different signedness: ‘const fem::ssize_t’ {aka ‘const long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] @@ -12659,55 +12744,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/ext.cpp:71:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 71 | if (i < code_stop) { | ~~^~~~~~~~~~~ -g++ -o gltbx/gl_defines_02_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_defines_02_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:31, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/spectrum.h:9, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/boost_python/spectrum.cc:9: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >&, int)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:148:44: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 148 | DXTBX_ASSERT(properties_table.size() == num_images_); - | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:148:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 148 | DXTBX_ASSERT(properties_table.size() == num_images_); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_properties(dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:242:37: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 242 | DXTBX_ASSERT(new_table.size() == num_images_); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:242:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 242 | DXTBX_ASSERT(new_table.size() == num_images_); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_oscillation(scitbx::vec2)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:397:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 397 | for (std::size_t i = 0; i < num_images_; ++i) { - | ~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:411:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:411:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:417:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 417 | DXTBX_ASSERT(epochs.size() == num_images_); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 417 | DXTBX_ASSERT(epochs.size() == num_images_); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 556 | DXTBX_ASSERT(properties_.size() == num_images_); - | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 556 | DXTBX_ASSERT(properties_.size() == num_images_); - | ^~~~~~~~~~~~ g++ -o gltbx/gl_defines_03_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_defines_03_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_defines_04_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_defines_04_bpl.cpp @@ -12743,8 +12779,8 @@ g++ -o gltbx/gl_functions_10_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_functions_10_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_11_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_functions_11_bpl.cpp -g++ -o gltbx/gl_functions_12_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_functions_12_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o gltbx/gl_functions_12_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_functions_12_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_13_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_functions_13_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ @@ -12763,8 +12799,8 @@ g++ -o gltbx/glu_functions_01_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/glu_functions_01_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/glu_functions_02_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/glu_functions_02_bpl.cpp -g++ -o gltbx/glu_functions_03_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/glu_functions_03_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o gltbx/glu_functions_03_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/glu_functions_03_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/quadrics_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/gltbx/quadrics_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ @@ -12772,6 +12808,40 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/viewer_utils_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/gltbx/viewer_utils_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o iotbx/ccp4_map/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/ccp4_map/ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o iotbx/cif/boost_python/cif_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/cif/boost_python/cif_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o iotbx/detectors/bruker.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/detectors/bruker.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o iotbx/detectors/bruker_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/detectors/bruker_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o iotbx/detectors/detectors_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/detectors/detectors_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/ccp4_map/ext.cpp: In function ‘void iotbx::ccp4_map::write_ccp4_map_set_grid(const std::string&, const cctbx::uctbx::unit_cell&, const cctbx::sgtbx::space_group&, const scitbx::af::int3&, const scitbx::af::const_ref >&, const scitbx::af::const_ref >&)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/ccp4_map/ext.cpp:178:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 178 | for (int i = 0; i < labels.size(); i++) { + | ~~^~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/ccp4_map/ext.cpp:213:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 213 | for (int i = 0; i < data_ref.accessor()[0]; i++) { +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/ccp4_map/ext.cpp:215:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 215 | for (int j = 0; j < data_ref.accessor()[1]; j++) { +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/ccp4_map/ext.cpp:216:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 216 | for (int k = 0; k < data_ref.accessor()[2]; k++) { +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/ccp4_map/ext.cpp: In function ‘void iotbx::ccp4_map::write_ccp4_map_box(const std::string&, const cctbx::uctbx::unit_cell&, const cctbx::sgtbx::space_group&, const scitbx::af::const_ref >&, const scitbx::af::const_ref >&)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/ccp4_map/ext.cpp:245:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 245 | for (int i = 0; i < labels.size(); i++) { + | ~~^~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/ccp4_map/ext.cpp:278:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 278 | for (int i = 0; i < data_ref.accessor()[0]; i++) { +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/ccp4_map/ext.cpp:280:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 280 | for (int j = 0; j < data_ref.accessor()[1]; j++) { +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/ccp4_map/ext.cpp:281:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 281 | for (int k = 0; k < data_ref.accessor()[2]; k++) { +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/ccp4_map/ext.cpp: In function ‘void iotbx::ccp4_map::write_ccp4_map_p1_cell(const std::string&, const cctbx::uctbx::unit_cell&, const cctbx::sgtbx::space_group&, const scitbx::af::int3&, const scitbx::af::int3&, const scitbx::af::const_ref >&, const scitbx::af::const_ref >&)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/ccp4_map/ext.cpp:311:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 311 | for (int i = 0; i < labels.size(); i++) { + | ~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h: In function ‘void dxtbx::af::flex_table_suite::type_appender::operator()(U) [with U = scitbx::af::shared >]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:905:54: warning: ‘a’ may be used uninitialized [-Wmaybe-uninitialized] 905 | type_list.append(object(handle<>(PyObject_Type(object(a).ptr())))); @@ -12795,7 +12865,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:904:30: note: ‘a’ declared here 904 | typename U::value_type a = typename U::value_type(); | ^ -g++ -o iotbx/ccp4_map/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/ccp4_map/ext.cpp In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/scan.h:23: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/array_family/flex_table.h: In member function ‘void dxtbx::af::flex_table::insert_visitor::operator()(T&) const [with T = scitbx::af::shared >; VarientType = boost::variant, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > >]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/array_family/flex_table.h:218:17: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] @@ -12810,7 +12879,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/array_family/flex_table.h:218:50: note: ‘’ declared here 218 | v.insert(v.begin() + pos, n, typename T::value_type()); | ^~~~~~~~~~~~ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/array_family/flex_table.h: In member function ‘void dxtbx::af::flex_table::insert_visitor::operator()(T&) const [with T = scitbx::af::shared >; VarientType = boost::variant, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > >]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/array_family/flex_table.h:218:17: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 218 | v.insert(v.begin() + pos, n, typename T::value_type()); @@ -12821,38 +12889,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/array_family/flex_table.h:218:50: note: ‘’ declared here 218 | v.insert(v.begin() + pos, n, typename T::value_type()); | ^~~~~~~~~~~~ -g++ -o iotbx/cif/boost_python/cif_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/cif/boost_python/cif_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o iotbx/detectors/bruker.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/detectors/bruker.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o iotbx/detectors/bruker_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/detectors/bruker_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o iotbx/detectors/detectors_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/detectors/detectors_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/ccp4_map/ext.cpp: In function ‘void iotbx::ccp4_map::write_ccp4_map_set_grid(const std::string&, const cctbx::uctbx::unit_cell&, const cctbx::sgtbx::space_group&, const scitbx::af::int3&, const scitbx::af::const_ref >&, const scitbx::af::const_ref >&)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/ccp4_map/ext.cpp:178:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 178 | for (int i = 0; i < labels.size(); i++) { - | ~~^~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/ccp4_map/ext.cpp:213:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 213 | for (int i = 0; i < data_ref.accessor()[0]; i++) { -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/ccp4_map/ext.cpp:215:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 215 | for (int j = 0; j < data_ref.accessor()[1]; j++) { -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/ccp4_map/ext.cpp:216:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 216 | for (int k = 0; k < data_ref.accessor()[2]; k++) { -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/ccp4_map/ext.cpp: In function ‘void iotbx::ccp4_map::write_ccp4_map_box(const std::string&, const cctbx::uctbx::unit_cell&, const cctbx::sgtbx::space_group&, const scitbx::af::const_ref >&, const scitbx::af::const_ref >&)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/ccp4_map/ext.cpp:245:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 245 | for (int i = 0; i < labels.size(); i++) { - | ~~^~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/ccp4_map/ext.cpp:278:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 278 | for (int i = 0; i < data_ref.accessor()[0]; i++) { -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/ccp4_map/ext.cpp:280:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 280 | for (int j = 0; j < data_ref.accessor()[1]; j++) { -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/ccp4_map/ext.cpp:281:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 281 | for (int k = 0; k < data_ref.accessor()[2]; k++) { -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/ccp4_map/ext.cpp: In function ‘void iotbx::ccp4_map::write_ccp4_map_p1_cell(const std::string&, const cctbx::uctbx::unit_cell&, const cctbx::sgtbx::space_group&, const scitbx::af::int3&, const scitbx::af::int3&, const scitbx::af::const_ref >&, const scitbx::af::const_ref >&)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/ccp4_map/ext.cpp:311:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 311 | for (int i = 0; i < labels.size(); i++) { - | ~~^~~~~~~~~~~~~~~ g++ -o iotbx/detectors/image_divider.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/detectors/image_divider.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/dsn6/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/dsn6/ext.cpp @@ -12869,6 +12905,8 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/mtz/crystal.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/crystal.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o iotbx/mtz/crystal_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/crystal_bpl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, @@ -12963,10 +13001,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o iotbx/mtz/crystal_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/crystal_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o iotbx/mtz/dataset.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/dataset.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/mat3.h:5: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: @@ -13037,6 +13071,8 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o iotbx/mtz/dataset.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/dataset.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -13089,6 +13125,9 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o iotbx/mtz/dataset_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/dataset_bpl.cpp +g++ -o iotbx/mtz/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, @@ -13131,6 +13170,11 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o iotbx/mtz/object.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o iotbx/mtz/object_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object_bpl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -13183,10 +13227,19 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o iotbx/mtz/dataset_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/dataset_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/mat3.h:5: + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/mat3.h:5, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/sym_mat3.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/rot_mx.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/rt_mx.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/change_of_basis_op.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tr_group.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/space_group.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.h:12, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/crystal.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/dataset.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/batch.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/batch_bpl.cpp:6: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 591 | IOTBX_ASSERT(iref[0] < oldsize); @@ -13205,18 +13258,7 @@ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/mat3.h:5, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/sym_mat3.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/rot_mx.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/rt_mx.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/change_of_basis_op.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tr_group.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/space_group.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.h:12, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/crystal.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/dataset.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/batch.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/batch_bpl.cpp:6: + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/mat3.h:5: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 591 | IOTBX_ASSERT(iref[0] < oldsize); @@ -13234,10 +13276,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ -g++ -o iotbx/mtz/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o iotbx/mtz/object.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/assert.hpp:58, from /usr/include/boost/smart_ptr/shared_array.hpp:23, from /usr/include/boost/shared_array.hpp:17, @@ -13264,6 +13302,8 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ +g++ -o iotbx/pdb/atom_selection.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/atom_selection.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/mat3.h:5: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: @@ -13283,48 +13323,37 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ -g++ -o iotbx/mtz/object_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o iotbx/pdb/atom_selection.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/atom_selection.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/mat3.h:5, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/sym_mat3.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/rot_mx.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/rt_mx.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/change_of_basis_op.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tr_group.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/space_group.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.h:12, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/crystal.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/dataset.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/crystal_bpl.cpp:6: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] + 591 | IOTBX_ASSERT(iref[0] < oldsize); +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ + 591 | IOTBX_ASSERT(iref[0] < oldsize); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] + 594 | IOTBX_ASSERT(iref[i] < oldsize); +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ + 594 | IOTBX_ASSERT(iref[i] < oldsize); + | ^~~~~~~~~~~~ g++ -o iotbx/pdb/common_residue_names_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/common_residue_names_bpl.cpp -g++ -o iotbx/pdb/construct_hierarchy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/construct_hierarchy.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:31, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/namespace.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy.h:8, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/atom_selection.cpp:1: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/mat3.h:5, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/sym_mat3.h:4, @@ -13355,43 +13384,12 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘const ElementType& scitbx::af::shared_plain::at(size_type) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o iotbx/pdb/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:31, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/namespace.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy.h:8, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/input.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/construct_hierarchy.cpp:1: + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/hendrickson_lattman.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/miller/sym_equiv.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/miller/asu.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.cpp:5: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -13418,6 +13416,32 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/boost/assert.hpp:58, + from /usr/include/boost/smart_ptr/shared_array.hpp:23, + from /usr/include/boost/shared_array.hpp:17, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/hendrickson_lattman.h:9, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.h:13: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ + 146 | &convertible, + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::mtz::crystal; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ + 130 | scitbx::boost_python::container_conversions::from_python_sequence< + | ^~~~~~~~~~~~~~~~~~~~~ + 131 | w_t, + | ~~~~ + 132 | scitbx::boost_python::container_conversions + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 133 | ::variable_capacity_policy>(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/crystal_bpl.cpp:42:60: required from here + 42 | scitbx::af::boost_python::shared_wrapper::wrap( + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ + 43 | "shared_crystal"); + | ~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -13446,10 +13470,12 @@ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/hendrickson_lattman.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/miller/sym_equiv.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/miller/asu.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.cpp:5: + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:31, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/namespace.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy.h:8, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/atom_selection.cpp:1: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -13476,32 +13502,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘const ElementType& scitbx::af::shared_plain::at(size_type) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:58, from /usr/include/boost/smart_ptr/shared_array.hpp:23, from /usr/include/boost/shared_array.hpp:17, @@ -13528,61 +13528,34 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/mat3.h:5, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/sym_mat3.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/rot_mx.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/rt_mx.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/change_of_basis_op.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tr_group.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/space_group.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.h:12, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/crystal.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/dataset.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/crystal_bpl.cpp:6: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] - 591 | IOTBX_ASSERT(iref[0] < oldsize); -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ - 591 | IOTBX_ASSERT(iref[0] < oldsize); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] - 594 | IOTBX_ASSERT(iref[i] < oldsize); -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ - 594 | IOTBX_ASSERT(iref[i] < oldsize); - | ^~~~~~~~~~~~ -In file included from /usr/include/boost/assert.hpp:58, - from /usr/include/boost/smart_ptr/shared_array.hpp:23, - from /usr/include/boost/shared_array.hpp:17, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/hendrickson_lattman.h:9, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.h:13: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ - 146 | &convertible, - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::mtz::crystal; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ - 130 | scitbx::boost_python::container_conversions::from_python_sequence< - | ^~~~~~~~~~~~~~~~~~~~~ - 131 | w_t, - | ~~~~ - 132 | scitbx::boost_python::container_conversions - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 133 | ::variable_capacity_policy>(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/crystal_bpl.cpp:42:60: required from here - 42 | scitbx::af::boost_python::shared_wrapper::wrap( - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ - 43 | "shared_crystal"); - | ~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘const ElementType& scitbx::af::shared_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o iotbx/pdb/construct_hierarchy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/construct_hierarchy.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -13649,7 +13622,68 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.cpp:684:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 684 | for(int i=0;i::at(size_type)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘const ElementType& scitbx::af::shared_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o iotbx/pdb/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/mat3.h:5, @@ -13681,10 +13715,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ -g++ -o iotbx/pdb/hierarchy_atom_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy_atom_bpl.cpp -g++ -o iotbx/pdb/hierarchy_atoms.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy_atoms.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/assert.hpp:58, from /usr/include/boost/smart_ptr/shared_array.hpp:23, from /usr/include/boost/shared_array.hpp:17, @@ -13711,6 +13741,10 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ +g++ -o iotbx/pdb/hierarchy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o iotbx/pdb/hierarchy_atom_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy_atom_bpl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/mat3.h:5, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/sym_mat3.h:4, @@ -13741,6 +13775,8 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ +g++ -o iotbx/pdb/hierarchy_atoms.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy_atoms.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, @@ -13801,6 +13837,8 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o iotbx/pdb/hierarchy_atoms_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, @@ -13836,6 +13874,8 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o iotbx/pdb/hierarchy_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -13905,11 +13945,9 @@ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ -g++ -o iotbx/pdb/hierarchy_atoms_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o iotbx/pdb/hierarchy_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy_ext.cpp g++ -o iotbx/pdb/hierarchy_select.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy_select.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o iotbx/pdb/hierarchy_write.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy_write.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, @@ -13971,9 +14009,8 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o iotbx/pdb/hierarchy_write.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy_write.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/hybrid_36_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hybrid_36_bpl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, @@ -14009,7 +14046,11 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +gcc -o iotbx/pdb/hybrid_36_c.o -c -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hybrid_36_c.c +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy_ext.cpp:11: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy_atoms.h:157:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | std::auto_ptr + | ^~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -14036,13 +14077,17 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy_atoms.h: At global scope: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy_atoms.h:157:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | std::auto_ptr - | ^~~~~~~~ In file included from /usr/include/c++/14/memory:78, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/misc.h:5, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:5: + from /usr/include/boost/config/no_tr1/memory.hpp:21, + from /usr/include/boost/get_pointer.hpp:14, + from /usr/include/boost/python/object/pointer_holder.hpp:11, + from /usr/include/boost/python/to_python_indirect.hpp:10, + from /usr/include/boost/python/converter/arg_to_python.hpp:10, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/object/class.hpp:9, + from /usr/include/boost/python/class.hpp:13, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy_ext.cpp:4: /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ @@ -14052,25 +14097,17 @@ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ -gcc -o iotbx/pdb/hybrid_36_c.o -c -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hybrid_36_c.c g++ -o iotbx/pdb/hybrid_36_cpp.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hybrid_36_cpp.cpp g++ -o iotbx/pdb/hybrid_36_fem.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable iotbx/pdb/hybrid_36_fem.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy_ext.cpp:11: +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy_atoms.h: At global scope: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy_atoms.h:157:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 157 | std::auto_ptr | ^~~~~~~~ In file included from /usr/include/c++/14/memory:78, - from /usr/include/boost/config/no_tr1/memory.hpp:21, - from /usr/include/boost/get_pointer.hpp:14, - from /usr/include/boost/python/object/pointer_holder.hpp:11, - from /usr/include/boost/python/to_python_indirect.hpp:10, - from /usr/include/boost/python/converter/arg_to_python.hpp:10, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/object/class.hpp:9, - from /usr/include/boost/python/class.hpp:13, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy_ext.cpp:4: + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/misc.h:5, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:5: /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ @@ -14080,6 +14117,7 @@ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ +g++ -o iotbx/pdb/input.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/input.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:2: @@ -14087,12 +14125,42 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 40 | if (pos < 0 || pos >= command_line_args.buffer.size()) { + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/string_to_double_fmt.hpp:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/read.hpp:9: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/string_to_double.hpp: In member function ‘void fem::utils::string_to_double::convert(fem::utils::simple_istream&, unsigned int, int)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/string_to_double.hpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] + 115 | if (dexp <= ad_hoc_limits::max_digit_count) { + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/read.hpp: In member function ‘double fem::read_loop::read_fmt_double()’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/read.hpp:653:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 653 | if (iw+1 != ed.size()) { + | ~~~~~^~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/variant.hpp:5, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/major_types.hpp:7: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/equivalence.hpp: In member function ‘void fem::utils::equivalence::array_alignment::infer_diffs0_from_diff_matrix()’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/equivalence.hpp:93:28: warning: comparison of integer expressions of different signedness: ‘const fem::ssize_t’ {aka ‘const long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 93 | if (c0e[0] == i0) { + | ~~~~~~~^~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/major_types.hpp:8: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/write.hpp: In destructor ‘fem::write_loop::~write_loop()’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/write.hpp:704:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] + 704 | while (pos < internal_file_len) { + | ~~~~^~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:13: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy_atoms.h: At global scope: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy_atoms.h:157:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -14123,6 +14191,68 @@ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:31, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/namespace.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy.h:8, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/input.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/input.cpp:1: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘const ElementType& scitbx::af::shared_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o iotbx/pdb/input_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/input_bpl.cpp In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -14144,17 +14274,9 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/io.hpp:8, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/close_chain.hpp:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/common.hpp:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/read.hpp:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/major_types.hpp:6, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem.hpp:10, - from iotbx/pdb/hybrid_36_fem.cpp:1: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/simple_streams.hpp: In member function ‘virtual void fem::utils::simple_ostream_to_char_ptr_and_size::put(char)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/simple_streams.hpp:63:13: warning: comparison of integer expressions of different signedness: ‘fem::ssize_t’ {aka ‘long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 63 | if (i < sz) s[i++] = c; - | ~~^~~~ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o iotbx/pdb/input_write.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/input_write.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/assert.hpp:58, from /usr/include/boost/function/function_base.hpp:28, from /usr/include/boost/function/detail/prologue.hpp:18, @@ -14189,41 +14311,24 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:31, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/namespace.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/hierarchy.h:8, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/input.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/input.cpp:1: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/misc/file_utils.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/input.cpp:3: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/misc/split_lines.h: In function ‘scitbx::af::shared > scitbx::misc::split_lines(const char*, std::size_t, bool, bool)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/misc/split_lines.h:24:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 24 | while (i < size) { + | ~~^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/misc/split_lines.h:25:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 25 | while (i < size && data[i] != '\n' && data[i] != '\r') i++; + | ~~^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/misc/split_lines.h:27:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 27 | if (i < size) { + | ~~^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/misc/split_lines.h:28:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 28 | if (data[i] == '\r' && i+1 < size && data[i+1] == '\n') { + | ~~~~^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/misc/split_lines.h:46:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 46 | if (j < size) { + | ~~^~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, @@ -14243,32 +14348,8 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘const ElementType& scitbx::af::shared_plain::at(size_type) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o iotbx/pdb/overall_counts.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/overall_counts.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, @@ -14304,12 +14385,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o iotbx/pdb/overall_counts.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/overall_counts.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/common.hpp: In member function ‘void fem::common::getarg(int, fem::str_ref) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/common.hpp:40:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 40 | if (pos < 0 || pos >= command_line_args.buffer.size()) { - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -14336,47 +14411,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/string_to_double_fmt.hpp:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/read.hpp:9: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/string_to_double.hpp: In member function ‘void fem::utils::string_to_double::convert(fem::utils::simple_istream&, unsigned int, int)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/string_to_double.hpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] - 115 | if (dexp <= ad_hoc_limits::max_digit_count) { - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/read.hpp: In member function ‘double fem::read_loop::read_fmt_double()’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/read.hpp:653:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 653 | if (iw+1 != ed.size()) { - | ~~~~~^~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/variant.hpp:5, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/major_types.hpp:7: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/equivalence.hpp: In member function ‘void fem::utils::equivalence::array_alignment::infer_diffs0_from_diff_matrix()’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/equivalence.hpp:93:28: warning: comparison of integer expressions of different signedness: ‘const fem::ssize_t’ {aka ‘const long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 93 | if (c0e[0] == i0) { - | ~~~~~~~^~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/misc/file_utils.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/input.cpp:3: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/misc/split_lines.h: In function ‘scitbx::af::shared > scitbx::misc::split_lines(const char*, std::size_t, bool, bool)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/misc/split_lines.h:24:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 24 | while (i < size) { - | ~~^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/misc/split_lines.h:25:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 25 | while (i < size && data[i] != '\n' && data[i] != '\r') i++; - | ~~^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/misc/split_lines.h:27:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 27 | if (i < size) { - | ~~^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/misc/split_lines.h:28:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 28 | if (data[i] == '\r' && i+1 < size && data[i+1] == '\n') { - | ~~~~^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/misc/split_lines.h:46:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 46 | if (j < size) { - | ~~^~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/major_types.hpp:8: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/write.hpp: In destructor ‘fem::write_loop::~write_loop()’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/write.hpp:704:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] - 704 | while (pos < internal_file_len) { - | ~~~~^~~~~~~~~~~~~~~~~~~ -g++ -o iotbx/pdb/rna_dna_atom_names_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/rna_dna_atom_names_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, @@ -14437,12 +14471,17 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o iotbx/pdb/rna_dna_atom_names_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/rna_dna_atom_names_bpl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/utils.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/write_utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/write_utils.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/xray_structure_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/xray_structure_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o iotbx/pdb/hybrid_36_fem -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread iotbx/pdb/hybrid_36_fem.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system +g++ -o iotbx/shelx/shelx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/shelx/shelx_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, @@ -14510,9 +14549,6 @@ 43 | "Failure writing to file: \"" + file_name + "\""); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/write_utils.cpp:42:7: note: in C++11 destructors default to ‘noexcept’ -g++ -o iotbx/shelx/shelx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/shelx/shelx_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o iotbx/pdb/hybrid_36_fem -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread iotbx/pdb/hybrid_36_fem.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system g++ -o iotbx/wildcard_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/wildcard_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/xplor/boost_python/xplor_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/xplor/boost_python/xplor_ext.cpp @@ -14534,12 +14570,23 @@ 'lib/boost_adaptbx_graph_breadth_first_search_ext.so.0'->'lib/boost_adaptbx_graph_breadth_first_search_ext.so.0.0.1' 'lib/boost_adaptbx_graph_breadth_first_search_ext.so'->'lib/boost_adaptbx_graph_breadth_first_search_ext.so.0.0.1' g++ -o lib/boost_adaptbx_graph_clustering_algorithm_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_clustering_algorithm_ext.so.0 boost_adaptbx/graph/clustering_algorithm_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o lib/boost_adaptbx_graph_connected_component_algorithm_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_connected_component_algorithm_ext.so.0 boost_adaptbx/graph/connected_component_algorithm_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/boost_adaptbx_graph_connected_component_algorithm_ext.so.0.0.1' + 'lib/boost_adaptbx_graph_connected_component_algorithm_ext.so.0'->'lib/boost_adaptbx_graph_connected_component_algorithm_ext.so.0.0.1' + 'lib/boost_adaptbx_graph_connected_component_algorithm_ext.so'->'lib/boost_adaptbx_graph_connected_component_algorithm_ext.so.0.0.1' +g++ -o lib/boost_adaptbx_graph_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_ext.so.0 boost_adaptbx/graph/graph_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/boost_adaptbx_graph_clustering_algorithm_ext.so.0.0.1' 'lib/boost_adaptbx_graph_clustering_algorithm_ext.so.0'->'lib/boost_adaptbx_graph_clustering_algorithm_ext.so.0.0.1' 'lib/boost_adaptbx_graph_clustering_algorithm_ext.so'->'lib/boost_adaptbx_graph_clustering_algorithm_ext.so.0.0.1' -g++ -o lib/boost_adaptbx_graph_connected_component_algorithm_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_connected_component_algorithm_ext.so.0 boost_adaptbx/graph/connected_component_algorithm_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm -g++ -o lib/boost_adaptbx_graph_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_ext.so.0 boost_adaptbx/graph/graph_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm g++ -o lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_graph_structure_comparison_ext.so.0 boost_adaptbx/graph/graph_structure_comparison_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0.0.1' + 'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0'->'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0.0.1' + 'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so'->'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0.0.1' +g++ -o lib/boost_adaptbx_graph_maximum_clique_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_maximum_clique_ext.so.0 boost_adaptbx/graph/maximum_clique_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/boost_adaptbx_graph_ext.so.0.0.1' + 'lib/boost_adaptbx_graph_ext.so.0'->'lib/boost_adaptbx_graph_ext.so.0.0.1' + 'lib/boost_adaptbx_graph_ext.so'->'lib/boost_adaptbx_graph_ext.so.0.0.1' +g++ -o lib/boost_adaptbx_graph_metric_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_metric_ext.so.0 boost_adaptbx/graph/metric_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/xray_structure.h:6, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/iotbx/pdb/xray_structure_bpl.cpp:7: @@ -14547,14 +14594,14 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i'lib/boost_adaptbx_graph_connected_component_algorithm_ext.so.0.0.1' - 'lib/boost_adaptbx_graph_connected_component_algorithm_ext.so'->'lib/boost_adaptbx_graph_connected_component_algorithm_ext.so.0.0.1' -g++ -o lib/boost_adaptbx_graph_maximum_clique_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_maximum_clique_ext.so.0 boost_adaptbx/graph/maximum_clique_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0.0.1' - 'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0'->'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0.0.1' - 'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so'->'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0.0.1' -g++ -o lib/boost_adaptbx_graph_metric_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_metric_ext.so.0 boost_adaptbx/graph/metric_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/boost_adaptbx_graph_maximum_clique_ext.so.0.0.1' + 'lib/boost_adaptbx_graph_maximum_clique_ext.so.0'->'lib/boost_adaptbx_graph_maximum_clique_ext.so.0.0.1' + 'lib/boost_adaptbx_graph_maximum_clique_ext.so'->'lib/boost_adaptbx_graph_maximum_clique_ext.so.0.0.1' +g++ -o lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_min_cut_max_flow_ext.so.0 boost_adaptbx/graph/min_cut_max_flow_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/boost_adaptbx_graph_metric_ext.so.0.0.1' + 'lib/boost_adaptbx_graph_metric_ext.so.0'->'lib/boost_adaptbx_graph_metric_ext.so.0.0.1' + 'lib/boost_adaptbx_graph_metric_ext.so'->'lib/boost_adaptbx_graph_metric_ext.so.0.0.1' +g++ -o lib/boost_adaptbx_graph_utility_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_utility_ext.so.0 boost_adaptbx/graph/utility_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -14576,64 +14623,76 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ -Create symlinks for: 'lib/boost_adaptbx_graph_ext.so.0.0.1' - 'lib/boost_adaptbx_graph_ext.so.0'->'lib/boost_adaptbx_graph_ext.so.0.0.1' - 'lib/boost_adaptbx_graph_ext.so'->'lib/boost_adaptbx_graph_ext.so.0.0.1' -g++ -o lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_min_cut_max_flow_ext.so.0 boost_adaptbx/graph/min_cut_max_flow_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/boost_adaptbx_graph_metric_ext.so.0.0.1' - 'lib/boost_adaptbx_graph_metric_ext.so.0'->'lib/boost_adaptbx_graph_metric_ext.so.0.0.1' - 'lib/boost_adaptbx_graph_metric_ext.so'->'lib/boost_adaptbx_graph_metric_ext.so.0.0.1' -g++ -o lib/boost_adaptbx_graph_utility_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_utility_ext.so.0 boost_adaptbx/graph/utility_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/boost_adaptbx_graph_maximum_clique_ext.so.0.0.1' - 'lib/boost_adaptbx_graph_maximum_clique_ext.so.0'->'lib/boost_adaptbx_graph_maximum_clique_ext.so.0.0.1' - 'lib/boost_adaptbx_graph_maximum_clique_ext.so'->'lib/boost_adaptbx_graph_maximum_clique_ext.so.0.0.1' -g++ -o lib/boost_adaptbx_python_streambuf_test_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_python_streambuf_test_ext.so.0 boost_adaptbx/tests/python_streambuf_test_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm -lboost_timer Create symlinks for: 'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0.0.1' 'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0'->'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0.0.1' 'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so'->'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0.0.1' +g++ -o lib/boost_adaptbx_python_streambuf_test_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_python_streambuf_test_ext.so.0 boost_adaptbx/tests/python_streambuf_test_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm -lboost_timer Create symlinks for: 'lib/boost_adaptbx_graph_utility_ext.so.0.0.1' 'lib/boost_adaptbx_graph_utility_ext.so.0'->'lib/boost_adaptbx_graph_utility_ext.so.0.0.1' 'lib/boost_adaptbx_graph_utility_ext.so'->'lib/boost_adaptbx_graph_utility_ext.so.0.0.1' g++ -o lib/boost_optional_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_optional_ext.so.0 boost_adaptbx/optional_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm -lboost_timer -g++ -o lib/boost_python_hybrid_times_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_python_hybrid_times_ext.so.0 boost_adaptbx/hybrid_times_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/boost_adaptbx_python_streambuf_test_ext.so.0.0.1' 'lib/boost_adaptbx_python_streambuf_test_ext.so.0'->'lib/boost_adaptbx_python_streambuf_test_ext.so.0.0.1' 'lib/boost_adaptbx_python_streambuf_test_ext.so'->'lib/boost_adaptbx_python_streambuf_test_ext.so.0.0.1' +g++ -o lib/boost_python_hybrid_times_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_python_hybrid_times_ext.so.0 boost_adaptbx/hybrid_times_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm g++ -o lib/boost_python_meta_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_python_meta_ext.so.0 boost_adaptbx/meta_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm -lboost_timer -Create symlinks for: 'lib/boost_python_hybrid_times_ext.so.0.0.1' - 'lib/boost_python_hybrid_times_ext.so.0'->'lib/boost_python_hybrid_times_ext.so.0.0.1' - 'lib/boost_python_hybrid_times_ext.so'->'lib/boost_python_hybrid_times_ext.so.0.0.1' -g++ -o lib/boost_rational_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_rational_ext.so.0 boost_adaptbx/rational_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/boost_optional_ext.so.0.0.1' 'lib/boost_optional_ext.so.0'->'lib/boost_optional_ext.so.0.0.1' 'lib/boost_optional_ext.so'->'lib/boost_optional_ext.so.0.0.1' +g++ -o lib/boost_rational_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_rational_ext.so.0 boost_adaptbx/rational_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/boost_python_hybrid_times_ext.so.0.0.1' + 'lib/boost_python_hybrid_times_ext.so.0'->'lib/boost_python_hybrid_times_ext.so.0.0.1' + 'lib/boost_python_hybrid_times_ext.so'->'lib/boost_python_hybrid_times_ext.so.0.0.1' g++ -o lib/boost_tuple_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_tuple_ext.so.0 boost_adaptbx/tuple_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm -lboost_timer -Create symlinks for: 'lib/boost_rational_ext.so.0.0.1' - 'lib/boost_rational_ext.so.0'->'lib/boost_rational_ext.so.0.0.1' - 'lib/boost_rational_ext.so'->'lib/boost_rational_ext.so.0.0.1' -g++ -o lib/cbflib_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cbflib_ext.so.0 cbflib_adaptbx/detectors/boost_python/cbflib_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lcbf-private -lcbf -lboost_thread -lboost_system -lboost_python313 -lm -lhdf5 Create symlinks for: 'lib/boost_tuple_ext.so.0.0.1' 'lib/boost_tuple_ext.so.0'->'lib/boost_tuple_ext.so.0.0.1' 'lib/boost_tuple_ext.so'->'lib/boost_tuple_ext.so.0.0.1' +g++ -o lib/cbflib_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cbflib_ext.so.0 cbflib_adaptbx/detectors/boost_python/cbflib_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lcbf-private -lcbf -lboost_thread -lboost_system -lboost_python313 -lm -lhdf5 +Create symlinks for: 'lib/boost_rational_ext.so.0.0.1' + 'lib/boost_rational_ext.so.0'->'lib/boost_rational_ext.so.0.0.1' + 'lib/boost_rational_ext.so'->'lib/boost_rational_ext.so.0.0.1' g++ -o lib/libccp4io.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libccp4io.so.0 ccp4io_adaptbx/fortran_call_stubs.o ccp4io_adaptbx/printf_wrappers.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lm -lccp4c Create symlinks for: 'lib/boost_python_meta_ext.so.0.0.1' 'lib/boost_python_meta_ext.so.0'->'lib/boost_python_meta_ext.so.0.0.1' 'lib/boost_python_meta_ext.so'->'lib/boost_python_meta_ext.so.0.0.1' g++ -o scitbx/boost_python/utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/utils.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/boost_python/slice.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/slice.cpp Create symlinks for: 'lib/libccp4io.so.0.0.1' 'lib/libccp4io.so.0'->'lib/libccp4io.so.0.0.1' 'lib/libccp4io.so'->'lib/libccp4io.so.0.0.1' g++ -o lib/ccp4io_adaptbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=ccp4io_adaptbx_ext.so.0 ccp4io_adaptbx/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lccp4io -lccp4c -lssm -lmmdb2 -lboost_thread -lboost_system -lboost_python313 -lm +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/cbflib_ext.so.0.0.1' 'lib/cbflib_ext.so.0'->'lib/cbflib_ext.so.0.0.1' 'lib/cbflib_ext.so'->'lib/cbflib_ext.so.0.0.1' -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/boost_python/slice.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/slice.cpp +g++ -o scitbx/array_family/boost_python/utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/utils.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/ccp4io_adaptbx_ext.so.0.0.1' 'lib/ccp4io_adaptbx_ext.so.0'->'lib/ccp4io_adaptbx_ext.so.0.0.1' 'lib/ccp4io_adaptbx_ext.so'->'lib/ccp4io_adaptbx_ext.so.0.0.1' -g++ -o scitbx/array_family/boost_python/utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/utils.cpp +g++ -o lib/cma_es_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cma_es_ext.so.0 cma_es/cma_es_ext.o cma_es/cma/cmaes.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/cma_es_ext.so.0.0.1' + 'lib/cma_es_ext.so.0'->'lib/cma_es_ext.so.0.0.1' + 'lib/cma_es_ext.so'->'lib/cma_es_ext.so.0.0.1' +g++ -o lib/dxtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_ext.so.0 dxtbx/src/dxtbx/boost_python/ext.o dxtbx/src/dxtbx/boost_python/compression.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python313 -lcbf +g++ -o lib/dxtbx_format_image_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_format_image_ext.so.0 dxtbx/src/dxtbx/format/boost_python/image_ext.o dxtbx/src/dxtbx/format/boost_python/cbf_read_buffer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python313 -lcbf -lhdf5 +Create symlinks for: 'lib/dxtbx_ext.so.0.0.1' + 'lib/dxtbx_ext.so.0'->'lib/dxtbx_ext.so.0.0.1' + 'lib/dxtbx_ext.so'->'lib/dxtbx_ext.so.0.0.1' +g++ -o lib/dxtbx_format_nexus_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_format_nexus_ext.so.0 dxtbx/src/dxtbx/format/boost_python/nexus_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python313 -lcbf -lhdf5 +Create symlinks for: 'lib/dxtbx_format_nexus_ext.so.0.0.1' + 'lib/dxtbx_format_nexus_ext.so.0'->'lib/dxtbx_format_nexus_ext.so.0.0.1' + 'lib/dxtbx_format_nexus_ext.so'->'lib/dxtbx_format_nexus_ext.so.0.0.1' +g++ -o lib/fable_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=fable_ext.so.0 fable/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/dxtbx_format_image_ext.so.0.0.1' + 'lib/dxtbx_format_image_ext.so.0'->'lib/dxtbx_format_image_ext.so.0.0.1' + 'lib/dxtbx_format_image_ext.so'->'lib/dxtbx_format_image_ext.so.0.0.1' +g++ -o lib/iotbx_ccp4_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_ccp4_map_ext.so.0 iotbx/ccp4_map/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lccp4c -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/fable_ext.so.0.0.1' + 'lib/fable_ext.so.0'->'lib/fable_ext.so.0.0.1' + 'lib/fable_ext.so'->'lib/fable_ext.so.0.0.1' +g++ -o ucif/cifParser.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/ucif/cifParser.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, @@ -14669,6 +14728,10 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +Create symlinks for: 'lib/iotbx_ccp4_map_ext.so.0.0.1' + 'lib/iotbx_ccp4_map_ext.so.0'->'lib/iotbx_ccp4_map_ext.so.0.0.1' + 'lib/iotbx_ccp4_map_ext.so'->'lib/iotbx_ccp4_map_ext.so.0.0.1' +g++ -o ucif/cifLexer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/ucif/cifLexer.cpp /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -14747,365 +14810,338 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o lib/cma_es_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cma_es_ext.so.0 cma_es/cma_es_ext.o cma_es/cma/cmaes.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/cma_es_ext.so.0.0.1' - 'lib/cma_es_ext.so.0'->'lib/cma_es_ext.so.0.0.1' - 'lib/cma_es_ext.so'->'lib/cma_es_ext.so.0.0.1' -g++ -o lib/dxtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_ext.so.0 dxtbx/src/dxtbx/boost_python/ext.o dxtbx/src/dxtbx/boost_python/compression.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python313 -lcbf -Create symlinks for: 'lib/dxtbx_ext.so.0.0.1' - 'lib/dxtbx_ext.so.0'->'lib/dxtbx_ext.so.0.0.1' - 'lib/dxtbx_ext.so'->'lib/dxtbx_ext.so.0.0.1' -g++ -o lib/dxtbx_format_image_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_format_image_ext.so.0 dxtbx/src/dxtbx/format/boost_python/image_ext.o dxtbx/src/dxtbx/format/boost_python/cbf_read_buffer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python313 -lcbf -lhdf5 -g++ -o lib/dxtbx_format_nexus_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_format_nexus_ext.so.0 dxtbx/src/dxtbx/format/boost_python/nexus_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python313 -lcbf -lhdf5 -g++ -o lib/fable_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=fable_ext.so.0 fable/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/dxtbx_format_nexus_ext.so.0.0.1' - 'lib/dxtbx_format_nexus_ext.so.0'->'lib/dxtbx_format_nexus_ext.so.0.0.1' - 'lib/dxtbx_format_nexus_ext.so'->'lib/dxtbx_format_nexus_ext.so.0.0.1' -g++ -o lib/iotbx_ccp4_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_ccp4_map_ext.so.0 iotbx/ccp4_map/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lccp4c -lboost_thread -lboost_system -lboost_python313 -lm -g++ -o ucif/cifParser.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/ucif/cifParser.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/fable_ext.so.0.0.1' - 'lib/fable_ext.so.0'->'lib/fable_ext.so.0.0.1' - 'lib/fable_ext.so'->'lib/fable_ext.so.0.0.1' -Create symlinks for: 'lib/iotbx_ccp4_map_ext.so.0.0.1' - 'lib/iotbx_ccp4_map_ext.so.0'->'lib/iotbx_ccp4_map_ext.so.0.0.1' - 'lib/iotbx_ccp4_map_ext.so'->'lib/iotbx_ccp4_map_ext.so.0.0.1' -g++ -o ucif/cifLexer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/ucif/cifLexer.cpp g++ -o lib/iotbx_detectors_bruker_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_detectors_bruker_ext.so.0 iotbx/detectors/bruker_ext.o iotbx/detectors/bruker.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/iotbx_detectors_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_detectors_ext.so.0 iotbx/detectors/detectors_ext.o iotbx/detectors/image_divider.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/dxtbx_format_image_ext.so.0.0.1' - 'lib/dxtbx_format_image_ext.so.0'->'lib/dxtbx_format_image_ext.so.0.0.1' - 'lib/dxtbx_format_image_ext.so'->'lib/dxtbx_format_image_ext.so.0.0.1' -g++ -o lib/iotbx_dsn6_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_dsn6_map_ext.so.0 iotbx/dsn6/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python313 -lm -g++ -o lib/libscitbx_boost_python.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -shared -rdynamic -std=c++14 -Wl,-soname=libscitbx_boost_python.so.0 scitbx/boost_python/utils.o scitbx/boost_python/slice.o scitbx/array_family/boost_python/utils.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -g++ -o lib/iotbx_dtrek_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_dtrek_ext.so.0 iotbx/misc/boost_python/dtrek_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/iotbx_detectors_bruker_ext.so.0.0.1' 'lib/iotbx_detectors_bruker_ext.so.0'->'lib/iotbx_detectors_bruker_ext.so.0.0.1' 'lib/iotbx_detectors_bruker_ext.so'->'lib/iotbx_detectors_bruker_ext.so.0.0.1' -g++ -o lib/libiotbx_mtz.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libiotbx_mtz.so.0 iotbx/mtz/object.o iotbx/mtz/crystal.o iotbx/mtz/dataset.o iotbx/mtz/column.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lccp4io -lccp4c -lm -lboost_thread -lboost_system -Create symlinks for: 'lib/iotbx_dtrek_ext.so.0.0.1' - 'lib/iotbx_dtrek_ext.so.0'->'lib/iotbx_dtrek_ext.so.0.0.1' - 'lib/iotbx_dtrek_ext.so'->'lib/iotbx_dtrek_ext.so.0.0.1' -g++ -o lib/iotbx_scalepack_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_scalepack_ext.so.0 iotbx/misc/boost_python/scalepack_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o lib/iotbx_dsn6_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_dsn6_map_ext.so.0 iotbx/dsn6/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/iotbx_dsn6_map_ext.so.0.0.1' 'lib/iotbx_dsn6_map_ext.so.0'->'lib/iotbx_dsn6_map_ext.so.0.0.1' 'lib/iotbx_dsn6_map_ext.so'->'lib/iotbx_dsn6_map_ext.so.0.0.1' -g++ -o lib/iotbx_shelx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_shelx_ext.so.0 iotbx/shelx/shelx_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/libscitbx_boost_python.so.0.0.1' - 'lib/libscitbx_boost_python.so.0'->'lib/libscitbx_boost_python.so.0.0.1' - 'lib/libscitbx_boost_python.so'->'lib/libscitbx_boost_python.so.0.0.1' -g++ -o lib/cctbx_miller_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_miller_ext.so.0 cctbx/miller/boost_python/miller_ext.o cctbx/miller/boost_python/asu.o cctbx/miller/boost_python/bins.o cctbx/miller/boost_python/change_basis.o cctbx/miller/boost_python/expand_to_p1.o cctbx/miller/boost_python/index_generator.o cctbx/miller/boost_python/index_span.o cctbx/miller/boost_python/match_bijvoet_mates.o cctbx/miller/boost_python/match_indices.o cctbx/miller/boost_python/match_multi_indices.o cctbx/miller/boost_python/merge_equivalents.o cctbx/miller/boost_python/phase_integrator.o cctbx/miller/boost_python/phase_transfer.o cctbx/miller/boost_python/sym_equiv.o cctbx/miller/boost_python/f_calc_map.o cctbx/miller/boost_python/lookup_utils.o cctbx/miller/boost_python/amplitude_normalisation.o cctbx/miller/boost_python/randomize_amplitude_and_phase.o cctbx/miller/boost_python/slices.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o lib/iotbx_dtrek_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_dtrek_ext.so.0 iotbx/misc/boost_python/dtrek_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/iotbx_detectors_ext.so.0.0.1' 'lib/iotbx_detectors_ext.so.0'->'lib/iotbx_detectors_ext.so.0.0.1' 'lib/iotbx_detectors_ext.so'->'lib/iotbx_detectors_ext.so.0.0.1' -g++ -o lib/cctbx_sgtbx_asu_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_sgtbx_asu_ext.so.0 cctbx/sgtbx/direct_space_asu/proto/asu_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o lib/libiotbx_mtz.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libiotbx_mtz.so.0 iotbx/mtz/object.o iotbx/mtz/crystal.o iotbx/mtz/dataset.o iotbx/mtz/column.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lccp4io -lccp4c -lm -lboost_thread -lboost_system +g++ -o lib/iotbx_scalepack_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_scalepack_ext.so.0 iotbx/misc/boost_python/scalepack_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o lib/iotbx_wildcard_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_wildcard_ext.so.0 iotbx/wildcard_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/iotbx_dtrek_ext.so.0.0.1' + 'lib/iotbx_dtrek_ext.so.0'->'lib/iotbx_dtrek_ext.so.0.0.1' + 'lib/iotbx_dtrek_ext.so'->'lib/iotbx_dtrek_ext.so.0.0.1' +g++ -o lib/iotbx_shelx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_shelx_ext.so.0 iotbx/shelx/shelx_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/libiotbx_mtz.so.0.0.1' + 'lib/libiotbx_mtz.so.0'->'lib/libiotbx_mtz.so.0.0.1' + 'lib/libiotbx_mtz.so'->'lib/libiotbx_mtz.so.0.0.1' +g++ -o spotfinder/dxtbx_toolbox/libdistl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/dxtbx_toolbox/libdistl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/iotbx_wildcard_ext.so.0.0.1' + 'lib/iotbx_wildcard_ext.so.0'->'lib/iotbx_wildcard_ext.so.0.0.1' + 'lib/iotbx_wildcard_ext.so'->'lib/iotbx_wildcard_ext.so.0.0.1' Create symlinks for: 'lib/iotbx_scalepack_ext.so.0.0.1' 'lib/iotbx_scalepack_ext.so.0'->'lib/iotbx_scalepack_ext.so.0.0.1' 'lib/iotbx_scalepack_ext.so'->'lib/iotbx_scalepack_ext.so.0.0.1' -g++ -o lib/cctbx_adptbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_adptbx_ext.so.0 cctbx/adptbx/boost_python/adptbx_ext.o cctbx/adptbx/boost_python/hirshfeld.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o spotfinder/dxtbx_toolbox/distl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/dxtbx_toolbox/distl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o spotfinder/core_toolbox/spot.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/core_toolbox/spot.cpp +g++ -o spotfinder/core_toolbox/libdistl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/core_toolbox/libdistl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/iotbx_shelx_ext.so.0.0.1' 'lib/iotbx_shelx_ext.so.0'->'lib/iotbx_shelx_ext.so.0.0.1' 'lib/iotbx_shelx_ext.so'->'lib/iotbx_shelx_ext.so.0.0.1' -g++ -o lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_fp_fdp_ext.so.0 cctbx/eltbx/boost_python/fp_fdp_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/libiotbx_mtz.so.0.0.1' - 'lib/libiotbx_mtz.so.0'->'lib/libiotbx_mtz.so.0.0.1' - 'lib/libiotbx_mtz.so'->'lib/libiotbx_mtz.so.0.0.1' -g++ -o lib/libiotbx_pdb.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libiotbx_pdb.so.0 iotbx/pdb/hybrid_36_c.o iotbx/pdb/hybrid_36_cpp.o iotbx/pdb/utils.o iotbx/pdb/write_utils.o iotbx/pdb/hierarchy.o iotbx/pdb/hierarchy_select.o iotbx/pdb/hierarchy_atoms.o iotbx/pdb/construct_hierarchy.o iotbx/pdb/overall_counts.o iotbx/pdb/hierarchy_write.o iotbx/pdb/atom_selection.o iotbx/pdb/input.o iotbx/pdb/input_write.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -g++ -o lib/iotbx_mtz_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_mtz_ext.so.0 iotbx/mtz/ext.o iotbx/mtz/object_bpl.o iotbx/mtz/crystal_bpl.o iotbx/mtz/dataset_bpl.o iotbx/mtz/column_bpl.o iotbx/mtz/batch_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -liotbx_mtz -lcctbx -lccp4io -lccp4c -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o spotfinder/core_toolbox/hough.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/core_toolbox/hough.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/iotbx_cif_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_cif_ext.so.0 iotbx/cif/boost_python/cif_ext.o ucif/cifParser.o ucif/cifLexer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm -lantlr3c +g++ -o lib/libscitbx_boost_python.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -shared -rdynamic -std=c++14 -Wl,-soname=libscitbx_boost_python.so.0 scitbx/boost_python/utils.o scitbx/boost_python/slice.o scitbx/array_family/boost_python/utils.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 +Create symlinks for: 'lib/iotbx_cif_ext.so.0.0.1' + 'lib/iotbx_cif_ext.so.0'->'lib/iotbx_cif_ext.so.0.0.1' + 'lib/iotbx_cif_ext.so'->'lib/iotbx_cif_ext.so.0.0.1' +g++ -o spotfinder/core_toolbox/distl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/core_toolbox/distl.cpp +Create symlinks for: 'lib/libscitbx_boost_python.so.0.0.1' + 'lib/libscitbx_boost_python.so.0'->'lib/libscitbx_boost_python.so.0.0.1' + 'lib/libscitbx_boost_python.so'->'lib/libscitbx_boost_python.so.0.0.1' +g++ -o lib/cctbx_adptbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_adptbx_ext.so.0 cctbx/adptbx/boost_python/adptbx_ext.o cctbx/adptbx/boost_python/hirshfeld.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/iotbx_xplor_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_xplor_ext.so.0 iotbx/xplor/boost_python/xplor_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -liotbx_xplor -lcctbx -lboost_thread -lboost_system -lboost_python313 -lm g++ -o lib/cctbx_maptbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_maptbx_ext.so.0 cctbx/maptbx/boost_python/maptbx_ext.o cctbx/maptbx/boost_python/grid_indices_around_sites.o cctbx/maptbx/boost_python/grid_tags.o cctbx/maptbx/boost_python/gridding.o cctbx/maptbx/boost_python/misc.o cctbx/maptbx/boost_python/peak_search.o cctbx/maptbx/boost_python/pymol_interface.o cctbx/maptbx/boost_python/statistics.o cctbx/maptbx/boost_python/structure_factors.o cctbx/maptbx/boost_python/coordinate_transformers.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1' - 'lib/cctbx_eltbx_fp_fdp_ext.so.0'->'lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1' - 'lib/cctbx_eltbx_fp_fdp_ext.so'->'lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1' -g++ -o lib/cctbx_geometry_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_geometry_restraints_ext.so.0 cctbx/geometry_restraints/geometry_restraints_ext.o cctbx/geometry_restraints/bond_bpl.o cctbx/geometry_restraints/bond_similarity_bpl.o cctbx/geometry_restraints/bond_sorted_bpl.o cctbx/geometry_restraints/nonbonded_bpl.o cctbx/geometry_restraints/nonbonded_sorted_bpl.o cctbx/geometry_restraints/angle_bpl.o cctbx/geometry_restraints/dihedral_bpl.o cctbx/geometry_restraints/chirality_bpl.o cctbx/geometry_restraints/planarity_bpl.o cctbx/geometry_restraints/parallelity_bpl.o cctbx/geometry_restraints/motif_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -g++ -o lib/cctbx_xray_observations_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_xray_observations_ext.so.0 cctbx/xray/observations/boost_python/observations.o cctbx/xray/observations/boost_python/observations_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/cctbx_sgtbx_asu_ext.so.0.0.1' - 'lib/cctbx_sgtbx_asu_ext.so.0'->'lib/cctbx_sgtbx_asu_ext.so.0.0.1' - 'lib/cctbx_sgtbx_asu_ext.so'->'lib/cctbx_sgtbx_asu_ext.so.0.0.1' -g++ -o lib/cctbx_crystal_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_crystal_ext.so.0 cctbx/crystal/crystal_ext.o cctbx/crystal/asu_clusters_bpl.o cctbx/crystal/close_packing_bpl.o cctbx/crystal/coordination_sequences_bpl.o cctbx/crystal/direct_space_asu_bpl.o cctbx/crystal/incremental_pairs_bpl.o cctbx/crystal/neighbors_bpl.o cctbx/crystal/pair_tables_bpl.o cctbx/crystal/site_cluster_analysis_bpl.o cctbx/crystal/symmetry_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/iotbx_xplor_ext.so.0.0.1' + 'lib/iotbx_xplor_ext.so.0'->'lib/iotbx_xplor_ext.so.0.0.1' + 'lib/iotbx_xplor_ext.so'->'lib/iotbx_xplor_ext.so.0.0.1' +g++ -o lib/cctbx_eltbx_neutron_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_neutron_ext.so.0 cctbx/eltbx/boost_python/neutron_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/cctbx_adptbx_ext.so.0.0.1' 'lib/cctbx_adptbx_ext.so.0'->'lib/cctbx_adptbx_ext.so.0.0.1' 'lib/cctbx_adptbx_ext.so'->'lib/cctbx_adptbx_ext.so.0.0.1' +g++ -o lib/cctbx_geometry_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_geometry_restraints_ext.so.0 cctbx/geometry_restraints/geometry_restraints_ext.o cctbx/geometry_restraints/bond_bpl.o cctbx/geometry_restraints/bond_similarity_bpl.o cctbx/geometry_restraints/bond_sorted_bpl.o cctbx/geometry_restraints/nonbonded_bpl.o cctbx/geometry_restraints/nonbonded_sorted_bpl.o cctbx/geometry_restraints/angle_bpl.o cctbx/geometry_restraints/dihedral_bpl.o cctbx/geometry_restraints/chirality_bpl.o cctbx/geometry_restraints/planarity_bpl.o cctbx/geometry_restraints/parallelity_bpl.o cctbx/geometry_restraints/motif_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/cctbx_eltbx_neutron_ext.so.0.0.1' + 'lib/cctbx_eltbx_neutron_ext.so.0'->'lib/cctbx_eltbx_neutron_ext.so.0.0.1' + 'lib/cctbx_eltbx_neutron_ext.so'->'lib/cctbx_eltbx_neutron_ext.so.0.0.1' +g++ -o lib/cctbx_eltbx_tiny_pse_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_tiny_pse_ext.so.0 cctbx/eltbx/boost_python/tiny_pse_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o lib/cctbx_math_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_math_ext.so.0 cctbx/math/boost_python/math_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/cctbx_eltbx_tiny_pse_ext.so.0.0.1' + 'lib/cctbx_eltbx_tiny_pse_ext.so.0'->'lib/cctbx_eltbx_tiny_pse_ext.so.0.0.1' + 'lib/cctbx_eltbx_tiny_pse_ext.so'->'lib/cctbx_eltbx_tiny_pse_ext.so.0.0.1' g++ -o lib/dxtbx_masking_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_masking_ext.so.0 dxtbx/src/dxtbx/masking/boost_python/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lboost_thread -lboost_system -lm -lcctbx -lscitbx_boost_python -ltiff -lboost_python313 -lcbf -lhdf5 -g++ -o lib/gltbx_fonts_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_fonts_ext.so.0 gltbx/fonts_ext.o gltbx/font_ucs_8x13.o gltbx/font_ucs_9x15.o gltbx/font_ucs_10x20.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lGLU -lGL -lm -Create symlinks for: 'lib/libiotbx_pdb.so.0.0.1' - 'lib/libiotbx_pdb.so.0'->'lib/libiotbx_pdb.so.0.0.1' - 'lib/libiotbx_pdb.so'->'lib/libiotbx_pdb.so.0.0.1' -g++ -o lib/iotbx_pdb_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_pdb_ext.so.0 iotbx/pdb/ext.o iotbx/pdb/hybrid_36_bpl.o iotbx/pdb/common_residue_names_bpl.o iotbx/pdb/rna_dna_atom_names_bpl.o iotbx/pdb/input_bpl.o iotbx/pdb/xray_structure_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -liotbx_pdb -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/cctbx_math_ext.so.0.0.1' + 'lib/cctbx_math_ext.so.0'->'lib/cctbx_math_ext.so.0.0.1' + 'lib/cctbx_math_ext.so'->'lib/cctbx_math_ext.so.0.0.1' +g++ -o lib/cctbx_xray_observations_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_xray_observations_ext.so.0 cctbx/xray/observations/boost_python/observations.o cctbx/xray/observations/boost_python/observations_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/cctbx_xray_observations_ext.so.0.0.1' 'lib/cctbx_xray_observations_ext.so.0'->'lib/cctbx_xray_observations_ext.so.0.0.1' 'lib/cctbx_xray_observations_ext.so'->'lib/cctbx_xray_observations_ext.so.0.0.1' +g++ -o lib/cctbx_crystal_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_crystal_ext.so.0 cctbx/crystal/crystal_ext.o cctbx/crystal/asu_clusters_bpl.o cctbx/crystal/close_packing_bpl.o cctbx/crystal/coordination_sequences_bpl.o cctbx/crystal/direct_space_asu_bpl.o cctbx/crystal/incremental_pairs_bpl.o cctbx/crystal/neighbors_bpl.o cctbx/crystal/pair_tables_bpl.o cctbx/crystal/site_cluster_analysis_bpl.o cctbx/crystal/symmetry_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/cctbx_maptbx_ext.so.0.0.1' + 'lib/cctbx_maptbx_ext.so.0'->'lib/cctbx_maptbx_ext.so.0.0.1' + 'lib/cctbx_maptbx_ext.so'->'lib/cctbx_maptbx_ext.so.0.0.1' +g++ -o lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_chemical_elements_ext.so.0 cctbx/eltbx/boost_python/chemical_elements_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/dxtbx_masking_ext.so.0.0.1' + 'lib/dxtbx_masking_ext.so.0'->'lib/dxtbx_masking_ext.so.0.0.1' + 'lib/dxtbx_masking_ext.so'->'lib/dxtbx_masking_ext.so.0.0.1' g++ -o lib/cctbx_statistics_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_statistics_ext.so.0 cctbx/boost_python/statistics_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/iotbx_mtz_ext.so.0.0.1' - 'lib/iotbx_mtz_ext.so.0'->'lib/iotbx_mtz_ext.so.0.0.1' - 'lib/iotbx_mtz_ext.so'->'lib/iotbx_mtz_ext.so.0.0.1' -g++ -o lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_maptbx_bcr_bcr_ext.so.0 cctbx/maptbx/bcr/bcr_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/gltbx_fonts_ext.so.0.0.1' - 'lib/gltbx_fonts_ext.so.0'->'lib/gltbx_fonts_ext.so.0.0.1' - 'lib/gltbx_fonts_ext.so'->'lib/gltbx_fonts_ext.so.0.0.1' -g++ -o lib/cctbx_eltbx_wavelengths_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_wavelengths_ext.so.0 cctbx/eltbx/boost_python/wavelengths_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -g++ -o lib/iotbx_cif_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_cif_ext.so.0 iotbx/cif/boost_python/cif_ext.o ucif/cifParser.o ucif/cifLexer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm -lantlr3c +Create symlinks for: 'lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1' + 'lib/cctbx_eltbx_chemical_elements_ext.so.0'->'lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1' + 'lib/cctbx_eltbx_chemical_elements_ext.so'->'lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1' +g++ -o lib/iotbx_mtz_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_mtz_ext.so.0 iotbx/mtz/ext.o iotbx/mtz/object_bpl.o iotbx/mtz/crystal_bpl.o iotbx/mtz/dataset_bpl.o iotbx/mtz/column_bpl.o iotbx/mtz/batch_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -liotbx_mtz -lcctbx -lccp4io -lccp4c -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/cctbx_statistics_ext.so.0.0.1' 'lib/cctbx_statistics_ext.so.0'->'lib/cctbx_statistics_ext.so.0.0.1' 'lib/cctbx_statistics_ext.so'->'lib/cctbx_statistics_ext.so.0.0.1' g++ -o lib/cctbx_orientation_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_orientation_ext.so.0 cctbx/boost_python/orientation_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/iotbx_pdb_ext.so.0.0.1' - 'lib/iotbx_pdb_ext.so.0'->'lib/iotbx_pdb_ext.so.0.0.1' - 'lib/iotbx_pdb_ext.so'->'lib/iotbx_pdb_ext.so.0.0.1' -Create symlinks for: 'lib/cctbx_miller_ext.so.0.0.1' - 'lib/cctbx_miller_ext.so.0'->'lib/cctbx_miller_ext.so.0.0.1' - 'lib/cctbx_miller_ext.so'->'lib/cctbx_miller_ext.so.0.0.1' -g++ -o lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_covalent_radii_ext.so.0 cctbx/eltbx/boost_python/covalent_radii_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1' - 'lib/cctbx_maptbx_bcr_bcr_ext.so.0'->'lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1' - 'lib/cctbx_maptbx_bcr_bcr_ext.so'->'lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1' -Create symlinks for: 'lib/iotbx_cif_ext.so.0.0.1' - 'lib/iotbx_cif_ext.so.0'->'lib/iotbx_cif_ext.so.0.0.1' - 'lib/iotbx_cif_ext.so'->'lib/iotbx_cif_ext.so.0.0.1' -g++ -o lib/cctbx_asymmetric_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_asymmetric_map_ext.so.0 cctbx/maptbx/asymmetric_map_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lasymmetric_map -liotbx_xplor -lcctbx_sgtbx_asu -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/cctbx_orientation_ext.so.0.0.1' + 'lib/cctbx_orientation_ext.so.0'->'lib/cctbx_orientation_ext.so.0.0.1' + 'lib/cctbx_orientation_ext.so'->'lib/cctbx_orientation_ext.so.0.0.1' g++ -o lib/cctbx_adp_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_adp_restraints_ext.so.0 cctbx/adp_restraints/adp_restraints_bpl.o cctbx/adp_restraints/adp_restraints_ext.o cctbx/adp_restraints/rigid_bond_bpl.o cctbx/adp_restraints/rigu_bpl.o cctbx/adp_restraints/adp_similarity_bpl.o cctbx/adp_restraints/isotropic_adp_bpl.o cctbx/adp_restraints/aniso_restraints_bpl.o cctbx/adp_restraints/fixed_u_eq_adp_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/dxtbx_masking_ext.so.0.0.1' - 'lib/dxtbx_masking_ext.so.0'->'lib/dxtbx_masking_ext.so.0.0.1' - 'lib/dxtbx_masking_ext.so'->'lib/dxtbx_masking_ext.so.0.0.1' g++ -o lib/dxtbx_flumpy.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_flumpy.so.0 dxtbx/src/dxtbx/boost_python/flumpy.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python313 -lcbf -lboost_thread -lboost_system -lm -lcctbx -lscitbx_boost_python -ltiff -lboost_python313 -lcbf -lhdf5 +g++ -o lib/libiotbx_pdb.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libiotbx_pdb.so.0 iotbx/pdb/hybrid_36_c.o iotbx/pdb/hybrid_36_cpp.o iotbx/pdb/utils.o iotbx/pdb/write_utils.o iotbx/pdb/hierarchy.o iotbx/pdb/hierarchy_select.o iotbx/pdb/hierarchy_atoms.o iotbx/pdb/construct_hierarchy.o iotbx/pdb/overall_counts.o iotbx/pdb/hierarchy_write.o iotbx/pdb/atom_selection.o iotbx/pdb/input.o iotbx/pdb/input_write.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system +Create symlinks for: 'lib/iotbx_mtz_ext.so.0.0.1' + 'lib/iotbx_mtz_ext.so.0'->'lib/iotbx_mtz_ext.so.0.0.1' + 'lib/iotbx_mtz_ext.so'->'lib/iotbx_mtz_ext.so.0.0.1' g++ -o lib/cctbx_translation_search_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_translation_search_ext.so.0 cctbx/translation_search/boost_python/translation_search_ext.o cctbx/translation_search/boost_python/fast_nv1995.o cctbx/translation_search/boost_python/fast_terms.o cctbx/translation_search/boost_python/symmetry_flags.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/cctbx_eltbx_wavelengths_ext.so.0.0.1' - 'lib/cctbx_eltbx_wavelengths_ext.so.0'->'lib/cctbx_eltbx_wavelengths_ext.so.0.0.1' - 'lib/cctbx_eltbx_wavelengths_ext.so'->'lib/cctbx_eltbx_wavelengths_ext.so.0.0.1' +Create symlinks for: 'lib/cctbx_crystal_ext.so.0.0.1' + 'lib/cctbx_crystal_ext.so.0'->'lib/cctbx_crystal_ext.so.0.0.1' + 'lib/cctbx_crystal_ext.so'->'lib/cctbx_crystal_ext.so.0.0.1' g++ -o lib/determine_unit_cell_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=determine_unit_cell_ext.so.0 cctbx/uctbx/determine_unit_cell/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/cctbx_orientation_ext.so.0.0.1' - 'lib/cctbx_orientation_ext.so.0'->'lib/cctbx_orientation_ext.so.0.0.1' - 'lib/cctbx_orientation_ext.so'->'lib/cctbx_orientation_ext.so.0.0.1' -g++ -o lib/cctbx_eltbx_neutron_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_neutron_ext.so.0 cctbx/eltbx/boost_python/neutron_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1' - 'lib/cctbx_eltbx_covalent_radii_ext.so.0'->'lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1' - 'lib/cctbx_eltbx_covalent_radii_ext.so'->'lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1' +g++ -o lib/cctbx_xray_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_xray_ext.so.0 cctbx/xray/boost_python/xray_ext.o cctbx/xray/boost_python/conversions.o cctbx/xray/boost_python/gradient_flags.o cctbx/xray/boost_python/gradients_direct.o cctbx/xray/boost_python/each_hkl_gradients_direct.o cctbx/xray/boost_python/fast_gradients.o cctbx/xray/boost_python/minimization.o cctbx/xray/boost_python/scatterer_flags.o cctbx/xray/boost_python/scatterer.o cctbx/xray/boost_python/scattering_type_registry.o cctbx/xray/boost_python/sampling_base.o cctbx/xray/boost_python/sampled_model_density.o cctbx/xray/boost_python/structure_factors_direct.o cctbx/xray/boost_python/structure_factors_simple.o cctbx/xray/boost_python/curvatures_simple.o cctbx/xray/boost_python/targets.o cctbx/xray/boost_python/f_model_bpl.o cctbx/xray/boost_python/twin_targets.o cctbx/xray/boost_python/grouped_data.o cctbx/xray/boost_python/parameter_map.o cctbx/xray/boost_python/twin_components.o cctbx/xray/boost_python/extinction.o cctbx/xray/boost_python/sigmaa.o cctbx/xray/targets/shelxl_wght_ls_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/dxtbx_flumpy.so.0.0.1' + 'lib/dxtbx_flumpy.so.0'->'lib/dxtbx_flumpy.so.0.0.1' + 'lib/dxtbx_flumpy.so'->'lib/dxtbx_flumpy.so.0.0.1' g++ -o lib/cctbx_dmtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_dmtbx_ext.so.0 cctbx/dmtbx/boost_python/dmtbx_ext.o cctbx/dmtbx/boost_python/triplet_phase_relation.o cctbx/dmtbx/boost_python/triplet_generator.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/cctbx_maptbx_ext.so.0.0.1' - 'lib/cctbx_maptbx_ext.so.0'->'lib/cctbx_maptbx_ext.so.0.0.1' - 'lib/cctbx_maptbx_ext.so'->'lib/cctbx_maptbx_ext.so.0.0.1' -Create symlinks for: 'lib/cctbx_asymmetric_map_ext.so.0.0.1' - 'lib/cctbx_asymmetric_map_ext.so.0'->'lib/cctbx_asymmetric_map_ext.so.0.0.1' - 'lib/cctbx_asymmetric_map_ext.so'->'lib/cctbx_asymmetric_map_ext.so.0.0.1' +Create symlinks for: 'lib/determine_unit_cell_ext.so.0.0.1' + 'lib/determine_unit_cell_ext.so.0'->'lib/determine_unit_cell_ext.so.0.0.1' + 'lib/determine_unit_cell_ext.so'->'lib/determine_unit_cell_ext.so.0.0.1' g++ -o lib/cctbx_sgtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_sgtbx_ext.so.0 cctbx/sgtbx/boost_python/sgtbx_ext.o cctbx/sgtbx/boost_python/brick.o cctbx/sgtbx/boost_python/change_of_basis.o cctbx/sgtbx/boost_python/find_affine.o cctbx/sgtbx/boost_python/lattice_symmetry.o cctbx/sgtbx/boost_python/phase_info.o cctbx/sgtbx/boost_python/reciprocal_space_asu.o cctbx/sgtbx/boost_python/rot_mx.o cctbx/sgtbx/boost_python/rt_mx.o cctbx/sgtbx/boost_python/search_symmetry.o cctbx/sgtbx/boost_python/seminvariant.o cctbx/sgtbx/boost_python/site_symmetry.o cctbx/sgtbx/boost_python/space_group.o cctbx/sgtbx/boost_python/space_group_type.o cctbx/sgtbx/boost_python/sym_equiv_sites.o cctbx/sgtbx/boost_python/symbols.o cctbx/sgtbx/boost_python/tensor_rank_2.o cctbx/sgtbx/boost_python/tensors.o cctbx/sgtbx/boost_python/tr_vec.o cctbx/sgtbx/boost_python/wyckoff.o cctbx/sgtbx/boost_python/select_generators.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -g++ -o lib/cctbx_eltbx_tiny_pse_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_tiny_pse_ext.so.0 cctbx/eltbx/boost_python/tiny_pse_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/cctbx_eltbx_neutron_ext.so.0.0.1' - 'lib/cctbx_eltbx_neutron_ext.so.0'->'lib/cctbx_eltbx_neutron_ext.so.0.0.1' - 'lib/cctbx_eltbx_neutron_ext.so'->'lib/cctbx_eltbx_neutron_ext.so.0.0.1' -g++ -o lib/gltbx_util_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_util_ext.so.0 gltbx/util_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lGLU -lGL -lm Create symlinks for: 'lib/cctbx_translation_search_ext.so.0.0.1' 'lib/cctbx_translation_search_ext.so.0'->'lib/cctbx_translation_search_ext.so.0.0.1' 'lib/cctbx_translation_search_ext.so'->'lib/cctbx_translation_search_ext.so.0.0.1' -Create symlinks for: 'lib/determine_unit_cell_ext.so.0.0.1' - 'lib/determine_unit_cell_ext.so.0'->'lib/determine_unit_cell_ext.so.0.0.1' - 'lib/determine_unit_cell_ext.so'->'lib/determine_unit_cell_ext.so.0.0.1' -g++ -o lib/cctbx_math_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_math_ext.so.0 cctbx/math/boost_python/math_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/dxtbx_flumpy.so.0.0.1' - 'lib/dxtbx_flumpy.so.0'->'lib/dxtbx_flumpy.so.0.0.1' - 'lib/dxtbx_flumpy.so'->'lib/dxtbx_flumpy.so.0.0.1' -g++ -o lib/gltbx_quadrics_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_quadrics_ext.so.0 gltbx/quadrics_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lGLU -lGL -lm -g++ -o lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_chemical_elements_ext.so.0 cctbx/eltbx/boost_python/chemical_elements_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o lib/cctbx_uctbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_uctbx_ext.so.0 cctbx/uctbx/boost_python/uctbx_ext.o cctbx/uctbx/boost_python/fast_minimum_reduction.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/libiotbx_pdb.so.0.0.1' + 'lib/libiotbx_pdb.so.0'->'lib/libiotbx_pdb.so.0.0.1' + 'lib/libiotbx_pdb.so'->'lib/libiotbx_pdb.so.0.0.1' Create symlinks for: 'lib/cctbx_dmtbx_ext.so.0.0.1' 'lib/cctbx_dmtbx_ext.so.0'->'lib/cctbx_dmtbx_ext.so.0.0.1' 'lib/cctbx_dmtbx_ext.so'->'lib/cctbx_dmtbx_ext.so.0.0.1' +Create symlinks for: 'lib/cctbx_geometry_restraints_ext.so.0.0.1' + 'lib/cctbx_geometry_restraints_ext.so.0'->'lib/cctbx_geometry_restraints_ext.so.0.0.1' + 'lib/cctbx_geometry_restraints_ext.so'->'lib/cctbx_geometry_restraints_ext.so.0.0.1' +g++ -o lib/iotbx_pdb_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_pdb_ext.so.0 iotbx/pdb/ext.o iotbx/pdb/hybrid_36_bpl.o iotbx/pdb/common_residue_names_bpl.o iotbx/pdb/rna_dna_atom_names_bpl.o iotbx/pdb/input_bpl.o iotbx/pdb/xray_structure_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -liotbx_pdb -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/cctbx_adp_restraints_ext.so.0.0.1' + 'lib/cctbx_adp_restraints_ext.so.0'->'lib/cctbx_adp_restraints_ext.so.0.0.1' + 'lib/cctbx_adp_restraints_ext.so'->'lib/cctbx_adp_restraints_ext.so.0.0.1' +g++ -o lib/cctbx_eltbx_xray_scattering_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_xray_scattering_ext.so.0 cctbx/eltbx/boost_python/xray_scattering_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o lib/gltbx_glu_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_glu_ext.so.0 gltbx/glu_ext.o gltbx/glu_defines_00_bpl.o gltbx/glu_defines_01_bpl.o gltbx/glu_functions_00_bpl.o gltbx/glu_functions_01_bpl.o gltbx/glu_functions_02_bpl.o gltbx/glu_functions_03_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lGLU -lGL -lm +g++ -o lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_attenuation_coefficient_ext.so.0 cctbx/eltbx/boost_python/attenuation_coefficient_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/cctbx_uctbx_ext.so.0.0.1' + 'lib/cctbx_uctbx_ext.so.0'->'lib/cctbx_uctbx_ext.so.0.0.1' + 'lib/cctbx_uctbx_ext.so'->'lib/cctbx_uctbx_ext.so.0.0.1' +g++ -o lib/gltbx_viewer_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_viewer_utils_ext.so.0 gltbx/viewer_utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lGLU -lGL -lm +Create symlinks for: 'lib/iotbx_pdb_ext.so.0.0.1' + 'lib/iotbx_pdb_ext.so.0'->'lib/iotbx_pdb_ext.so.0.0.1' + 'lib/iotbx_pdb_ext.so'->'lib/iotbx_pdb_ext.so.0.0.1' g++ -o lib/cctbx_symmetry_search_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_symmetry_search_ext.so.0 cctbx/symmetry_search/boost_python/symmetry_search_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/cctbx_crystal_ext.so.0.0.1' - 'lib/cctbx_crystal_ext.so.0'->'lib/cctbx_crystal_ext.so.0.0.1' - 'lib/cctbx_crystal_ext.so'->'lib/cctbx_crystal_ext.so.0.0.1' -Create symlinks for: 'lib/cctbx_eltbx_tiny_pse_ext.so.0.0.1' - 'lib/cctbx_eltbx_tiny_pse_ext.so.0'->'lib/cctbx_eltbx_tiny_pse_ext.so.0.0.1' - 'lib/cctbx_eltbx_tiny_pse_ext.so'->'lib/cctbx_eltbx_tiny_pse_ext.so.0.0.1' -Create symlinks for: 'lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1' - 'lib/cctbx_eltbx_chemical_elements_ext.so.0'->'lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1' - 'lib/cctbx_eltbx_chemical_elements_ext.so'->'lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1' +Create symlinks for: 'lib/gltbx_glu_ext.so.0.0.1' + 'lib/gltbx_glu_ext.so.0'->'lib/gltbx_glu_ext.so.0.0.1' + 'lib/gltbx_glu_ext.so'->'lib/gltbx_glu_ext.so.0.0.1' +g++ -o lib/gltbx_gl_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_gl_ext.so.0 gltbx/gl_ext.o gltbx/gl_defines_00_bpl.o gltbx/gl_defines_01_bpl.o gltbx/gl_defines_02_bpl.o gltbx/gl_defines_03_bpl.o gltbx/gl_defines_04_bpl.o gltbx/gl_defines_05_bpl.o gltbx/gl_defines_06_bpl.o gltbx/gl_defines_07_bpl.o gltbx/gl_functions_00_bpl.o gltbx/gl_functions_01_bpl.o gltbx/gl_functions_02_bpl.o gltbx/gl_functions_03_bpl.o gltbx/gl_functions_04_bpl.o gltbx/gl_functions_05_bpl.o gltbx/gl_functions_06_bpl.o gltbx/gl_functions_07_bpl.o gltbx/gl_functions_08_bpl.o gltbx/gl_functions_09_bpl.o gltbx/gl_functions_10_bpl.o gltbx/gl_functions_11_bpl.o gltbx/gl_functions_12_bpl.o gltbx/gl_functions_13_bpl.o gltbx/gl_functions_14_bpl.o gltbx/gl_functions_15_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lGLU -lGL -lm +Create symlinks for: 'lib/gltbx_viewer_utils_ext.so.0.0.1' + 'lib/gltbx_viewer_utils_ext.so.0'->'lib/gltbx_viewer_utils_ext.so.0.0.1' + 'lib/gltbx_viewer_utils_ext.so'->'lib/gltbx_viewer_utils_ext.so.0.0.1' g++ -o lib/cctbx_geometry_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_geometry_ext.so.0 cctbx/geometry/boost_python/geometry_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/cctbx_eltbx_xray_scattering_ext.so.0.0.1' + 'lib/cctbx_eltbx_xray_scattering_ext.so.0'->'lib/cctbx_eltbx_xray_scattering_ext.so.0.0.1' + 'lib/cctbx_eltbx_xray_scattering_ext.so'->'lib/cctbx_eltbx_xray_scattering_ext.so.0.0.1' g++ -o lib/cctbx_anharmonic_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_anharmonic_ext.so.0 cctbx/adptbx/boost_python/anharmonic_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/cctbx_math_ext.so.0.0.1' - 'lib/cctbx_math_ext.so.0'->'lib/cctbx_math_ext.so.0.0.1' - 'lib/cctbx_math_ext.so'->'lib/cctbx_math_ext.so.0.0.1' -g++ -o lib/cctbx_array_family_flex_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_array_family_flex_ext.so.0 cctbx/array_family/boost_python/flex_ext.o cctbx/array_family/boost_python/flex_hendrickson_lattman.o cctbx/array_family/boost_python/flex_miller_index.o cctbx/array_family/boost_python/flex_xray_scatterer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -g++ -o lib/cctbx_eltbx_henke_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_henke_ext.so.0 cctbx/eltbx/boost_python/henke_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/gltbx_util_ext.so.0.0.1' - 'lib/gltbx_util_ext.so.0'->'lib/gltbx_util_ext.so.0.0.1' - 'lib/gltbx_util_ext.so'->'lib/gltbx_util_ext.so.0.0.1' -g++ -o lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_icsd_radii_ext.so.0 cctbx/eltbx/boost_python/icsd_radii_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/gltbx_quadrics_ext.so.0.0.1' - 'lib/gltbx_quadrics_ext.so.0'->'lib/gltbx_quadrics_ext.so.0.0.1' - 'lib/gltbx_quadrics_ext.so'->'lib/gltbx_quadrics_ext.so.0.0.1' -g++ -o lib/cctbx_uctbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_uctbx_ext.so.0 cctbx/uctbx/boost_python/uctbx_ext.o cctbx/uctbx/boost_python/fast_minimum_reduction.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1' + 'lib/cctbx_eltbx_attenuation_coefficient_ext.so.0'->'lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1' + 'lib/cctbx_eltbx_attenuation_coefficient_ext.so'->'lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1' +g++ -o lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_maptbx_bcr_bcr_ext.so.0 cctbx/maptbx/bcr/bcr_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o lib/cctbx_eltbx_sasaki_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_sasaki_ext.so.0 cctbx/eltbx/boost_python/sasaki_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/cctbx_symmetry_search_ext.so.0.0.1' 'lib/cctbx_symmetry_search_ext.so.0'->'lib/cctbx_symmetry_search_ext.so.0.0.1' 'lib/cctbx_symmetry_search_ext.so'->'lib/cctbx_symmetry_search_ext.so.0.0.1' -g++ -o lib/cctbx_emma_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_emma_ext.so.0 cctbx/boost_python/emma_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/cctbx_anharmonic_ext.so.0.0.1' - 'lib/cctbx_anharmonic_ext.so.0'->'lib/cctbx_anharmonic_ext.so.0.0.1' - 'lib/cctbx_anharmonic_ext.so'->'lib/cctbx_anharmonic_ext.so.0.0.1' -g++ -o lib/cctbx_eltbx_xray_scattering_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_xray_scattering_ext.so.0 cctbx/eltbx/boost_python/xray_scattering_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o lib/cctbx_array_family_flex_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_array_family_flex_ext.so.0 cctbx/array_family/boost_python/flex_ext.o cctbx/array_family/boost_python/flex_hendrickson_lattman.o cctbx/array_family/boost_python/flex_miller_index.o cctbx/array_family/boost_python/flex_xray_scatterer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/cctbx_geometry_ext.so.0.0.1' 'lib/cctbx_geometry_ext.so.0'->'lib/cctbx_geometry_ext.so.0.0.1' 'lib/cctbx_geometry_ext.so'->'lib/cctbx_geometry_ext.so.0.0.1' +g++ -o lib/cctbx_asymmetric_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_asymmetric_map_ext.so.0 cctbx/maptbx/asymmetric_map_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lasymmetric_map -liotbx_xplor -lcctbx_sgtbx_asu -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/cctbx_anharmonic_ext.so.0.0.1' + 'lib/cctbx_anharmonic_ext.so.0'->'lib/cctbx_anharmonic_ext.so.0.0.1' + 'lib/cctbx_anharmonic_ext.so'->'lib/cctbx_anharmonic_ext.so.0.0.1' +g++ -o lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_icsd_radii_ext.so.0 cctbx/eltbx/boost_python/icsd_radii_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1' + 'lib/cctbx_maptbx_bcr_bcr_ext.so.0'->'lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1' + 'lib/cctbx_maptbx_bcr_bcr_ext.so'->'lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1' +Create symlinks for: 'lib/gltbx_gl_ext.so.0.0.1' + 'lib/gltbx_gl_ext.so.0'->'lib/gltbx_gl_ext.so.0.0.1' + 'lib/gltbx_gl_ext.so'->'lib/gltbx_gl_ext.so.0.0.1' +g++ -o lib/cctbx_emma_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_emma_ext.so.0 cctbx/boost_python/emma_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o lib/gltbx_fonts_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_fonts_ext.so.0 gltbx/fonts_ext.o gltbx/font_ucs_8x13.o gltbx/font_ucs_9x15.o gltbx/font_ucs_10x20.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lGLU -lGL -lm +Create symlinks for: 'lib/cctbx_eltbx_sasaki_ext.so.0.0.1' + 'lib/cctbx_eltbx_sasaki_ext.so.0'->'lib/cctbx_eltbx_sasaki_ext.so.0.0.1' + 'lib/cctbx_eltbx_sasaki_ext.so'->'lib/cctbx_eltbx_sasaki_ext.so.0.0.1' +g++ -o lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_fp_fdp_ext.so.0 cctbx/eltbx/boost_python/fp_fdp_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/cctbx_asymmetric_map_ext.so.0.0.1' + 'lib/cctbx_asymmetric_map_ext.so.0'->'lib/cctbx_asymmetric_map_ext.so.0.0.1' + 'lib/cctbx_asymmetric_map_ext.so'->'lib/cctbx_asymmetric_map_ext.so.0.0.1' g++ -o lib/cctbx_covariance_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_covariance_ext.so.0 cctbx/covariance/boost_python/covariance_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1' 'lib/cctbx_eltbx_icsd_radii_ext.so.0'->'lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1' 'lib/cctbx_eltbx_icsd_radii_ext.so'->'lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1' +Create symlinks for: 'lib/cctbx_xray_ext.so.0.0.1' + 'lib/cctbx_xray_ext.so.0'->'lib/cctbx_xray_ext.so.0.0.1' + 'lib/cctbx_xray_ext.so'->'lib/cctbx_xray_ext.so.0.0.1' +Create symlinks for: 'lib/cctbx_covariance_ext.so.0.0.1' + 'lib/cctbx_covariance_ext.so.0'->'lib/cctbx_covariance_ext.so.0.0.1' + 'lib/cctbx_covariance_ext.so'->'lib/cctbx_covariance_ext.so.0.0.1' g++ -o lib/cctbx_multipolar_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_multipolar_ext.so.0 cctbx/multipolar/aspherical_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/cctbx_eltbx_henke_ext.so.0.0.1' - 'lib/cctbx_eltbx_henke_ext.so.0'->'lib/cctbx_eltbx_henke_ext.so.0.0.1' - 'lib/cctbx_eltbx_henke_ext.so'->'lib/cctbx_eltbx_henke_ext.so.0.0.1' -g++ -o lib/cctbx_french_wilson_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_french_wilson_ext.so.0 cctbx/boost_python/french_wilson_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1' + 'lib/cctbx_eltbx_fp_fdp_ext.so.0'->'lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1' + 'lib/cctbx_eltbx_fp_fdp_ext.so'->'lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1' Create symlinks for: 'lib/cctbx_emma_ext.so.0.0.1' 'lib/cctbx_emma_ext.so.0'->'lib/cctbx_emma_ext.so.0.0.1' 'lib/cctbx_emma_ext.so'->'lib/cctbx_emma_ext.so.0.0.1' -g++ -o lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_attenuation_coefficient_ext.so.0 cctbx/eltbx/boost_python/attenuation_coefficient_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/cctbx_eltbx_xray_scattering_ext.so.0.0.1' - 'lib/cctbx_eltbx_xray_scattering_ext.so.0'->'lib/cctbx_eltbx_xray_scattering_ext.so.0.0.1' - 'lib/cctbx_eltbx_xray_scattering_ext.so'->'lib/cctbx_eltbx_xray_scattering_ext.so.0.0.1' -Create symlinks for: 'lib/cctbx_adp_restraints_ext.so.0.0.1' - 'lib/cctbx_adp_restraints_ext.so.0'->'lib/cctbx_adp_restraints_ext.so.0.0.1' - 'lib/cctbx_adp_restraints_ext.so'->'lib/cctbx_adp_restraints_ext.so.0.0.1' -g++ -o lib/dxtbx_model_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_model_ext.so.0 dxtbx/src/dxtbx/model/boost_python/beam.o dxtbx/src/dxtbx/model/boost_python/spectrum.o dxtbx/src/dxtbx/model/boost_python/goniometer.o dxtbx/src/dxtbx/model/boost_python/kappa_goniometer.o dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.o dxtbx/src/dxtbx/model/boost_python/panel.o dxtbx/src/dxtbx/model/boost_python/detector.o dxtbx/src/dxtbx/model/boost_python/scan.o dxtbx/src/dxtbx/model/boost_python/scan_helpers.o dxtbx/src/dxtbx/model/boost_python/crystal.o dxtbx/src/dxtbx/model/boost_python/parallax_correction.o dxtbx/src/dxtbx/model/boost_python/pixel_to_millimeter.o dxtbx/src/dxtbx/model/boost_python/experiment.o dxtbx/src/dxtbx/model/boost_python/experiment_list.o dxtbx/src/dxtbx/model/boost_python/model_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python313 -lcbf -lboost_thread -lboost_system -lm -lcctbx -lscitbx_boost_python -ltiff -lboost_python313 -lcbf -lhdf5 +Create symlinks for: 'lib/cctbx_sgtbx_ext.so.0.0.1' + 'lib/cctbx_sgtbx_ext.so.0'->'lib/cctbx_sgtbx_ext.so.0.0.1' + 'lib/cctbx_sgtbx_ext.so'->'lib/cctbx_sgtbx_ext.so.0.0.1' +Create symlinks for: 'lib/gltbx_fonts_ext.so.0.0.1' + 'lib/gltbx_fonts_ext.so.0'->'lib/gltbx_fonts_ext.so.0.0.1' + 'lib/gltbx_fonts_ext.so'->'lib/gltbx_fonts_ext.so.0.0.1' +Create symlinks for: 'lib/cctbx_array_family_flex_ext.so.0.0.1' + 'lib/cctbx_array_family_flex_ext.so.0'->'lib/cctbx_array_family_flex_ext.so.0.0.1' + 'lib/cctbx_array_family_flex_ext.so'->'lib/cctbx_array_family_flex_ext.so.0.0.1' +g++ -o lib/cctbx_french_wilson_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_french_wilson_ext.so.0 cctbx/boost_python/french_wilson_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/cctbx_multipolar_ext.so.0.0.1' 'lib/cctbx_multipolar_ext.so.0'->'lib/cctbx_multipolar_ext.so.0.0.1' 'lib/cctbx_multipolar_ext.so'->'lib/cctbx_multipolar_ext.so.0.0.1' -Create symlinks for: 'lib/cctbx_covariance_ext.so.0.0.1' - 'lib/cctbx_covariance_ext.so.0'->'lib/cctbx_covariance_ext.so.0.0.1' - 'lib/cctbx_covariance_ext.so'->'lib/cctbx_covariance_ext.so.0.0.1' -g++ -o lib/gltbx_glu_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_glu_ext.so.0 gltbx/glu_ext.o gltbx/glu_defines_00_bpl.o gltbx/glu_defines_01_bpl.o gltbx/glu_functions_00_bpl.o gltbx/glu_functions_01_bpl.o gltbx/glu_functions_02_bpl.o gltbx/glu_functions_03_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lGLU -lGL -lm -g++ -o lib/cctbx_eltbx_sasaki_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_sasaki_ext.so.0 cctbx/eltbx/boost_python/sasaki_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -g++ -o lib/dxtbx_imageset_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_imageset_ext.so.0 dxtbx/src/dxtbx/boost_python/imageset_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python313 -lcbf -lhdf5 -lboost_thread -lboost_system -lm -lcctbx -lscitbx_boost_python -ltiff -lboost_python313 -lcbf -lhdf5 +g++ -o lib/dxtbx_model_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_model_ext.so.0 dxtbx/src/dxtbx/model/boost_python/beam.o dxtbx/src/dxtbx/model/boost_python/spectrum.o dxtbx/src/dxtbx/model/boost_python/goniometer.o dxtbx/src/dxtbx/model/boost_python/kappa_goniometer.o dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.o dxtbx/src/dxtbx/model/boost_python/panel.o dxtbx/src/dxtbx/model/boost_python/detector.o dxtbx/src/dxtbx/model/boost_python/scan.o dxtbx/src/dxtbx/model/boost_python/scan_helpers.o dxtbx/src/dxtbx/model/boost_python/crystal.o dxtbx/src/dxtbx/model/boost_python/parallax_correction.o dxtbx/src/dxtbx/model/boost_python/pixel_to_millimeter.o dxtbx/src/dxtbx/model/boost_python/experiment.o dxtbx/src/dxtbx/model/boost_python/experiment_list.o dxtbx/src/dxtbx/model/boost_python/model_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python313 -lcbf -lboost_thread -lboost_system -lm -lcctbx -lscitbx_boost_python -ltiff -lboost_python313 -lcbf -lhdf5 Create symlinks for: 'lib/cctbx_french_wilson_ext.so.0.0.1' 'lib/cctbx_french_wilson_ext.so.0'->'lib/cctbx_french_wilson_ext.so.0.0.1' 'lib/cctbx_french_wilson_ext.so'->'lib/cctbx_french_wilson_ext.so.0.0.1' +g++ -o lib/dxtbx_imageset_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_imageset_ext.so.0 dxtbx/src/dxtbx/boost_python/imageset_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python313 -lcbf -lhdf5 -lboost_thread -lboost_system -lm -lcctbx -lscitbx_boost_python -ltiff -lboost_python313 -lcbf -lhdf5 g++ -o lib/cctbx_masks_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_masks_ext.so.0 cctbx/masks/boost_python/masks_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/cctbx_uctbx_ext.so.0.0.1' - 'lib/cctbx_uctbx_ext.so.0'->'lib/cctbx_uctbx_ext.so.0.0.1' - 'lib/cctbx_uctbx_ext.so'->'lib/cctbx_uctbx_ext.so.0.0.1' -Create symlinks for: 'lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1' - 'lib/cctbx_eltbx_attenuation_coefficient_ext.so.0'->'lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1' - 'lib/cctbx_eltbx_attenuation_coefficient_ext.so'->'lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1' -g++ -o lib/cctbx_xray_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_xray_ext.so.0 cctbx/xray/boost_python/xray_ext.o cctbx/xray/boost_python/conversions.o cctbx/xray/boost_python/gradient_flags.o cctbx/xray/boost_python/gradients_direct.o cctbx/xray/boost_python/each_hkl_gradients_direct.o cctbx/xray/boost_python/fast_gradients.o cctbx/xray/boost_python/minimization.o cctbx/xray/boost_python/scatterer_flags.o cctbx/xray/boost_python/scatterer.o cctbx/xray/boost_python/scattering_type_registry.o cctbx/xray/boost_python/sampling_base.o cctbx/xray/boost_python/sampled_model_density.o cctbx/xray/boost_python/structure_factors_direct.o cctbx/xray/boost_python/structure_factors_simple.o cctbx/xray/boost_python/curvatures_simple.o cctbx/xray/boost_python/targets.o cctbx/xray/boost_python/f_model_bpl.o cctbx/xray/boost_python/twin_targets.o cctbx/xray/boost_python/grouped_data.o cctbx/xray/boost_python/parameter_map.o cctbx/xray/boost_python/twin_components.o cctbx/xray/boost_python/extinction.o cctbx/xray/boost_python/sigmaa.o cctbx/xray/targets/shelxl_wght_ls_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -g++ -o lib/gltbx_viewer_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_viewer_utils_ext.so.0 gltbx/viewer_utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lGLU -lGL -lm -Create symlinks for: 'lib/gltbx_glu_ext.so.0.0.1' - 'lib/gltbx_glu_ext.so.0'->'lib/gltbx_glu_ext.so.0.0.1' - 'lib/gltbx_glu_ext.so'->'lib/gltbx_glu_ext.so.0.0.1' -Create symlinks for: 'lib/cctbx_eltbx_sasaki_ext.so.0.0.1' - 'lib/cctbx_eltbx_sasaki_ext.so.0'->'lib/cctbx_eltbx_sasaki_ext.so.0.0.1' - 'lib/cctbx_eltbx_sasaki_ext.so'->'lib/cctbx_eltbx_sasaki_ext.so.0.0.1' -g++ -o lib/gltbx_gl_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_gl_ext.so.0 gltbx/gl_ext.o gltbx/gl_defines_00_bpl.o gltbx/gl_defines_01_bpl.o gltbx/gl_defines_02_bpl.o gltbx/gl_defines_03_bpl.o gltbx/gl_defines_04_bpl.o gltbx/gl_defines_05_bpl.o gltbx/gl_defines_06_bpl.o gltbx/gl_defines_07_bpl.o gltbx/gl_functions_00_bpl.o gltbx/gl_functions_01_bpl.o gltbx/gl_functions_02_bpl.o gltbx/gl_functions_03_bpl.o gltbx/gl_functions_04_bpl.o gltbx/gl_functions_05_bpl.o gltbx/gl_functions_06_bpl.o gltbx/gl_functions_07_bpl.o gltbx/gl_functions_08_bpl.o gltbx/gl_functions_09_bpl.o gltbx/gl_functions_10_bpl.o gltbx/gl_functions_11_bpl.o gltbx/gl_functions_12_bpl.o gltbx/gl_functions_13_bpl.o gltbx/gl_functions_14_bpl.o gltbx/gl_functions_15_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lGLU -lGL -lm -Create symlinks for: 'lib/cctbx_array_family_flex_ext.so.0.0.1' - 'lib/cctbx_array_family_flex_ext.so.0'->'lib/cctbx_array_family_flex_ext.so.0.0.1' - 'lib/cctbx_array_family_flex_ext.so'->'lib/cctbx_array_family_flex_ext.so.0.0.1' +g++ -o lib/cctbx_eltbx_wavelengths_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_wavelengths_ext.so.0 cctbx/eltbx/boost_python/wavelengths_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o lib/cctbx_merging_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_merging_ext.so.0 cctbx/merging/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o lib/gltbx_util_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_util_ext.so.0 gltbx/util_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lGLU -lGL -lm +g++ -o lib/cctbx_miller_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_miller_ext.so.0 cctbx/miller/boost_python/miller_ext.o cctbx/miller/boost_python/asu.o cctbx/miller/boost_python/bins.o cctbx/miller/boost_python/change_basis.o cctbx/miller/boost_python/expand_to_p1.o cctbx/miller/boost_python/index_generator.o cctbx/miller/boost_python/index_span.o cctbx/miller/boost_python/match_bijvoet_mates.o cctbx/miller/boost_python/match_indices.o cctbx/miller/boost_python/match_multi_indices.o cctbx/miller/boost_python/merge_equivalents.o cctbx/miller/boost_python/phase_integrator.o cctbx/miller/boost_python/phase_transfer.o cctbx/miller/boost_python/sym_equiv.o cctbx/miller/boost_python/f_calc_map.o cctbx/miller/boost_python/lookup_utils.o cctbx/miller/boost_python/amplitude_normalisation.o cctbx/miller/boost_python/randomize_amplitude_and_phase.o cctbx/miller/boost_python/slices.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o lib/cctbx_sgtbx_asu_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_sgtbx_asu_ext.so.0 cctbx/sgtbx/direct_space_asu/proto/asu_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_covalent_radii_ext.so.0 cctbx/eltbx/boost_python/covalent_radii_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o lib/cctbx_eltbx_henke_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_henke_ext.so.0 cctbx/eltbx/boost_python/henke_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/cctbx_eltbx_wavelengths_ext.so.0.0.1' + 'lib/cctbx_eltbx_wavelengths_ext.so.0'->'lib/cctbx_eltbx_wavelengths_ext.so.0.0.1' + 'lib/cctbx_eltbx_wavelengths_ext.so'->'lib/cctbx_eltbx_wavelengths_ext.so.0.0.1' +g++ -o lib/gltbx_quadrics_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_quadrics_ext.so.0 gltbx/quadrics_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lGLU -lGL -lm Create symlinks for: 'lib/cctbx_masks_ext.so.0.0.1' 'lib/cctbx_masks_ext.so.0'->'lib/cctbx_masks_ext.so.0.0.1' 'lib/cctbx_masks_ext.so'->'lib/cctbx_masks_ext.so.0.0.1' -g++ -o lib/cctbx_merging_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_merging_ext.so.0 cctbx/merging/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -g++ -o lib/iotbx_wildcard_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_wildcard_ext.so.0 iotbx/wildcard_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lboost_python313 -lm -g++ -o lib/iotbx_xplor_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_xplor_ext.so.0 iotbx/xplor/boost_python/xplor_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -liotbx_xplor -lcctbx -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/gltbx_viewer_utils_ext.so.0.0.1' - 'lib/gltbx_viewer_utils_ext.so.0'->'lib/gltbx_viewer_utils_ext.so.0.0.1' - 'lib/gltbx_viewer_utils_ext.so'->'lib/gltbx_viewer_utils_ext.so.0.0.1' +g++ -o spotfinder/core_toolbox/spotfilter.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/core_toolbox/spotfilter.cpp Create symlinks for: 'lib/cctbx_merging_ext.so.0.0.1' 'lib/cctbx_merging_ext.so.0'->'lib/cctbx_merging_ext.so.0.0.1' 'lib/cctbx_merging_ext.so'->'lib/cctbx_merging_ext.so.0.0.1' -g++ -o spotfinder/dxtbx_toolbox/libdistl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/dxtbx_toolbox/libdistl.cpp -Create symlinks for: 'lib/iotbx_wildcard_ext.so.0.0.1' - 'lib/iotbx_wildcard_ext.so.0'->'lib/iotbx_wildcard_ext.so.0.0.1' - 'lib/iotbx_wildcard_ext.so'->'lib/iotbx_wildcard_ext.so.0.0.1' -g++ -o spotfinder/dxtbx_toolbox/distl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/dxtbx_toolbox/distl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o spotfinder/core_toolbox/spot.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/core_toolbox/spot.cpp -Create symlinks for: 'lib/iotbx_xplor_ext.so.0.0.1' - 'lib/iotbx_xplor_ext.so.0'->'lib/iotbx_xplor_ext.so.0.0.1' - 'lib/iotbx_xplor_ext.so'->'lib/iotbx_xplor_ext.so.0.0.1' -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o spotfinder/core_toolbox/libdistl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/core_toolbox/libdistl.cpp -Create symlinks for: 'lib/cctbx_geometry_restraints_ext.so.0.0.1' - 'lib/cctbx_geometry_restraints_ext.so.0'->'lib/cctbx_geometry_restraints_ext.so.0.0.1' - 'lib/cctbx_geometry_restraints_ext.so'->'lib/cctbx_geometry_restraints_ext.so.0.0.1' -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/gltbx_gl_ext.so.0.0.1' - 'lib/gltbx_gl_ext.so.0'->'lib/gltbx_gl_ext.so.0.0.1' - 'lib/gltbx_gl_ext.so'->'lib/gltbx_gl_ext.so.0.0.1' -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/cctbx_sgtbx_ext.so.0.0.1' - 'lib/cctbx_sgtbx_ext.so.0'->'lib/cctbx_sgtbx_ext.so.0.0.1' - 'lib/cctbx_sgtbx_ext.so'->'lib/cctbx_sgtbx_ext.so.0.0.1' -Create symlinks for: 'lib/dxtbx_imageset_ext.so.0.0.1' - 'lib/dxtbx_imageset_ext.so.0'->'lib/dxtbx_imageset_ext.so.0.0.1' - 'lib/dxtbx_imageset_ext.so'->'lib/dxtbx_imageset_ext.so.0.0.1' -g++ -o spotfinder/core_toolbox/hough.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/core_toolbox/hough.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o spotfinder/core_toolbox/distl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/core_toolbox/distl.cpp -g++ -o spotfinder/core_toolbox/spotfilter.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/core_toolbox/spotfilter.cpp g++ -o mmtbx/masks/atom_mask.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/masks/atom_mask.cpp +Create symlinks for: 'lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1' + 'lib/cctbx_eltbx_covalent_radii_ext.so.0'->'lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1' + 'lib/cctbx_eltbx_covalent_radii_ext.so'->'lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1' cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/cctbx_xray_ext.so.0.0.1' - 'lib/cctbx_xray_ext.so.0'->'lib/cctbx_xray_ext.so.0.0.1' - 'lib/cctbx_xray_ext.so'->'lib/cctbx_xray_ext.so.0.0.1' g++ -o mmtbx/tls/decompose.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/tls/decompose.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/cctbx_eltbx_henke_ext.so.0.0.1' + 'lib/cctbx_eltbx_henke_ext.so.0'->'lib/cctbx_eltbx_henke_ext.so.0.0.1' + 'lib/cctbx_eltbx_henke_ext.so'->'lib/cctbx_eltbx_henke_ext.so.0.0.1' +Create symlinks for: 'lib/gltbx_util_ext.so.0.0.1' + 'lib/gltbx_util_ext.so.0'->'lib/gltbx_util_ext.so.0.0.1' + 'lib/gltbx_util_ext.so'->'lib/gltbx_util_ext.so.0.0.1' g++ -o rstbx/dps_core/dps_core.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/dps_core/dps_core.cpp -Create symlinks for: 'lib/dxtbx_model_ext.so.0.0.1' - 'lib/dxtbx_model_ext.so.0'->'lib/dxtbx_model_ext.so.0.0.1' - 'lib/dxtbx_model_ext.so'->'lib/dxtbx_model_ext.so.0.0.1' -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o rstbx/dps_core/directional_fft.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/dps_core/directional_fft.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/gltbx_quadrics_ext.so.0.0.1' + 'lib/gltbx_quadrics_ext.so.0'->'lib/gltbx_quadrics_ext.so.0.0.1' + 'lib/gltbx_quadrics_ext.so'->'lib/gltbx_quadrics_ext.so.0.0.1' +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o rstbx/dps_core/direction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/dps_core/direction.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/cctbx_sgtbx_asu_ext.so.0.0.1' + 'lib/cctbx_sgtbx_asu_ext.so.0'->'lib/cctbx_sgtbx_asu_ext.so.0.0.1' + 'lib/cctbx_sgtbx_asu_ext.so'->'lib/cctbx_sgtbx_asu_ext.so.0.0.1' g++ -o rstbx/indexing_api/indexing_api.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/indexing_api/indexing_api.cpp -g++ -o rstbx/diffraction/ewald_sphere.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/diffraction/ewald_sphere.cpp +Create symlinks for: 'lib/dxtbx_imageset_ext.so.0.0.1' + 'lib/dxtbx_imageset_ext.so.0'->'lib/dxtbx_imageset_ext.so.0.0.1' + 'lib/dxtbx_imageset_ext.so'->'lib/dxtbx_imageset_ext.so.0.0.1' cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o rstbx/diffraction/ewald_sphere.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/diffraction/ewald_sphere.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o rstbx/diffraction/partial_spot_position_partial_H.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/diffraction/partial_spot_position_partial_H.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/cctbx_miller_ext.so.0.0.1' + 'lib/cctbx_miller_ext.so.0'->'lib/cctbx_miller_ext.so.0.0.1' + 'lib/cctbx_miller_ext.so'->'lib/cctbx_miller_ext.so.0.0.1' g++ -o scitbx/minpack/raw.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/minpack/raw.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ gcc -o scitbx/slatec/lib_c.o -c -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/slatec/lib_c.c -g++ -o smtbx/refinement/constraints/affine.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/affine.cpp -g++ -o lib/libmmtbx_tls.so.0.0.1 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread -shared -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -Wl,-soname=libmmtbx_tls.so.0 mmtbx/tls/decompose.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lm -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/libscitbx_slatec.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libscitbx_slatec.so.0 scitbx/slatec/lib_c.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lm -Create symlinks for: 'lib/libmmtbx_tls.so.0.0.1' - 'lib/libmmtbx_tls.so.0'->'lib/libmmtbx_tls.so.0.0.1' - 'lib/libmmtbx_tls.so'->'lib/libmmtbx_tls.so.0.0.1' -g++ -o smtbx/refinement/constraints/geometrical_hydrogens.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/geometrical_hydrogens.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/libscitbx_slatec.so.0.0.1' 'lib/libscitbx_slatec.so.0'->'lib/libscitbx_slatec.so.0.0.1' 'lib/libscitbx_slatec.so'->'lib/libscitbx_slatec.so.0.0.1' -g++ -o smtbx/refinement/constraints/occupancy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/occupancy.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o smtbx/refinement/constraints/affine.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/affine.cpp +g++ -o smtbx/refinement/constraints/geometrical_hydrogens.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/geometrical_hydrogens.cpp g++ -o lib/libscitbx_minpack.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libscitbx_minpack.so.0 scitbx/minpack/raw.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lm -g++ -o smtbx/refinement/constraints/reparametrisation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/reparametrisation.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/dxtbx_model_ext.so.0.0.1' + 'lib/dxtbx_model_ext.so.0'->'lib/dxtbx_model_ext.so.0.0.1' + 'lib/dxtbx_model_ext.so'->'lib/dxtbx_model_ext.so.0.0.1' Create symlinks for: 'lib/libscitbx_minpack.so.0.0.1' 'lib/libscitbx_minpack.so.0'->'lib/libscitbx_minpack.so.0.0.1' 'lib/libscitbx_minpack.so'->'lib/libscitbx_minpack.so.0.0.1' +g++ -o smtbx/refinement/constraints/occupancy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/occupancy.cpp +g++ -o smtbx/refinement/constraints/reparametrisation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/reparametrisation.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/rigid.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/rigid.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/libspotfinder.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libspotfinder.so.0 spotfinder/core_toolbox/spot.o spotfinder/core_toolbox/libdistl.o spotfinder/core_toolbox/hough.o spotfinder/core_toolbox/distl.o spotfinder/core_toolbox/spotfilter.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lann-cctbx -lomptbx -lm +g++ -o lib/libmmtbx_tls.so.0.0.1 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread -shared -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -Wl,-soname=libmmtbx_tls.so.0 mmtbx/tls/decompose.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lm +Create symlinks for: 'lib/libspotfinder.so.0.0.1' + 'lib/libspotfinder.so.0'->'lib/libspotfinder.so.0.0.1' + 'lib/libspotfinder.so'->'lib/libspotfinder.so.0.0.1' +g++ -o lib/libdxtbxspotfinder.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libdxtbxspotfinder.so.0 spotfinder/dxtbx_toolbox/libdistl.o spotfinder/dxtbx_toolbox/distl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lspotfinder -lann-cctbx -lomptbx -lm +Create symlinks for: 'lib/libmmtbx_tls.so.0.0.1' + 'lib/libmmtbx_tls.so.0'->'lib/libmmtbx_tls.so.0.0.1' + 'lib/libmmtbx_tls.so'->'lib/libmmtbx_tls.so.0.0.1' g++ -o smtbx/refinement/constraints/same_group.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/same_group.cpp g++ -o smtbx/refinement/constraints/scaled_adp.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/scaled_adp.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/libdxtbxspotfinder.so.0.0.1' + 'lib/libdxtbxspotfinder.so.0'->'lib/libdxtbxspotfinder.so.0.0.1' + 'lib/libdxtbxspotfinder.so'->'lib/libdxtbxspotfinder.so.0.0.1' g++ -o smtbx/refinement/constraints/shared.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/shared.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/libspotfinder.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libspotfinder.so.0 spotfinder/core_toolbox/spot.o spotfinder/core_toolbox/libdistl.o spotfinder/core_toolbox/hough.o spotfinder/core_toolbox/distl.o spotfinder/core_toolbox/spotfilter.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lann-cctbx -lomptbx -lm +g++ -o smtbx/refinement/constraints/special_position.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/special_position.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/librstbx.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=librstbx.so.0 rstbx/dps_core/dps_core.o rstbx/dps_core/directional_fft.o rstbx/dps_core/direction.o rstbx/indexing_api/indexing_api.o rstbx/diffraction/ewald_sphere.o rstbx/diffraction/partial_spot_position_partial_H.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lcctbx -lm -Create symlinks for: 'lib/libspotfinder.so.0.0.1' - 'lib/libspotfinder.so.0'->'lib/libspotfinder.so.0.0.1' - 'lib/libspotfinder.so'->'lib/libspotfinder.so.0.0.1' -g++ -o lib/libdxtbxspotfinder.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libdxtbxspotfinder.so.0 spotfinder/dxtbx_toolbox/libdistl.o spotfinder/dxtbx_toolbox/distl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lspotfinder -lann-cctbx -lomptbx -lm Create symlinks for: 'lib/librstbx.so.0.0.1' 'lib/librstbx.so.0'->'lib/librstbx.so.0.0.1' 'lib/librstbx.so'->'lib/librstbx.so.0.0.1' -g++ -o smtbx/refinement/constraints/special_position.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/special_position.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/libdxtbxspotfinder.so.0.0.1' - 'lib/libdxtbxspotfinder.so.0'->'lib/libdxtbxspotfinder.so.0.0.1' - 'lib/libdxtbxspotfinder.so'->'lib/libdxtbxspotfinder.so.0.0.1' g++ -o smtbx/refinement/constraints/symmetry_equivalent.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/symmetry_equivalent.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/u_eq_dependent_u_iso.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/u_eq_dependent_u_iso.cpp @@ -15113,12 +15149,12 @@ g++ -o smtbx/refinement/constraints/u_iso_dependent_u_iso.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/u_iso_dependent_u_iso.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/alignment/alignment_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/alignment/alignment_ext.cpp -g++ -o mmtbx/building/loop_closure/ccd_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/building/loop_closure/ccd_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o mmtbx/building/loop_closure/ccd_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/building/loop_closure/ccd_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/bulk_solvent/bulk_solvent_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/bulk_solvent/bulk_solvent_ext.cpp -g++ -o mmtbx/bulk_solvent/bulk_solvent.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/bulk_solvent/bulk_solvent.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o mmtbx/bulk_solvent/bulk_solvent.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/bulk_solvent/bulk_solvent.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/den/boost_python/den_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/den/boost_python/den_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ @@ -15126,10 +15162,11 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/dynamics/dynamics_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/dynamics/dynamics_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/iotbx_pdb_hierarchy_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_pdb_hierarchy_ext.so.0 iotbx/pdb/hierarchy_ext.o iotbx/pdb/hierarchy_atom_bpl.o iotbx/pdb/hierarchy_atoms_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -liotbx_pdb -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm g++ -o mmtbx/dynamics/dynamics.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/dynamics/dynamics.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/f_model/f_model_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/f_model/f_model_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/libsmtbx_refinement_constraints.so.0.0.1 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread -shared -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -Wl,-soname=libsmtbx_refinement_constraints.so.0 smtbx/refinement/constraints/affine.o smtbx/refinement/constraints/geometrical_hydrogens.o smtbx/refinement/constraints/occupancy.o smtbx/refinement/constraints/reparametrisation.o smtbx/refinement/constraints/rigid.o smtbx/refinement/constraints/same_group.o smtbx/refinement/constraints/scaled_adp.o smtbx/refinement/constraints/shared.o smtbx/refinement/constraints/special_position.o smtbx/refinement/constraints/symmetry_equivalent.o smtbx/refinement/constraints/u_eq_dependent_u_iso.o smtbx/refinement/constraints/u_iso_dependent_u_iso.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system Create symlinks for: 'lib/libsmtbx_refinement_constraints.so.0.0.1' 'lib/libsmtbx_refinement_constraints.so.0'->'lib/libsmtbx_refinement_constraints.so.0.0.1' @@ -15137,9 +15174,14 @@ g++ -o mmtbx/geometry/boost_python/asa_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/geometry/boost_python/asa_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/geometry/boost_python/clash_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/geometry/boost_python/clash_ext.cpp +Create symlinks for: 'lib/iotbx_pdb_hierarchy_ext.so.0.0.1' + 'lib/iotbx_pdb_hierarchy_ext.so.0'->'lib/iotbx_pdb_hierarchy_ext.so.0.0.1' + 'lib/iotbx_pdb_hierarchy_ext.so'->'lib/iotbx_pdb_hierarchy_ext.so.0.0.1' cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/geometry/boost_python/indexing_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/geometry/boost_python/indexing_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o mmtbx/geometry/boost_python/primitive_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/geometry/boost_python/primitive_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/wyckoff.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/sym_equiv_sites.h:5, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/crystal/direct_space_asu.h:4, @@ -15198,34 +15240,28 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -g++ -o lib/iotbx_pdb_hierarchy_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_pdb_hierarchy_ext.so.0 iotbx/pdb/hierarchy_ext.o iotbx/pdb/hierarchy_atom_bpl.o iotbx/pdb/hierarchy_atoms_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -liotbx_pdb -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -g++ -o lib/libmmtbx_masks.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libmmtbx_masks.so.0 mmtbx/masks/atom_mask.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lomptbx -lcctbx_sgtbx_asu -lm -Create symlinks for: 'lib/libmmtbx_masks.so.0.0.1' - 'lib/libmmtbx_masks.so.0'->'lib/libmmtbx_masks.so.0.0.1' - 'lib/libmmtbx_masks.so'->'lib/libmmtbx_masks.so.0.0.1' -g++ -o mmtbx/geometry/boost_python/primitive_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/geometry/boost_python/primitive_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/iotbx_pdb_hierarchy_ext.so.0.0.1' - 'lib/iotbx_pdb_hierarchy_ext.so.0'->'lib/iotbx_pdb_hierarchy_ext.so.0.0.1' - 'lib/iotbx_pdb_hierarchy_ext.so'->'lib/iotbx_pdb_hierarchy_ext.so.0.0.1' -g++ -o mmtbx/geometry/boost_python/shared_types_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/geometry/boost_python/shared_types_ext.cpp g++ -o lib/mmtbx_dssp_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_dssp_ext.so.0 mmtbx/secondary_structure/dssp_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -liotbx_pdb -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_alignment_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_alignment_ext.so.0 mmtbx/alignment/alignment_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_dssp_ext.so.0.0.1' 'lib/mmtbx_dssp_ext.so.0'->'lib/mmtbx_dssp_ext.so.0.0.1' 'lib/mmtbx_dssp_ext.so'->'lib/mmtbx_dssp_ext.so.0.0.1' +g++ -o mmtbx/geometry/boost_python/shared_types_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/geometry/boost_python/shared_types_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_dynamics_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_dynamics_ext.so.0 mmtbx/dynamics/dynamics_ext.o mmtbx/dynamics/dynamics.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o lib/libmmtbx_masks.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libmmtbx_masks.so.0 mmtbx/masks/atom_mask.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lomptbx -lcctbx_sgtbx_asu -lm +g++ -o lib/mmtbx_alignment_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_alignment_ext.so.0 mmtbx/alignment/alignment_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/mmtbx_dynamics_ext.so.0.0.1' + 'lib/mmtbx_dynamics_ext.so.0'->'lib/mmtbx_dynamics_ext.so.0.0.1' + 'lib/mmtbx_dynamics_ext.so'->'lib/mmtbx_dynamics_ext.so.0.0.1' g++ -o mmtbx/geometry/boost_python/sphere_surface_sampling_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/geometry/boost_python/sphere_surface_sampling_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/mmtbx_alignment_ext.so.0.0.1' 'lib/mmtbx_alignment_ext.so.0'->'lib/mmtbx_alignment_ext.so.0.0.1' 'lib/mmtbx_alignment_ext.so'->'lib/mmtbx_alignment_ext.so.0.0.1' -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/hydrogens/hydrogens_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/hydrogens/hydrogens_ext.cpp +Create symlinks for: 'lib/libmmtbx_masks.so.0.0.1' + 'lib/libmmtbx_masks.so.0'->'lib/libmmtbx_masks.so.0.0.1' + 'lib/libmmtbx_masks.so'->'lib/libmmtbx_masks.so.0.0.1' cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_dynamics_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_dynamics_ext.so.0 mmtbx/dynamics/dynamics_ext.o mmtbx/dynamics/dynamics.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/mmtbx_dynamics_ext.so.0.0.1' - 'lib/mmtbx_dynamics_ext.so.0'->'lib/mmtbx_dynamics_ext.so.0.0.1' - 'lib/mmtbx_dynamics_ext.so'->'lib/mmtbx_dynamics_ext.so.0.0.1' g++ -o mmtbx/masks/masks_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/masks/masks_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/function/detail/requires_cxx11.hpp:9, @@ -15235,16 +15271,18 @@ from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, - from /usr/include/boost/python/converter/arg_to_python_base.hpp:7, - from /usr/include/boost/python/converter/arg_to_python.hpp:14, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/object/class.hpp:9, - from /usr/include/boost/python/class.hpp:13, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/geometry/boost_python/asa_ext.cpp:2: + from /usr/include/boost/python/converter/object_manager.hpp:8, + from /usr/include/boost/python/extract.hpp:10, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/geometry/boost_python/indexing_ext.cpp:2: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ +g++ -o lib/mmtbx_building_loop_closure_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_building_loop_closure_ext.so.0 mmtbx/building/loop_closure/ccd_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -liotbx_pdb -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/mmtbx_building_loop_closure_ext.so.0.0.1' + 'lib/mmtbx_building_loop_closure_ext.so.0'->'lib/mmtbx_building_loop_closure_ext.so.0.0.1' + 'lib/mmtbx_building_loop_closure_ext.so'->'lib/mmtbx_building_loop_closure_ext.so.0.0.1' +g++ -o mmtbx/max_lik/max_lik_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/max_lik/max_lik_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/function/detail/requires_cxx11.hpp:9, from /usr/include/boost/function/detail/prologue.hpp:12, from /usr/include/boost/function/function_template.hpp:13, @@ -15258,7 +15296,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object/class.hpp:9, from /usr/include/boost/python/class.hpp:13, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/geometry/boost_python/clash_ext.cpp:2: + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/geometry/boost_python/asa_ext.cpp:2: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -15269,16 +15307,16 @@ from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, - from /usr/include/boost/python/converter/object_manager.hpp:8, - from /usr/include/boost/python/extract.hpp:10, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/geometry/boost_python/indexing_ext.cpp:2: + from /usr/include/boost/python/converter/arg_to_python_base.hpp:7, + from /usr/include/boost/python/converter/arg_to_python.hpp:14, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/object/class.hpp:9, + from /usr/include/boost/python/class.hpp:13, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/geometry/boost_python/clash_ext.cpp:2: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ -g++ -o lib/mmtbx_building_loop_closure_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_building_loop_closure_ext.so.0 mmtbx/building/loop_closure/ccd_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -liotbx_pdb -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/mmtbx_building_loop_closure_ext.so.0.0.1' - 'lib/mmtbx_building_loop_closure_ext.so.0'->'lib/mmtbx_building_loop_closure_ext.so.0.0.1' - 'lib/mmtbx_building_loop_closure_ext.so'->'lib/mmtbx_building_loop_closure_ext.so.0.0.1' In file included from /usr/include/boost/function/detail/requires_cxx11.hpp:9, from /usr/include/boost/function/detail/prologue.hpp:12, from /usr/include/boost/function/function_template.hpp:13, @@ -15296,36 +15334,34 @@ /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ -g++ -o mmtbx/max_lik/max_lik_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/max_lik/max_lik_ext.cpp +g++ -o lib/mmtbx_geometry_primitive_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_primitive_ext.so.0 mmtbx/geometry/boost_python/primitive_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/mmtbx_geometry_primitive_ext.so.0.0.1' + 'lib/mmtbx_geometry_primitive_ext.so.0'->'lib/mmtbx_geometry_primitive_ext.so.0.0.1' + 'lib/mmtbx_geometry_primitive_ext.so'->'lib/mmtbx_geometry_primitive_ext.so.0.0.1' +g++ -o mmtbx/max_lik/max_lik.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/max_lik/max_lik.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_geometry_shared_types_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_shared_types_ext.so.0 mmtbx/geometry/boost_python/shared_types_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_geometry_shared_types_ext.so.0.0.1' 'lib/mmtbx_geometry_shared_types_ext.so.0'->'lib/mmtbx_geometry_shared_types_ext.so.0.0.1' 'lib/mmtbx_geometry_shared_types_ext.so'->'lib/mmtbx_geometry_shared_types_ext.so.0.0.1' -g++ -o mmtbx/max_lik/max_lik.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/max_lik/max_lik.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_geometry_primitive_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_primitive_ext.so.0 mmtbx/geometry/boost_python/primitive_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/mmtbx_geometry_primitive_ext.so.0.0.1' - 'lib/mmtbx_geometry_primitive_ext.so.0'->'lib/mmtbx_geometry_primitive_ext.so.0.0.1' - 'lib/mmtbx_geometry_primitive_ext.so'->'lib/mmtbx_geometry_primitive_ext.so.0.0.1' g++ -o mmtbx/bulk_solvent/mosaic_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/bulk_solvent/mosaic_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_f_model_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_f_model_ext.so.0 mmtbx/f_model/f_model_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/mmtbx_f_model_ext.so.0.0.1' + 'lib/mmtbx_f_model_ext.so.0'->'lib/mmtbx_f_model_ext.so.0.0.1' + 'lib/mmtbx_f_model_ext.so'->'lib/mmtbx_f_model_ext.so.0.0.1' +g++ -o mmtbx/ncs/cartesian_restraints_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/ncs/cartesian_restraints_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_den_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_den_restraints_ext.so.0 mmtbx/den/boost_python/den_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o lib/mmtbx_geometry_sphere_surface_sampling_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_sphere_surface_sampling_ext.so.0 mmtbx/geometry/boost_python/sphere_surface_sampling_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_den_restraints_ext.so.0.0.1' 'lib/mmtbx_den_restraints_ext.so.0'->'lib/mmtbx_den_restraints_ext.so.0.0.1' 'lib/mmtbx_den_restraints_ext.so'->'lib/mmtbx_den_restraints_ext.so.0.0.1' -g++ -o mmtbx/ncs/cartesian_restraints_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/ncs/cartesian_restraints_ext.cpp +g++ -o mmtbx/ncs/tncs_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/ncs/tncs_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_geometry_sphere_surface_sampling_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_sphere_surface_sampling_ext.so.0 mmtbx/geometry/boost_python/sphere_surface_sampling_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -g++ -o lib/mmtbx_f_model_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_f_model_ext.so.0 mmtbx/f_model/f_model_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_geometry_sphere_surface_sampling_ext.so.0.0.1' 'lib/mmtbx_geometry_sphere_surface_sampling_ext.so.0'->'lib/mmtbx_geometry_sphere_surface_sampling_ext.so.0.0.1' 'lib/mmtbx_geometry_sphere_surface_sampling_ext.so'->'lib/mmtbx_geometry_sphere_surface_sampling_ext.so.0.0.1' -g++ -o mmtbx/ncs/tncs_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/ncs/tncs_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/mmtbx_f_model_ext.so.0.0.1' - 'lib/mmtbx_f_model_ext.so.0'->'lib/mmtbx_f_model_ext.so.0.0.1' - 'lib/mmtbx_f_model_ext.so'->'lib/mmtbx_f_model_ext.so.0.0.1' g++ -o mmtbx/pair_interaction/interaction_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/pair_interaction/interaction_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_hydrogens_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_hydrogens_ext.so.0 mmtbx/hydrogens/hydrogens_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm @@ -15335,51 +15371,51 @@ g++ -o mmtbx/probe/boost_python/probe_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/probe/boost_python/probe_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/probe/Scoring.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/probe/Scoring.cpp -g++ -o lib/mmtbx_masks_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_masks_ext.so.0 mmtbx/masks/masks_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lmmtbx_masks -lcctbx_sgtbx_asu -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_ncs_cartesian_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_ncs_cartesian_restraints_ext.so.0 mmtbx/ncs/cartesian_restraints_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/mmtbx_masks_ext.so.0.0.1' - 'lib/mmtbx_masks_ext.so.0'->'lib/mmtbx_masks_ext.so.0.0.1' - 'lib/mmtbx_masks_ext.so'->'lib/mmtbx_masks_ext.so.0.0.1' -g++ -o mmtbx/probe/DotSpheres.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/probe/DotSpheres.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/mmtbx_ncs_cartesian_restraints_ext.so.0.0.1' - 'lib/mmtbx_ncs_cartesian_restraints_ext.so.0'->'lib/mmtbx_ncs_cartesian_restraints_ext.so.0.0.1' - 'lib/mmtbx_ncs_cartesian_restraints_ext.so'->'lib/mmtbx_ncs_cartesian_restraints_ext.so.0.0.1' -g++ -o mmtbx/probe/SpatialQuery.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/probe/SpatialQuery.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_geometry_indexing_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_indexing_ext.so.0 mmtbx/geometry/boost_python/indexing_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_geometry_indexing_ext.so.0.0.1' 'lib/mmtbx_geometry_indexing_ext.so.0'->'lib/mmtbx_geometry_indexing_ext.so.0.0.1' 'lib/mmtbx_geometry_indexing_ext.so'->'lib/mmtbx_geometry_indexing_ext.so.0.0.1' -g++ -o mmtbx/geometry_restraints/boost_python/ramachandran_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/geometry_restraints/boost_python/ramachandran_ext.cpp +g++ -o mmtbx/probe/DotSpheres.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/probe/DotSpheres.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_mosaic_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_mosaic_ext.so.0 mmtbx/bulk_solvent/mosaic_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_mosaic_ext.so.0.0.1' 'lib/mmtbx_mosaic_ext.so.0'->'lib/mmtbx_mosaic_ext.so.0.0.1' 'lib/mmtbx_mosaic_ext.so'->'lib/mmtbx_mosaic_ext.so.0.0.1' +g++ -o mmtbx/probe/SpatialQuery.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/probe/SpatialQuery.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_geometry_clash_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_clash_ext.so.0 mmtbx/geometry/boost_python/clash_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o lib/mmtbx_max_lik_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_max_lik_ext.so.0 mmtbx/max_lik/max_lik_ext.o mmtbx/max_lik/max_lik.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/mmtbx_geometry_clash_ext.so.0.0.1' + 'lib/mmtbx_geometry_clash_ext.so.0'->'lib/mmtbx_geometry_clash_ext.so.0.0.1' + 'lib/mmtbx_geometry_clash_ext.so'->'lib/mmtbx_geometry_clash_ext.so.0.0.1' +g++ -o mmtbx/geometry_restraints/boost_python/ramachandran_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/geometry_restraints/boost_python/ramachandran_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/mmtbx_max_lik_ext.so.0.0.1' + 'lib/mmtbx_max_lik_ext.so.0'->'lib/mmtbx_max_lik_ext.so.0.0.1' + 'lib/mmtbx_max_lik_ext.so'->'lib/mmtbx_max_lik_ext.so.0.0.1' g++ -o mmtbx/reduce/boost_python/reduce_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/reduce/boost_python/reduce_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_bulk_solvent_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_bulk_solvent_ext.so.0 mmtbx/bulk_solvent/bulk_solvent_ext.o mmtbx/bulk_solvent/bulk_solvent.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -g++ -o mmtbx/reduce/PositionReturn.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/reduce/PositionReturn.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_ncs_cartesian_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_ncs_cartesian_restraints_ext.so.0 mmtbx/ncs/cartesian_restraints_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o lib/mmtbx_masks_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_masks_ext.so.0 mmtbx/masks/masks_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lmmtbx_masks -lcctbx_sgtbx_asu -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_bulk_solvent_ext.so.0.0.1' 'lib/mmtbx_bulk_solvent_ext.so.0'->'lib/mmtbx_bulk_solvent_ext.so.0.0.1' 'lib/mmtbx_bulk_solvent_ext.so'->'lib/mmtbx_bulk_solvent_ext.so.0.0.1' +g++ -o mmtbx/reduce/PositionReturn.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/reduce/PositionReturn.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/mmtbx_ncs_cartesian_restraints_ext.so.0.0.1' + 'lib/mmtbx_ncs_cartesian_restraints_ext.so.0'->'lib/mmtbx_ncs_cartesian_restraints_ext.so.0.0.1' + 'lib/mmtbx_ncs_cartesian_restraints_ext.so'->'lib/mmtbx_ncs_cartesian_restraints_ext.so.0.0.1' +Create symlinks for: 'lib/mmtbx_masks_ext.so.0.0.1' + 'lib/mmtbx_masks_ext.so.0'->'lib/mmtbx_masks_ext.so.0.0.1' + 'lib/mmtbx_masks_ext.so'->'lib/mmtbx_masks_ext.so.0.0.1' g++ -o mmtbx/reduce/InteractionGraph.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/reduce/InteractionGraph.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_geometry_clash_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_clash_ext.so.0 mmtbx/geometry/boost_python/clash_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/mmtbx_geometry_clash_ext.so.0.0.1' - 'lib/mmtbx_geometry_clash_ext.so.0'->'lib/mmtbx_geometry_clash_ext.so.0.0.1' - 'lib/mmtbx_geometry_clash_ext.so'->'lib/mmtbx_geometry_clash_ext.so.0.0.1' g++ -o mmtbx/reduce/Optimizers.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/reduce/Optimizers.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_max_lik_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_max_lik_ext.so.0 mmtbx/max_lik/max_lik_ext.o mmtbx/max_lik/max_lik.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm g++ -o mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/mmtbx_max_lik_ext.so.0.0.1' - 'lib/mmtbx_max_lik_ext.so.0'->'lib/mmtbx_max_lik_ext.so.0.0.1' - 'lib/mmtbx_max_lik_ext.so'->'lib/mmtbx_max_lik_ext.so.0.0.1' g++ -o mmtbx/rotamer/fit_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/rotamer/fit_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/xray/scatterer.h:5, @@ -15422,6 +15458,7 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ +g++ -o lib/mmtbx_ncs_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_ncs_ext.so.0 mmtbx/ncs/tncs_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm In file included from /usr/include/boost/assert.hpp:58, from /usr/include/boost/format/parsing.hpp:21, from /usr/include/boost/format.hpp:50, @@ -15447,13 +15484,11 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -g++ -o lib/mmtbx_ncs_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_ncs_ext.so.0 mmtbx/ncs/tncs_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_ncs_ext.so.0.0.1' 'lib/mmtbx_ncs_ext.so.0'->'lib/mmtbx_ncs_ext.so.0.0.1' 'lib/mmtbx_ncs_ext.so'->'lib/mmtbx_ncs_ext.so.0.0.1' g++ -o mmtbx/rsr/rsr_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/rsr/rsr_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_pair_interaction_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_pair_interaction_ext.so.0 mmtbx/pair_interaction/interaction_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/wyckoff.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/sym_equiv_sites.h:5, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/crystal/direct_space_asu.h:4, @@ -15465,11 +15500,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i'lib/mmtbx_pair_interaction_ext.so.0.0.1' - 'lib/mmtbx_pair_interaction_ext.so'->'lib/mmtbx_pair_interaction_ext.so.0.0.1' -g++ -o mmtbx/scaling/scaling_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/scaling/scaling_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.cpp:14: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/cctbx/geometry_restraints/proxy_select.h: In instantiation of ‘scitbx::af::shared cctbx::geometry_restraints::shared_proxy_remove(const scitbx::af::const_ref&, const scitbx::af::const_ref&) [with ProxyType = mmtbx::geometry_restraints::reference_coordinate_proxy]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.cpp:80:41: required from here @@ -15525,12 +15555,18 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ +g++ -o lib/mmtbx_pair_interaction_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_pair_interaction_ext.so.0 mmtbx/pair_interaction/interaction_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/mmtbx_pair_interaction_ext.so.0.0.1' + 'lib/mmtbx_pair_interaction_ext.so.0'->'lib/mmtbx_pair_interaction_ext.so.0.0.1' + 'lib/mmtbx_pair_interaction_ext.so'->'lib/mmtbx_pair_interaction_ext.so.0.0.1' +g++ -o mmtbx/scaling/scaling_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/scaling/scaling_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +ar rc probe/lib/libprobelib.a mmtbx/probe/Scoring.o mmtbx/probe/DotSpheres.o mmtbx/probe/SpatialQuery.o +ranlib probe/lib/libprobelib.a g++ -o mmtbx/scaling/twinning_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/scaling/twinning_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/scaling/relative_scaling_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/scaling/relative_scaling_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -ar rc probe/lib/libprobelib.a mmtbx/probe/Scoring.o mmtbx/probe/DotSpheres.o mmtbx/probe/SpatialQuery.o -ranlib probe/lib/libprobelib.a g++ -o mmtbx/scaling/outlier_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/scaling/outlier_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_reference_coordinate_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_reference_coordinate_ext.so.0 mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm @@ -15539,68 +15575,64 @@ 'lib/mmtbx_reference_coordinate_ext.so'->'lib/mmtbx_reference_coordinate_ext.so.0.0.1' g++ -o mmtbx/secondary_structure/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/secondary_structure/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_rsr_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_rsr_ext.so.0 mmtbx/rsr/rsr_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/mmtbx_rsr_ext.so.0.0.1' + 'lib/mmtbx_rsr_ext.so.0'->'lib/mmtbx_rsr_ext.so.0.0.1' + 'lib/mmtbx_rsr_ext.so'->'lib/mmtbx_rsr_ext.so.0.0.1' +g++ -o mmtbx/tls/decompose_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/tls/decompose_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_rotamer_fit_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_rotamer_fit_ext.so.0 mmtbx/rotamer/fit_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o lib/mmtbx_geometry_asa_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_asa_ext.so.0 mmtbx/geometry/boost_python/asa_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_rotamer_fit_ext.so.0.0.1' 'lib/mmtbx_rotamer_fit_ext.so.0'->'lib/mmtbx_rotamer_fit_ext.so.0.0.1' 'lib/mmtbx_rotamer_fit_ext.so'->'lib/mmtbx_rotamer_fit_ext.so.0.0.1' -g++ -o mmtbx/tls/decompose_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/tls/decompose_ext.cpp +g++ -o mmtbx/tls/tls_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/tls/tls_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_geometry_asa_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_asa_ext.so.0 mmtbx/geometry/boost_python/asa_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -g++ -o lib/mmtbx_probe_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_probe_ext.so.0 mmtbx/probe/boost_python/probe_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Lprobe/lib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/probe/lib -lprobelib -liotbx_pdb -lcctbx -lscitbx_boost_python -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_geometry_asa_ext.so.0.0.1' 'lib/mmtbx_geometry_asa_ext.so.0'->'lib/mmtbx_geometry_asa_ext.so.0.0.1' 'lib/mmtbx_geometry_asa_ext.so'->'lib/mmtbx_geometry_asa_ext.so.0.0.1' -g++ -o mmtbx/tls/tls_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/tls/tls_ext.cpp +g++ -o mmtbx/tls/optimise_amplitudes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/tls/optimise_amplitudes.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_probe_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_probe_ext.so.0 mmtbx/probe/boost_python/probe_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Lprobe/lib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/probe/lib -lprobelib -liotbx_pdb -lcctbx -lscitbx_boost_python -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_probe_ext.so.0.0.1' 'lib/mmtbx_probe_ext.so.0'->'lib/mmtbx_probe_ext.so.0.0.1' 'lib/mmtbx_probe_ext.so'->'lib/mmtbx_probe_ext.so.0.0.1' -g++ -o mmtbx/tls/optimise_amplitudes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/tls/optimise_amplitudes.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_rsr_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_rsr_ext.so.0 mmtbx/rsr/rsr_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/mmtbx_rsr_ext.so.0.0.1' - 'lib/mmtbx_rsr_ext.so.0'->'lib/mmtbx_rsr_ext.so.0.0.1' - 'lib/mmtbx_rsr_ext.so'->'lib/mmtbx_rsr_ext.so.0.0.1' g++ -o mmtbx/tls/optimise_amplitudes_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/tls/optimise_amplitudes_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +ar rc reduce/lib/libreduce2lib.a mmtbx/reduce/PositionReturn.o mmtbx/reduce/InteractionGraph.o mmtbx/reduce/Optimizers.o +ranlib reduce/lib/libreduce2lib.a g++ -o mmtbx/tls/utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/tls/utils.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_ramachandran_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_ramachandran_restraints_ext.so.0 mmtbx/geometry_restraints/boost_python/ramachandran_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/mmtbx_ramachandran_restraints_ext.so.0.0.1' - 'lib/mmtbx_ramachandran_restraints_ext.so.0'->'lib/mmtbx_ramachandran_restraints_ext.so.0.0.1' - 'lib/mmtbx_ramachandran_restraints_ext.so'->'lib/mmtbx_ramachandran_restraints_ext.so.0.0.1' -g++ -o mmtbx/tls/utils_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/tls/utils_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_secondary_structure_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_secondary_structure_ext.so.0 mmtbx/secondary_structure/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -liotbx_pdb -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_secondary_structure_ext.so.0.0.1' 'lib/mmtbx_secondary_structure_ext.so.0'->'lib/mmtbx_secondary_structure_ext.so.0.0.1' 'lib/mmtbx_secondary_structure_ext.so'->'lib/mmtbx_secondary_structure_ext.so.0.0.1' +g++ -o mmtbx/tls/utils_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/tls/utils_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/utils/utils_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/utils/utils_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/validation/ramachandran/rama_eval_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/validation/ramachandran/rama_eval_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -ar rc reduce/lib/libreduce2lib.a mmtbx/reduce/PositionReturn.o mmtbx/reduce/InteractionGraph.o mmtbx/reduce/Optimizers.o -ranlib reduce/lib/libreduce2lib.a +g++ -o lib/mmtbx_ramachandran_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_ramachandran_restraints_ext.so.0 mmtbx/geometry_restraints/boost_python/ramachandran_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/mmtbx_ramachandran_restraints_ext.so.0.0.1' + 'lib/mmtbx_ramachandran_restraints_ext.so.0'->'lib/mmtbx_ramachandran_restraints_ext.so.0.0.1' + 'lib/mmtbx_ramachandran_restraints_ext.so'->'lib/mmtbx_ramachandran_restraints_ext.so.0.0.1' g++ -o omptbx/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/omptbx/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o rstbx/array_family/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/array_family/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_tls_decompose_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_tls_decompose_ext.so.0 mmtbx/tls/decompose_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lmmtbx_tls -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm g++ -o rstbx/array_family/flex_rstbx_arrays.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/array_family/flex_rstbx_arrays.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_tls_decompose_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_tls_decompose_ext.so.0 mmtbx/tls/decompose_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lmmtbx_tls -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_tls_decompose_ext.so.0.0.1' 'lib/mmtbx_tls_decompose_ext.so.0'->'lib/mmtbx_tls_decompose_ext.so.0.0.1' 'lib/mmtbx_tls_decompose_ext.so'->'lib/mmtbx_tls_decompose_ext.so.0.0.1' g++ -o rstbx/bandpass/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Irstbx/bandpass/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/bandpass/src -Irstbx/bandpass/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/bandpass/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/bandpass/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/omptbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=omptbx_ext.so.0 omptbx/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lomptbx -lboost_thread -lboost_system -lboost_python313 -lm -g++ -o lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_tls_optimise_amplitudes_ext.so.0 mmtbx/tls/optimise_amplitudes.o mmtbx/tls/optimise_amplitudes_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lmmtbx_tls -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/omptbx_ext.so.0.0.1' 'lib/omptbx_ext.so.0'->'lib/omptbx_ext.so.0.0.1' 'lib/omptbx_ext.so'->'lib/omptbx_ext.so.0.0.1' -Create symlinks for: 'lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1' - 'lib/mmtbx_tls_optimise_amplitudes_ext.so.0'->'lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1' - 'lib/mmtbx_tls_optimise_amplitudes_ext.so'->'lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1' g++ -o rstbx/bpcx/detector_model/detector_model_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Irstbx/bpcx/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/bpcx/src -Irstbx/bpcx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/bpcx/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/bpcx/detector_model/detector_model_ext.cpp g++ -o rstbx/bpcx/detector_model/sensor.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Irstbx/bpcx/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/bpcx/src -Irstbx/bpcx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/bpcx/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/bpcx/detector_model/sensor.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ @@ -15637,14 +15669,14 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_tls_optimise_amplitudes_ext.so.0 mmtbx/tls/optimise_amplitudes.o mmtbx/tls/optimise_amplitudes_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lmmtbx_tls -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1' + 'lib/mmtbx_tls_optimise_amplitudes_ext.so.0'->'lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1' + 'lib/mmtbx_tls_optimise_amplitudes_ext.so'->'lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1' g++ -o rstbx/diffraction/fastbragg/fastbragg_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Irstbx/diffraction/fastbragg/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/diffraction/fastbragg/src -Irstbx/diffraction/fastbragg/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/diffraction/fastbragg/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/diffraction/fastbragg/fastbragg_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_validation_ramachandran_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_validation_ramachandran_ext.so.0 mmtbx/validation/ramachandran/rama_eval_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/mmtbx_validation_ramachandran_ext.so.0.0.1' - 'lib/mmtbx_validation_ramachandran_ext.so.0'->'lib/mmtbx_validation_ramachandran_ext.so.0.0.1' - 'lib/mmtbx_validation_ramachandran_ext.so'->'lib/mmtbx_validation_ramachandran_ext.so.0.0.1' g++ -o rstbx/diffraction/fastbragg/fastbragg.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Irstbx/diffraction/fastbragg/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/diffraction/fastbragg/src -Irstbx/diffraction/fastbragg/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/diffraction/fastbragg/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/diffraction/fastbragg/fastbragg.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/bandpass/ext.cpp:10: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/bandpass/parameters.h: In constructor ‘rstbx::bandpass::active_area_filter::active_area_filter(scitbx::af::shared)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/bandpass/parameters.h:100:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] @@ -15752,8 +15784,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/bandpass/ext.cpp:631:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 631 | for (int idx = 0; idx < spot_rectangle_vertices.size(); idx+=5){ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o rstbx/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, @@ -15888,10 +15918,14 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/diffraction/fastbragg/fastbragg.h:305:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 305 | for(int i_lambda=0; i_lambda < lambdas.size(); ++i_lambda){ | ~~~~~~~~~^~~~~~~~~~~~~~~~ +g++ -o rstbx/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_validation_ramachandran_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_validation_ramachandran_ext.so.0 mmtbx/validation/ramachandran/rama_eval_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/mmtbx_validation_ramachandran_ext.so.0.0.1' + 'lib/mmtbx_validation_ramachandran_ext.so.0'->'lib/mmtbx_validation_ramachandran_ext.so.0.0.1' + 'lib/mmtbx_validation_ramachandran_ext.so'->'lib/mmtbx_validation_ramachandran_ext.so.0.0.1' g++ -o rstbx/indexing_api/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Irstbx/indexing_api/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/indexing_api/src -Irstbx/indexing_api/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/indexing_api/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/indexing_api/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_scaling_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_scaling_ext.so.0 mmtbx/scaling/scaling_ext.o mmtbx/scaling/twinning_bpl.o mmtbx/scaling/relative_scaling_bpl.o mmtbx/scaling/outlier_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -g++ -o rstbx/apps/integration_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Irstbx/apps/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/apps/src -Irstbx/apps/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/apps/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/apps/integration_ext.cpp In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/diffraction/fastbragg/fastbragg_ext.cpp:10: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In member function ‘scitbx::af::versa > rstbx::diffraction::fastbragg::detector::intdata()’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/diffraction/fastbragg/fastbragg.h:89:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::versa_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] @@ -15913,7 +15947,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/diffraction/fastbragg/fastbragg.h:133:5: note: in expansion of macro ‘SCITBX_ASSERT’ 133 | SCITBX_ASSERT(result.size()==dispsteps); | ^~~~~~~~~~~~~ -g++ -o lib/mmtbx_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_utils_ext.so.0 mmtbx/utils/utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In member function ‘std::map, double> rstbx::diffraction::fastbragg::crystal::get_amplitude_mapping() const’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/diffraction/fastbragg/fastbragg.h:176:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 176 | for (int i = 0; i < miller.size(); ++i){ @@ -15922,7 +15955,7 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/diffraction/fastbragg/fastbragg.h:305:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 305 | for(int i_lambda=0; i_lambda < lambdas.size(); ++i_lambda){ | ~~~~~~~~~^~~~~~~~~~~~~~~~ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_scaling_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_scaling_ext.so.0 mmtbx/scaling/scaling_ext.o mmtbx/scaling/twinning_bpl.o mmtbx/scaling/relative_scaling_bpl.o mmtbx/scaling/outlier_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In instantiation of ‘scitbx::af::shared rstbx::diffraction::fastbragg::fast_bragg_simulation::sweep_over_detector_get_indices(const bool&) [with IndexType = scitbx::vec3; MillerConversionPolicy = rstbx::diffraction::fastbragg::vec3_double_miller_index_policy]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/diffraction/fastbragg/fastbragg_ext.cpp:134:11: required from here 127 | class_("fast_bragg_simulation",init<>()) @@ -15985,17 +16018,19 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/diffraction/fastbragg/fastbragg.h:456:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 456 | for(int i_lambda=0; i_lambda < lambdas.size(); ++i_lambda){ | ~~~~~~~~~^~~~~~~~~~~~~~~~ +Create symlinks for: 'lib/mmtbx_scaling_ext.so.0.0.1' + 'lib/mmtbx_scaling_ext.so.0'->'lib/mmtbx_scaling_ext.so.0.0.1' + 'lib/mmtbx_scaling_ext.so'->'lib/mmtbx_scaling_ext.so.0.0.1' +g++ -o rstbx/apps/integration_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Irstbx/apps/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/apps/src -Irstbx/apps/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/apps/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/apps/integration_ext.cpp +g++ -o lib/mmtbx_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_utils_ext.so.0 mmtbx/utils/utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/mmtbx_utils_ext.so.0.0.1' 'lib/mmtbx_utils_ext.so.0'->'lib/mmtbx_utils_ext.so.0.0.1' 'lib/mmtbx_utils_ext.so'->'lib/mmtbx_utils_ext.so.0.0.1' g++ -o rstbx/simage/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Irstbx/simage/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/simage/src -Irstbx/simage/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/simage/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/simage/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/mmtbx_scaling_ext.so.0.0.1' - 'lib/mmtbx_scaling_ext.so.0'->'lib/mmtbx_scaling_ext.so.0.0.1' - 'lib/mmtbx_scaling_ext.so'->'lib/mmtbx_scaling_ext.so.0.0.1' g++ -o rstbx/simulation/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src -Irstbx/simulation/src -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/simulation/src -Irstbx/simulation/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/simulation/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/simulation/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/rstbx_bpcx_detector_model_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_bpcx_detector_model_ext.so.0 rstbx/bpcx/detector_model/detector_model_ext.o rstbx/bpcx/detector_model/sensor.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); @@ -16017,6 +16052,7 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ +g++ -o lib/rstbx_bpcx_detector_model_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_bpcx_detector_model_ext.so.0 rstbx/bpcx/detector_model/detector_model_ext.o rstbx/bpcx/detector_model/sensor.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/rstbx_bpcx_detector_model_ext.so.0.0.1' 'lib/rstbx_bpcx_detector_model_ext.so.0'->'lib/rstbx_bpcx_detector_model_ext.so.0.0.1' 'lib/rstbx_bpcx_detector_model_ext.so'->'lib/rstbx_bpcx_detector_model_ext.so.0.0.1' @@ -16034,6 +16070,21 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/fftpack/factorization.h:67:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 67 | for (i = 0; i < opt_factors.size(); i++) { | ~~^~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/simulation/ext.cpp:11: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/simulation/sim_xfel1.h: In member function ‘scitbx::af::shared rstbx::xfel1::select_proximal_indices(const int&, const double&, const double&, const cctbx::crystal_orientation&, const double&, const double&, const double&, const double&)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/simulation/sim_xfel1.h:113:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 113 | for (int x = 0; x < indices_all.size(); ++x){ + | ~~^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/simulation/sim_xfel1.h: In member function ‘scitbx::af::versa > rstbx::xfel1::raw_diffraction(scitbx::af::shared, scitbx::af::versa >, const size_t&, const double&, const double&, const double&)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/simulation/sim_xfel1.h:178:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] + 178 | for (int mcount=0; mcount::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 230 | for (int isel = 0; isel < selected.size(); ++isel){ + | ~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/simulation/sim_xfel1.h:231:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 231 | for (int imos = 0; imos < mosaic_perturbations.size(); ++imos){ + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/indexing_api/indexing_api.h:11: @@ -16103,21 +16154,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/tbxx/error_utils.hpp:59:9: note: in definition of macro ‘TBXX_ASSERT’ 59 | if (!(condition)) { \ | ^~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/simulation/ext.cpp:11: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/simulation/sim_xfel1.h: In member function ‘scitbx::af::shared rstbx::xfel1::select_proximal_indices(const int&, const double&, const double&, const cctbx::crystal_orientation&, const double&, const double&, const double&, const double&)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/simulation/sim_xfel1.h:113:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 113 | for (int x = 0; x < indices_all.size(); ++x){ - | ~~^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/simulation/sim_xfel1.h: In member function ‘scitbx::af::versa > rstbx::xfel1::raw_diffraction(scitbx::af::shared, scitbx::af::versa >, const size_t&, const double&, const double&, const double&)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/simulation/sim_xfel1.h:178:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] - 178 | for (int mcount=0; mcount::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 230 | for (int isel = 0; isel < selected.size(); ++isel){ - | ~~~~~^~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/simulation/sim_xfel1.h:231:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 231 | for (int imos = 0; imos < mosaic_perturbations.size(); ++imos){ - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/core_toolbox/libdistl.h:81, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/spotfinder/core_toolbox/distl.h:14, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/apps/stills/simple_integration.h:9, @@ -16170,13 +16206,12 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/rstbx/apps/stills/simple_integration.h:638:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 638 | for (int k=0; k'lib/mmtbx_reduce_ext.so.0.0.1' - 'lib/mmtbx_reduce_ext.so'->'lib/mmtbx_reduce_ext.so.0.0.1' +g++ -o lib/mmtbx_tls_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_tls_ext.so.0 mmtbx/tls/tls_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lmmtbx_tls -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/mmtbx_tls_ext.so.0.0.1' + 'lib/mmtbx_tls_ext.so.0'->'lib/mmtbx_tls_ext.so.0.0.1' + 'lib/mmtbx_tls_ext.so'->'lib/mmtbx_tls_ext.so.0.0.1' g++ -o scitbx/array_family/boost_python/flex_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_tls_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_tls_ext.so.0 mmtbx/tls/tls_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lmmtbx_tls -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:307, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:5, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa.h:4, @@ -16192,7 +16227,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/push_back_etc.h:175:26: note: ‘’ declared here 175 | resize(new_size, ElementType()); | ^~~~~~~~~~~~~ -g++ -o lib/rstbx_bandpass_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_bandpass_ext.so.0 rstbx/bandpass/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lann-cctbx -lann_adaptor -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/push_back_etc.h: In member function ‘void scitbx::af::shared_plain::resize(const size_type&) [with ElementType = cctbx::crystal_orientation]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/push_back_etc.h:175:15: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 175 | resize(new_size, ElementType()); @@ -16203,41 +16237,25 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/push_back_etc.h:175:26: note: ‘’ declared here 175 | resize(new_size, ElementType()); | ^~~~~~~~~~~~~ -Create symlinks for: 'lib/mmtbx_tls_ext.so.0.0.1' - 'lib/mmtbx_tls_ext.so.0'->'lib/mmtbx_tls_ext.so.0.0.1' - 'lib/mmtbx_tls_ext.so'->'lib/mmtbx_tls_ext.so.0.0.1' -g++ -o scitbx/array_family/boost_python/flex_grid.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_grid.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/rstbx_bandpass_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_bandpass_ext.so.0 rstbx/bandpass/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lann-cctbx -lann_adaptor -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/rstbx_bandpass_ext.so.0.0.1' 'lib/rstbx_bandpass_ext.so.0'->'lib/rstbx_bandpass_ext.so.0.0.1' 'lib/rstbx_bandpass_ext.so'->'lib/rstbx_bandpass_ext.so.0.0.1' -g++ -o scitbx/array_family/boost_python/flex_bool.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_bool.cpp +g++ -o scitbx/array_family/boost_python/flex_grid.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_grid.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/rstbx_simulation_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_simulation_ext.so.0 rstbx/simulation/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm g++ -o lib/rstbx_symmetry_constraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_symmetry_constraints_ext.so.0 rstbx/symmetry/constraints/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -g++ -o lib/rstbx_diffraction_fastbragg_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_diffraction_fastbragg_ext.so.0 rstbx/diffraction/fastbragg/fastbragg_ext.o rstbx/diffraction/fastbragg/fastbragg.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/rstbx_simulation_ext.so.0.0.1' + 'lib/rstbx_simulation_ext.so.0'->'lib/rstbx_simulation_ext.so.0.0.1' + 'lib/rstbx_simulation_ext.so'->'lib/rstbx_simulation_ext.so.0.0.1' +g++ -o scitbx/array_family/boost_python/flex_bool.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_bool.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/rstbx_symmetry_constraints_ext.so.0.0.1' 'lib/rstbx_symmetry_constraints_ext.so.0'->'lib/rstbx_symmetry_constraints_ext.so.0.0.1' 'lib/rstbx_symmetry_constraints_ext.so'->'lib/rstbx_symmetry_constraints_ext.so.0.0.1' +g++ -o lib/rstbx_diffraction_fastbragg_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_diffraction_fastbragg_ext.so.0 rstbx/diffraction/fastbragg/fastbragg_ext.o rstbx/diffraction/fastbragg/fastbragg.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm g++ -o scitbx/array_family/boost_python/flex_size_t.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/rstbx_diffraction_fastbragg_ext.so.0.0.1' - 'lib/rstbx_diffraction_fastbragg_ext.so.0'->'lib/rstbx_diffraction_fastbragg_ext.so.0.0.1' - 'lib/rstbx_diffraction_fastbragg_ext.so'->'lib/rstbx_diffraction_fastbragg_ext.so.0.0.1' -g++ -o scitbx/array_family/boost_python/flex_int.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/rstbx_indexing_api_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_indexing_api_ext.so.0 rstbx/indexing_api/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -g++ -o lib/rstbx_simage_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_simage_ext.so.0 rstbx/simage/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/rstbx_indexing_api_ext.so.0.0.1' - 'lib/rstbx_indexing_api_ext.so.0'->'lib/rstbx_indexing_api_ext.so.0.0.1' - 'lib/rstbx_indexing_api_ext.so'->'lib/rstbx_indexing_api_ext.so.0.0.1' -g++ -o scitbx/array_family/boost_python/flex_float.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_float.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/rstbx_simulation_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_simulation_ext.so.0 rstbx/simulation/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/rstbx_simage_ext.so.0.0.1' - 'lib/rstbx_simage_ext.so.0'->'lib/rstbx_simage_ext.so.0.0.1' - 'lib/rstbx_simage_ext.so'->'lib/rstbx_simage_ext.so.0.0.1' -g++ -o scitbx/array_family/boost_python/flex_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_ext.cpp: In member function ‘const char* scitbx::af::boost_python::cost_of_m_handle_in_af_shared::operator()(unsigned int, unsigned int)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_ext.cpp:367:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 367 | for(int n=0; n < n_repeats; ++n) { @@ -16268,10 +16286,10 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/selections.h:156:7: note: in expansion of macro ‘SCITBX_ASSERT’ 156 | SCITBX_ASSERT(iselection[i] < selectee_size); | ^~~~~~~~~~~~~ -Create symlinks for: 'lib/rstbx_simulation_ext.so.0.0.1' - 'lib/rstbx_simulation_ext.so.0'->'lib/rstbx_simulation_ext.so.0.0.1' - 'lib/rstbx_simulation_ext.so'->'lib/rstbx_simulation_ext.so.0.0.1' -g++ -o scitbx/array_family/boost_python/flex_double_matrix.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp +Create symlinks for: 'lib/rstbx_diffraction_fastbragg_ext.so.0.0.1' + 'lib/rstbx_diffraction_fastbragg_ext.so.0'->'lib/rstbx_diffraction_fastbragg_ext.so.0.0.1' + 'lib/rstbx_diffraction_fastbragg_ext.so'->'lib/rstbx_diffraction_fastbragg_ext.so.0.0.1' +g++ -o scitbx/array_family/boost_python/flex_int.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/assert.hpp:58, from /usr/include/boost/smart_ptr/shared_ptr.hpp:25, @@ -17843,11 +17861,29 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ +g++ -o lib/rstbx_simage_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_simage_ext.so.0 rstbx/simage/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/rstbx_simage_ext.so.0.0.1' + 'lib/rstbx_simage_ext.so.0'->'lib/rstbx_simage_ext.so.0.0.1' + 'lib/rstbx_simage_ext.so'->'lib/rstbx_simage_ext.so.0.0.1' +g++ -o scitbx/array_family/boost_python/flex_float.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_float.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_reduce_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_reduce_ext.so.0 mmtbx/reduce/boost_python/reduce_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Lreduce/lib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/reduce/lib -Lprobe/lib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/probe/lib -lreduce2lib -lprobelib -liotbx_pdb -lcctbx -lscitbx_boost_python -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o lib/rstbx_indexing_api_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_indexing_api_ext.so.0 rstbx/indexing_api/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/rstbx_indexing_api_ext.so.0.0.1' + 'lib/rstbx_indexing_api_ext.so.0'->'lib/rstbx_indexing_api_ext.so.0.0.1' + 'lib/rstbx_indexing_api_ext.so'->'lib/rstbx_indexing_api_ext.so.0.0.1' +g++ -o scitbx/array_family/boost_python/flex_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/mmtbx_reduce_ext.so.0.0.1' + 'lib/mmtbx_reduce_ext.so.0'->'lib/mmtbx_reduce_ext.so.0.0.1' + 'lib/mmtbx_reduce_ext.so'->'lib/mmtbx_reduce_ext.so.0.0.1' +g++ -o scitbx/array_family/boost_python/flex_double_matrix.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:1: + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:1: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); @@ -17873,15 +17909,15 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = long unsigned int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here - 131 | def( \ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here + 311 | def( \ | ~~~^~~ - 132 | #pyname"_from_byte_str", \ + 312 | #pyname"_from_byte_str", \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ - 133 | shared_from_byte_str, \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 134 | (arg("byte_str"))); \ + 313 | shared_from_byte_str, \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 314 | (arg("byte_str"))); \ | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); @@ -17891,15 +17927,15 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = unsigned char]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here - 131 | def( \ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = long int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here + 311 | def( \ | ~~~^~~ - 132 | #pyname"_from_byte_str", \ + 312 | #pyname"_from_byte_str", \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ - 133 | shared_from_byte_str, \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 134 | (arg("byte_str"))); \ + 313 | shared_from_byte_str, \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 314 | (arg("byte_str"))); \ | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); @@ -17909,15 +17945,15 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = short unsigned int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here - 131 | def( \ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = signed char]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here + 311 | def( \ | ~~~^~~ - 132 | #pyname"_from_byte_str", \ + 312 | #pyname"_from_byte_str", \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ - 133 | shared_from_byte_str, \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 134 | (arg("byte_str"))); \ + 313 | shared_from_byte_str, \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 314 | (arg("byte_str"))); \ | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); @@ -17927,15 +17963,15 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = unsigned int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here - 131 | def( \ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = short int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here + 311 | def( \ | ~~~^~~ - 132 | #pyname"_from_byte_str", \ + 312 | #pyname"_from_byte_str", \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ - 133 | shared_from_byte_str, \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 134 | (arg("byte_str"))); \ + 313 | shared_from_byte_str, \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 314 | (arg("byte_str"))); \ | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); @@ -17945,52 +17981,7 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = long unsigned int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 963 | def("first_index", first_index_a_s); - | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1031 | return numeric_no_pow(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here - 105 | flex_wrapper::integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = long unsigned int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_function.h:1435, - from /usr/include/c++/14/functional:49, - from /usr/include/boost/config/no_tr1/functional.hpp:21, - from /usr/include/boost/function/detail/prologue.hpp:15, - from /usr/include/boost/function/function_template.hpp:13, - from /usr/include/boost/function/detail/maybe_include.hpp:15, - from /usr/include/boost/function/function0.hpp:11, - from /usr/include/boost/python/errors.hpp:13, - from /usr/include/boost/python/handle.hpp:11, - from /usr/include/boost/python/to_python_value.hpp:14, - from /usr/include/boost/python/default_call_policies.hpp:10, - from /usr/include/boost/python/make_function.hpp:10, - from /usr/include/boost/python/def.hpp:11, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: -/usr/include/c++/14/backward/binders.h:172:5: note: declared here - 172 | bind2nd(const _Operation& __fn, const _Tp& __x) - | ^~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = long unsigned int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 964 | def("last_index", last_index_a_s); - | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1031 | return numeric_no_pow(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here - 105 | flex_wrapper::integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = long unsigned int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/14/backward/binders.h:172:5: note: declared here - 172 | bind2nd(const _Operation& __fn, const _Tp& __x) - | ^~~~~~~ +g++ -o lib/rstbx_integration_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_integration_ext.so.0 rstbx/apps/integration_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lann-cctbx -lann_adaptor -lspotfinder -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = bool]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_bool.cpp:429:8: required from here 429 | def("first_index", f_w::first_index_a_s, (arg("value"))); @@ -18025,97 +18016,91 @@ /usr/include/c++/14/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = unsigned char]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 963 | def("first_index", first_index_a_s); - | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1031 | return numeric_no_pow(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here - 105 | flex_wrapper::integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = unsigned char]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/14/backward/binders.h:172:5: note: declared here - 172 | bind2nd(const _Operation& __fn, const _Tp& __x) - | ^~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = unsigned char]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 964 | def("last_index", last_index_a_s); - | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1031 | return numeric_no_pow(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here - 105 | flex_wrapper::integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = unsigned char]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/14/backward/binders.h:172:5: note: declared here - 172 | bind2nd(const _Operation& __fn, const _Tp& __x) - | ^~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = short unsigned int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 963 | def("first_index", first_index_a_s); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here - 105 | flex_wrapper::integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = short unsigned int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1048 | return integer(python_name, flex_root_scope); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here + 242 | flex_wrapper::signed_integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_function.h:1435, + from /usr/include/c++/14/functional:49, + from /usr/include/boost/config/no_tr1/functional.hpp:21, + from /usr/include/boost/function/detail/prologue.hpp:15, + from /usr/include/boost/function/function_template.hpp:13, + from /usr/include/boost/function/detail/maybe_include.hpp:15, + from /usr/include/boost/function/function0.hpp:11, + from /usr/include/boost/python/errors.hpp:13, + from /usr/include/boost/python/handle.hpp:11, + from /usr/include/boost/python/to_python_value.hpp:14, + from /usr/include/boost/python/default_call_policies.hpp:10, + from /usr/include/boost/python/make_function.hpp:10, + from /usr/include/boost/python/def.hpp:11, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: /usr/include/c++/14/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = short unsigned int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 964 | def("last_index", last_index_a_s); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here - 105 | flex_wrapper::integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = short unsigned int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1048 | return integer(python_name, flex_root_scope); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here + 242 | flex_wrapper::signed_integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = unsigned int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = long int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 963 | def("first_index", first_index_a_s); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here - 105 | flex_wrapper::integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = unsigned int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1048 | return integer(python_name, flex_root_scope); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here + 242 | flex_wrapper::signed_integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = long int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = unsigned int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = long int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 964 | def("last_index", last_index_a_s); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here - 105 | flex_wrapper::integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = unsigned int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1048 | return integer(python_name, flex_root_scope); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here + 242 | flex_wrapper::signed_integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = long int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/backward/binders.h:172:5: note: declared here @@ -18170,6 +18155,87 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = signed char]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 963 | def("first_index", first_index_a_s); + | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1031 | return numeric_no_pow(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1048 | return integer(python_name, flex_root_scope); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here + 242 | flex_wrapper::signed_integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = signed char]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/14/backward/binders.h:172:5: note: declared here + 172 | bind2nd(const _Operation& __fn, const _Tp& __x) + | ^~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = signed char]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 964 | def("last_index", last_index_a_s); + | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1031 | return numeric_no_pow(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1048 | return integer(python_name, flex_root_scope); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here + 242 | flex_wrapper::signed_integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = signed char]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/14/backward/binders.h:172:5: note: declared here + 172 | bind2nd(const _Operation& __fn, const _Tp& __x) + | ^~~~~~~ +Create symlinks for: 'lib/rstbx_integration_ext.so.0.0.1' + 'lib/rstbx_integration_ext.so.0'->'lib/rstbx_integration_ext.so.0.0.1' + 'lib/rstbx_integration_ext.so'->'lib/rstbx_integration_ext.so.0.0.1' +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = short int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 963 | def("first_index", first_index_a_s); + | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1031 | return numeric_no_pow(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1048 | return integer(python_name, flex_root_scope); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here + 242 | flex_wrapper::signed_integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = short int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/14/backward/binders.h:172:5: note: declared here + 172 | bind2nd(const _Operation& __fn, const _Tp& __x) + | ^~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = short int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 964 | def("last_index", last_index_a_s); + | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1031 | return numeric_no_pow(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1048 | return integer(python_name, flex_root_scope); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here + 242 | flex_wrapper::signed_integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = short int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/14/backward/binders.h:172:5: note: declared here + 172 | bind2nd(const _Operation& __fn, const _Tp& __x) + | ^~~~~~~ +g++ -o scitbx/array_family/boost_python/flex_complex_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = bool]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy]’ @@ -18381,12 +18447,11 @@ | ~~~~~~~~~~^~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; -g++ -o lib/mmtbx_tls_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_tls_utils_ext.so.0 mmtbx/tls/utils.o mmtbx/tls/utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lmmtbx_tls -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:1: + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_float.cpp:1: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); @@ -18408,11 +18473,11 @@ from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/accessors/flex_grid.h:5: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, @@ -18421,26 +18486,29 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here - 105 | flex_wrapper::integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1048 | return integer(python_name, flex_root_scope); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here + 242 | flex_wrapper::signed_integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, @@ -18449,41 +18517,29 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here - 105 | flex_wrapper::integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1048 | return integer(python_name, flex_root_scope); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here + 242 | flex_wrapper::signed_integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/accessors/flex_grid.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/flex_types.h:6, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_float.cpp:1: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, @@ -18492,26 +18548,29 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here - 105 | flex_wrapper::integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1048 | return integer(python_name, flex_root_scope); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here + 242 | flex_wrapper::signed_integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, @@ -18520,26 +18579,75 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here - 105 | flex_wrapper::integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1048 | return integer(python_name, flex_root_scope); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here + 242 | flex_wrapper::signed_integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = float]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 963 | def("first_index", first_index_a_s); + | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1020 | return numeric_no_pow(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here + 12 | flex_wrapper::numeric("float", boost::python::scope()) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = float]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_function.h:1435, + from /usr/include/c++/14/functional:49, + from /usr/include/boost/config/no_tr1/functional.hpp:21, + from /usr/include/boost/function/detail/prologue.hpp:15, + from /usr/include/boost/function/function_template.hpp:13, + from /usr/include/boost/function/detail/maybe_include.hpp:15, + from /usr/include/boost/function/function0.hpp:11, + from /usr/include/boost/python/errors.hpp:13, + from /usr/include/boost/python/handle.hpp:11, + from /usr/include/boost/python/to_python_value.hpp:14, + from /usr/include/boost/python/default_call_policies.hpp:10, + from /usr/include/boost/python/make_function.hpp:10, + from /usr/include/boost/python/def.hpp:11, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: +/usr/include/c++/14/backward/binders.h:172:5: note: declared here + 172 | bind2nd(const _Operation& __fn, const _Tp& __x) + | ^~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = float]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 964 | def("last_index", last_index_a_s); + | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1020 | return numeric_no_pow(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here + 12 | flex_wrapper::numeric("float", boost::python::scope()) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = float]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/14/backward/binders.h:172:5: note: declared here + 172 | bind2nd(const _Operation& __fn, const _Tp& __x) + | ^~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, @@ -18548,26 +18656,29 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here - 105 | flex_wrapper::integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1048 | return integer(python_name, flex_root_scope); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here + 242 | flex_wrapper::signed_integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, @@ -18576,26 +18687,29 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here - 105 | flex_wrapper::integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1048 | return integer(python_name, flex_root_scope); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here + 242 | flex_wrapper::signed_integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, @@ -18604,26 +18718,29 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here - 105 | flex_wrapper::integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1048 | return integer(python_name, flex_root_scope); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here + 242 | flex_wrapper::signed_integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, @@ -18632,60 +18749,100 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here - 105 | flex_wrapper::integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1048 | return integer(python_name, flex_root_scope); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here + 242 | flex_wrapper::signed_integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +In file included from /usr/include/c++/14/cassert:44, + from /usr/include/boost/move/detail/type_traits.hpp:33, + from /usr/include/boost/move/traits.hpp:31, + from /usr/include/boost/move/utility.hpp:30, + from /usr/include/boost/optional/optional.hpp:59, + from /usr/include/boost/optional.hpp:15, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref_reductions.h:8, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:5, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/accessors/flex_grid.h:5: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ + 146 | &convertible, + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 769 | scitbx::boost_python::container_conversions::from_python_sequence< + | ^~~~~~~~~~~~~~~~~~~~~ + 770 | shared_plain, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~ + 771 | scitbx::boost_python::container_conversions + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 772 | ::variable_capacity_policy>(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 910 | return plain(python_name) + | ~~~~~^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 966 | return numeric_common(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1020 | return numeric_no_pow(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here + 12 | flex_wrapper::numeric("float", boost::python::scope()) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ + 146 | &convertible, + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 773 | scitbx::boost_python::container_conversions::from_python_sequence< + | ^~~~~~~~~~~~~~~~~~~~~ + 774 | shared, + | ~~~~~~~~~~~~~~~~~~~~ + 775 | scitbx::boost_python::container_conversions + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 776 | ::variable_capacity_policy>(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 910 | return plain(python_name) + | ~~~~~^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 966 | return numeric_common(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1020 | return numeric_no_pow(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here + 12 | flex_wrapper::numeric("float", boost::python::scope()) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -Create symlinks for: 'lib/mmtbx_tls_utils_ext.so.0.0.1' - 'lib/mmtbx_tls_utils_ext.so.0'->'lib/mmtbx_tls_utils_ext.so.0.0.1' - 'lib/mmtbx_tls_utils_ext.so'->'lib/mmtbx_tls_utils_ext.so.0.0.1' -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/accessors/flex_grid.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/flex_types.h:6, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double.cpp:1: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ^~~~~~~~~~~~~ -g++ -o scitbx/array_family/boost_python/flex_complex_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp:4: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/matrix/norms.h: In instantiation of ‘FloatType scitbx::matrix::norm_1(const scitbx::af::const_ref >&) [with FloatType = double]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp:119:74: required from here - 119 | double (*matrix_norm_1)(const_ref const &) = matrix::norm_1; - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/matrix/norms.h:16:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 16 | for (int i=0; i > scitbx::af::copy_slice(const const_ref >&, small) [with T = long unsigned int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -18736,30 +18893,32 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here - 105 | flex_wrapper::integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1048 | return integer(python_name, flex_root_scope); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here + 242 | flex_wrapper::signed_integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = long unsigned int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -18818,176 +18977,47 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here - 105 | flex_wrapper::integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1048 | return integer(python_name, flex_root_scope); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here + 242 | flex_wrapper::signed_integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&) [with FloatType = double]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp:177:11: required from here - 145 | class_f_t - | ~~~~~~~~~ - 146 | .def("is_square_matrix", is_square_matrix) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 147 | .def("matrix_diagonal", - | ~~~~~~~~~~~~~~~~~~~~~~~ - 148 | (shared(*)( - | ~~~~~~~~~~~~~~~~~~~ - 149 | const_ref > const&)) matrix_diagonal) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 150 | .def("matrix_upper_bidiagonal", matrix_upper_bidiagonal) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 151 | .def("matrix_lower_bidiagonal", matrix_lower_bidiagonal) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 152 | .def("matrix_diagonal_set_in_place", - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 153 | (void(*)( - | ~~~~~~~~~ - 154 | ref > const&, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 155 | double const&)) matrix_diagonal_set_in_place, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 156 | arg("value")) - | ~~~~~~~~~~~~~ - 157 | .def("matrix_diagonal_set_in_place", - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 158 | (void(*)( - | ~~~~~~~~~ - 159 | ref > const&, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 160 | const_ref const&)) matrix_diagonal_set_in_place, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 161 | arg("diagonal")) - | ~~~~~~~~~~~~~~~~ - 162 | .def("matrix_diagonal_add_in_place", - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 163 | (void(*)( - | ~~~~~~~~~ - 164 | ref > const&, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 165 | double const&)) matrix_diagonal_add_in_place, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 166 | arg("value")) - | ~~~~~~~~~~~~~ - 167 | .def("matrix_diagonal_sum", - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 168 | (double(*)( - | ~~~~~~~~~~~ - 169 | const_ref > const&)) matrix_diagonal_sum) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 170 | .def("matrix_trace", - | ~~~~~~~~~~~~~~~~~~~~ - 171 | (double(*)( - | ~~~~~~~~~~~ - 172 | const_ref > const&)) matrix_diagonal_sum) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 173 | .def("matrix_diagonal_product", - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 174 | (double(*)( - | ~~~~~~~~~~~ - 175 | const_ref > const&)) matrix_diagonal_product) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 176 | .def("matrix_norm_1", matrix_norm_1) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 177 | .def("matrix_norm_inf", matrix::norm_inf) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/matrix/norms.h:32:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 32 | for (int i=0; i >&) [with FloatType = double]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp:178:11: required from here - 145 | class_f_t - | ~~~~~~~~~ - 146 | .def("is_square_matrix", is_square_matrix) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 147 | .def("matrix_diagonal", - | ~~~~~~~~~~~~~~~~~~~~~~~ - 148 | (shared(*)( - | ~~~~~~~~~~~~~~~~~~~ - 149 | const_ref > const&)) matrix_diagonal) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 150 | .def("matrix_upper_bidiagonal", matrix_upper_bidiagonal) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 151 | .def("matrix_lower_bidiagonal", matrix_lower_bidiagonal) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 152 | .def("matrix_diagonal_set_in_place", - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 153 | (void(*)( - | ~~~~~~~~~ - 154 | ref > const&, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 155 | double const&)) matrix_diagonal_set_in_place, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 156 | arg("value")) - | ~~~~~~~~~~~~~ - 157 | .def("matrix_diagonal_set_in_place", - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 158 | (void(*)( - | ~~~~~~~~~ - 159 | ref > const&, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 160 | const_ref const&)) matrix_diagonal_set_in_place, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 161 | arg("diagonal")) - | ~~~~~~~~~~~~~~~~ - 162 | .def("matrix_diagonal_add_in_place", - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 163 | (void(*)( - | ~~~~~~~~~ - 164 | ref > const&, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 165 | double const&)) matrix_diagonal_add_in_place, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 166 | arg("value")) - | ~~~~~~~~~~~~~ - 167 | .def("matrix_diagonal_sum", - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 168 | (double(*)( - | ~~~~~~~~~~~ - 169 | const_ref > const&)) matrix_diagonal_sum) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 170 | .def("matrix_trace", - | ~~~~~~~~~~~~~~~~~~~~ - 171 | (double(*)( - | ~~~~~~~~~~~ - 172 | const_ref > const&)) matrix_diagonal_sum) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 173 | .def("matrix_diagonal_product", - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 174 | (double(*)( - | ~~~~~~~~~~~ - 175 | const_ref > const&)) matrix_diagonal_product) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 176 | .def("matrix_norm_1", matrix_norm_1) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 177 | .def("matrix_norm_inf", matrix::norm_inf) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 178 | .def("matrix_norm_frobenius", matrix::norm_frobenius) - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/matrix/norms.h:46:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 46 | for (int k=0; k < a_ij.size(); ++k) norm_accu(a_ij[k]); - | ~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = unsigned char]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/accessors/flex_grid.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/flex_types.h:6, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:1: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = long int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -19038,29 +19068,43 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here - 105 | flex_wrapper::integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1048 | return integer(python_name, flex_root_scope); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here + 242 | flex_wrapper::signed_integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = unsigned char]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp:4: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/matrix/norms.h: In instantiation of ‘FloatType scitbx::matrix::norm_1(const scitbx::af::const_ref >&) [with FloatType = double]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp:119:74: required from here + 119 | double (*matrix_norm_1)(const_ref const &) = matrix::norm_1; + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/matrix/norms.h:16:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 16 | for (int i=0; i >&, small, const const_ref >&) [with T = long int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -19119,47 +19163,32 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here - 105 | flex_wrapper::integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1048 | return integer(python_name, flex_root_scope); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here + 242 | flex_wrapper::signed_integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here - 311 | def( \ - | ~~~^~~ - 312 | #pyname"_from_byte_str", \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~ - 313 | shared_from_byte_str, \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 314 | (arg("byte_str"))); \ - | ~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ - 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); - | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = short unsigned int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = signed char]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -19210,29 +19239,33 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here - 105 | flex_wrapper::integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1048 | return integer(python_name, flex_root_scope); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here + 242 | flex_wrapper::signed_integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = short unsigned int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ - 269 | copy_to_slice(self, slices_simple, other.const_ref()); - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ - 289 | setitem_nd_slice(a, slices, b); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = float]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ + 202 | return copy_slice(self, slices_simple); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ + 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -19282,74 +19315,177 @@ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 807 | .def("__getitem__", getitem_1d_slice) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1031 | return numeric_no_pow(python_name, flex_root_scope) +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here - 105 | flex_wrapper::integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 114 | for (int i=0;i::numeric("float", boost::python::scope()) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 89 | for (int i=0;i scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = long int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here - 311 | def( \ - | ~~~^~~ - 312 | #pyname"_from_byte_str", \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~ - 313 | shared_from_byte_str, \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 314 | (arg("byte_str"))); \ - | ~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ - 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); - | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = signed char]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here - 311 | def( \ - | ~~~^~~ - 312 | #pyname"_from_byte_str", \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~ - 313 | shared_from_byte_str, \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 314 | (arg("byte_str"))); \ - | ~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ - 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); - | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = unsigned int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ - 202 | return copy_slice(self, slices_simple); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ - 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/matrix/norms.h: In instantiation of ‘FloatType scitbx::matrix::norm_inf(const scitbx::af::const_ref >&) [with FloatType = double]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp:177:11: required from here + 145 | class_f_t + | ~~~~~~~~~ + 146 | .def("is_square_matrix", is_square_matrix) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 147 | .def("matrix_diagonal", + | ~~~~~~~~~~~~~~~~~~~~~~~ + 148 | (shared(*)( + | ~~~~~~~~~~~~~~~~~~~ + 149 | const_ref > const&)) matrix_diagonal) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 150 | .def("matrix_upper_bidiagonal", matrix_upper_bidiagonal) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 151 | .def("matrix_lower_bidiagonal", matrix_lower_bidiagonal) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 152 | .def("matrix_diagonal_set_in_place", + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 153 | (void(*)( + | ~~~~~~~~~ + 154 | ref > const&, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 155 | double const&)) matrix_diagonal_set_in_place, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 156 | arg("value")) + | ~~~~~~~~~~~~~ + 157 | .def("matrix_diagonal_set_in_place", + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 158 | (void(*)( + | ~~~~~~~~~ + 159 | ref > const&, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 160 | const_ref const&)) matrix_diagonal_set_in_place, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 161 | arg("diagonal")) + | ~~~~~~~~~~~~~~~~ + 162 | .def("matrix_diagonal_add_in_place", + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 163 | (void(*)( + | ~~~~~~~~~ + 164 | ref > const&, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 165 | double const&)) matrix_diagonal_add_in_place, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 166 | arg("value")) + | ~~~~~~~~~~~~~ + 167 | .def("matrix_diagonal_sum", + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 168 | (double(*)( + | ~~~~~~~~~~~ + 169 | const_ref > const&)) matrix_diagonal_sum) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 170 | .def("matrix_trace", + | ~~~~~~~~~~~~~~~~~~~~ + 171 | (double(*)( + | ~~~~~~~~~~~ + 172 | const_ref > const&)) matrix_diagonal_sum) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 173 | .def("matrix_diagonal_product", + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 174 | (double(*)( + | ~~~~~~~~~~~ + 175 | const_ref > const&)) matrix_diagonal_product) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 176 | .def("matrix_norm_1", matrix_norm_1) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 177 | .def("matrix_norm_inf", matrix::norm_inf) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/matrix/norms.h:32:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 32 | for (int i=0; i >&) [with FloatType = double]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp:178:11: required from here + 145 | class_f_t + | ~~~~~~~~~ + 146 | .def("is_square_matrix", is_square_matrix) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 147 | .def("matrix_diagonal", + | ~~~~~~~~~~~~~~~~~~~~~~~ + 148 | (shared(*)( + | ~~~~~~~~~~~~~~~~~~~ + 149 | const_ref > const&)) matrix_diagonal) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 150 | .def("matrix_upper_bidiagonal", matrix_upper_bidiagonal) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 151 | .def("matrix_lower_bidiagonal", matrix_lower_bidiagonal) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 152 | .def("matrix_diagonal_set_in_place", + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 153 | (void(*)( + | ~~~~~~~~~ + 154 | ref > const&, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 155 | double const&)) matrix_diagonal_set_in_place, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 156 | arg("value")) + | ~~~~~~~~~~~~~ + 157 | .def("matrix_diagonal_set_in_place", + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 158 | (void(*)( + | ~~~~~~~~~ + 159 | ref > const&, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 160 | const_ref const&)) matrix_diagonal_set_in_place, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 161 | arg("diagonal")) + | ~~~~~~~~~~~~~~~~ + 162 | .def("matrix_diagonal_add_in_place", + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 163 | (void(*)( + | ~~~~~~~~~ + 164 | ref > const&, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 165 | double const&)) matrix_diagonal_add_in_place, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 166 | arg("value")) + | ~~~~~~~~~~~~~ + 167 | .def("matrix_diagonal_sum", + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 168 | (double(*)( + | ~~~~~~~~~~~ + 169 | const_ref > const&)) matrix_diagonal_sum) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 170 | .def("matrix_trace", + | ~~~~~~~~~~~~~~~~~~~~ + 171 | (double(*)( + | ~~~~~~~~~~~ + 172 | const_ref > const&)) matrix_diagonal_sum) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 173 | .def("matrix_diagonal_product", + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 174 | (double(*)( + | ~~~~~~~~~~~ + 175 | const_ref > const&)) matrix_diagonal_product) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 176 | .def("matrix_norm_1", matrix_norm_1) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 177 | .def("matrix_norm_inf", matrix::norm_inf) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 178 | .def("matrix_norm_frobenius", matrix::norm_frobenius) + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/matrix/norms.h:46:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 46 | for (int k=0; k < a_ij.size(); ++k) norm_accu(a_ij[k]); + | ~~^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = signed char]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ + 269 | copy_to_slice(self, slices_simple, other.const_ref()); + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ + 289 | setitem_nd_slice(a, slices, b); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -19399,30 +19535,41 @@ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 807 | .def("__getitem__", getitem_1d_slice) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here - 105 | flex_wrapper::integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 89 | for (int i=0;i::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1048 | return integer(python_name, flex_root_scope); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here + 242 | flex_wrapper::signed_integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 114 | for (int i=0;i >&, small, const const_ref >&) [with T = unsigned int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = float]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -19481,50 +19628,29 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1031 | return numeric_no_pow(python_name, flex_root_scope) +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here - 105 | flex_wrapper::integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here + 12 | flex_wrapper::numeric("float", boost::python::scope()) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = short int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here - 311 | def( \ - | ~~~^~~ - 312 | #pyname"_from_byte_str", \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~ - 313 | shared_from_byte_str, \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 314 | (arg("byte_str"))); \ - | ~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ - 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); - | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = long unsigned int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = long unsigned int]’ - 119 | detail::copy_to_slice_detail(self, slices, other); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ - 269 | copy_to_slice(self, slices_simple, other.const_ref()); - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ - 289 | setitem_nd_slice(a, slices, b); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = short int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ + 202 | return copy_slice(self, slices_simple); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ + 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -19574,86 +19700,33 @@ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 807 | .def("__getitem__", getitem_1d_slice) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here - 105 | flex_wrapper::integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 70 | if (idx_a[j] < slices[j].stop) break; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = float]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 963 | def("first_index", first_index_a_s); - | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1020 | return numeric_no_pow(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here - 12 | flex_wrapper::numeric("float", boost::python::scope()) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = float]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_function.h:1435, - from /usr/include/c++/14/functional:49, - from /usr/include/boost/config/no_tr1/functional.hpp:21, - from /usr/include/boost/function/detail/prologue.hpp:15, - from /usr/include/boost/function/function_template.hpp:13, - from /usr/include/boost/function/detail/maybe_include.hpp:15, - from /usr/include/boost/function/function0.hpp:11, - from /usr/include/boost/python/errors.hpp:13, - from /usr/include/boost/python/handle.hpp:11, - from /usr/include/boost/python/to_python_value.hpp:14, - from /usr/include/boost/python/default_call_policies.hpp:10, - from /usr/include/boost/python/make_function.hpp:10, - from /usr/include/boost/python/def.hpp:11, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: -/usr/include/c++/14/backward/binders.h:172:5: note: declared here - 172 | bind2nd(const _Operation& __fn, const _Tp& __x) - | ^~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = float]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 964 | def("last_index", last_index_a_s); - | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1020 | return numeric_no_pow(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here - 12 | flex_wrapper::numeric("float", boost::python::scope()) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = float]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/14/backward/binders.h:172:5: note: declared here - 172 | bind2nd(const _Operation& __fn, const _Tp& __x) - | ^~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = unsigned char]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = unsigned char]’ - 119 | detail::copy_to_slice_detail(self, slices, other); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1048 | return integer(python_name, flex_root_scope); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here + 242 | flex_wrapper::signed_integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 89 | for (int i=0;i >&, small, const const_ref >&) [with T = short int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -19712,103 +19785,35 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1031 | return numeric_no_pow(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here - 105 | flex_wrapper::integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 70 | if (idx_a[j] < slices[j].stop) break; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double.cpp: In function ‘scitbx::af::flex::type* scitbx::af::{anonymous}::from_list_or_tuple_of_lists_or_tuples(PyObject*)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double.cpp:138:38: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 138 | if (PyList_GET_SIZE(row) != n_columns) { - | ^ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double.cpp:154:39: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 154 | if (PyTuple_GET_SIZE(row) != n_columns) { - | ^ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double.cpp:190:38: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 190 | if (PyList_GET_SIZE(row) != n_columns) { - | ^ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double.cpp:206:39: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 206 | if (PyTuple_GET_SIZE(row) != n_columns) { - | ^ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double.cpp: In function ‘std::string scitbx::af::{anonymous}::mathematica_form(const scitbx::af::const_ref >&)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double.cpp:452:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 452 | for (int i=1; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 454 | if (i != indices.size() - 1) o << ","; - | ~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 963 | def("first_index", first_index_a_s); - | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1031 | return numeric_no_pow(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1048 | return integer(python_name, flex_root_scope); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here - 242 | flex_wrapper::signed_integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_function.h:1435, - from /usr/include/c++/14/functional:49, - from /usr/include/boost/config/no_tr1/functional.hpp:21, - from /usr/include/boost/function/detail/prologue.hpp:15, - from /usr/include/boost/function/function_template.hpp:13, - from /usr/include/boost/function/detail/maybe_include.hpp:15, - from /usr/include/boost/function/function0.hpp:11, - from /usr/include/boost/python/errors.hpp:13, - from /usr/include/boost/python/handle.hpp:11, - from /usr/include/boost/python/to_python_value.hpp:14, - from /usr/include/boost/python/default_call_policies.hpp:10, - from /usr/include/boost/python/make_function.hpp:10, - from /usr/include/boost/python/def.hpp:11, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: -/usr/include/c++/14/backward/binders.h:172:5: note: declared here - 172 | bind2nd(const _Operation& __fn, const _Tp& __x) - | ^~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 964 | def("last_index", last_index_a_s); - | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/14/backward/binders.h:172:5: note: declared here - 172 | bind2nd(const _Operation& __fn, const _Tp& __x) - | ^~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = short unsigned int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = short unsigned int]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = float]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = float]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -19867,80 +19872,6 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 910 | return plain(python_name) - | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 966 | return numeric_common(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1031 | return numeric_no_pow(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here - 105 | flex_wrapper::integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 70 | if (idx_a[j] < slices[j].stop) break; -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double.cpp:7: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/matrix/norms.h: In instantiation of ‘FloatType scitbx::matrix::norm_1(const scitbx::af::const_ref&) [with FloatType = double]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double.cpp:365:26: required from here - 365 | return matrix::norm_1(self); - | ~~~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/matrix/norms.h:25:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 25 | for (int i=0; i::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ - 146 | &convertible, - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 769 | scitbx::boost_python::container_conversions::from_python_sequence< - | ^~~~~~~~~~~~~~~~~~~~~ - 770 | shared_plain, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~ - 771 | scitbx::boost_python::container_conversions - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 772 | ::variable_capacity_policy>(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 910 | return plain(python_name) - | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 966 | return numeric_common(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1020 | return numeric_no_pow(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here - 12 | flex_wrapper::numeric("float", boost::python::scope()) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ - 146 | &convertible, - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 773 | scitbx::boost_python::container_conversions::from_python_sequence< - | ^~~~~~~~~~~~~~~~~~~~~ - 774 | shared, - | ~~~~~~~~~~~~~~~~~~~~ - 775 | scitbx::boost_python::container_conversions - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 776 | ::variable_capacity_policy>(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ @@ -19953,114 +19884,19 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here 12 | flex_wrapper::numeric("float", boost::python::scope()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = long int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 963 | def("first_index", first_index_a_s); - | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1031 | return numeric_no_pow(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1048 | return integer(python_name, flex_root_scope); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here - 242 | flex_wrapper::signed_integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = long int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/14/backward/binders.h:172:5: note: declared here - 172 | bind2nd(const _Operation& __fn, const _Tp& __x) - | ^~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = long int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 964 | def("last_index", last_index_a_s); - | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1031 | return numeric_no_pow(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1048 | return integer(python_name, flex_root_scope); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here - 242 | flex_wrapper::signed_integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = long int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/14/backward/binders.h:172:5: note: declared here - 172 | bind2nd(const _Operation& __fn, const _Tp& __x) - | ^~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = double]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double.cpp:536:8: required from here - 536 | def( - | ~~~^ - 537 | "double_from_byte_str", - | ~~~~~~~~~~~~~~~~~~~~~~~ - 538 | shared_from_byte_str, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 539 | (arg("byte_str"))); - | ~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ - 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); - | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = signed char]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 963 | def("first_index", first_index_a_s); - | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1031 | return numeric_no_pow(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1048 | return integer(python_name, flex_root_scope); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here - 242 | flex_wrapper::signed_integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = signed char]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/14/backward/binders.h:172:5: note: declared here - 172 | bind2nd(const _Operation& __fn, const _Tp& __x) - | ^~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = signed char]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 964 | def("last_index", last_index_a_s); - | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1031 | return numeric_no_pow(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1048 | return integer(python_name, flex_root_scope); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here - 242 | flex_wrapper::signed_integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = signed char]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/14/backward/binders.h:172:5: note: declared here - 172 | bind2nd(const _Operation& __fn, const _Tp& __x) - | ^~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = unsigned int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = unsigned int]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 70 | if (idx_a[j] < slices[j].stop) break; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = int]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -20119,29 +19955,34 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here - 105 | flex_wrapper::integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1048 | return integer(python_name, flex_root_scope); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here + 242 | flex_wrapper::signed_integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = float]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ - 202 | return copy_slice(self, slices_simple); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ - 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = long int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = long int]’ + 119 | detail::copy_to_slice_detail(self, slices, other); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ + 269 | copy_to_slice(self, slices_simple, other.const_ref()); + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ + 289 | setitem_nd_slice(a, slices, b); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -20191,68 +20032,43 @@ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 807 | .def("__getitem__", getitem_1d_slice) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1020 | return numeric_no_pow(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here - 12 | flex_wrapper::numeric("float", boost::python::scope()) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 89 | for (int i=0;i scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = short int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 963 | def("first_index", first_index_a_s); - | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1031 | return numeric_no_pow(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1048 | return integer(python_name, flex_root_scope); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here - 242 | flex_wrapper::signed_integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = short int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/14/backward/binders.h:172:5: note: declared here - 172 | bind2nd(const _Operation& __fn, const _Tp& __x) - | ^~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = short int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 964 | def("last_index", last_index_a_s); - | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = short int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/14/backward/binders.h:172:5: note: declared here - 172 | bind2nd(const _Operation& __fn, const _Tp& __x) - | ^~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = float]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 70 | if (idx_a[j] < slices[j].stop) break; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = signed char]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = signed char]’ + 119 | detail::copy_to_slice_detail(self, slices, other); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -20311,33 +20127,34 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1020 | return numeric_no_pow(python_name, flex_root_scope) +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here - 12 | flex_wrapper::numeric("float", boost::python::scope()) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = float]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = float]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1048 | return integer(python_name, flex_root_scope); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here + 242 | flex_wrapper::signed_integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 70 | if (idx_a[j] < slices[j].stop) break; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = short int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = short int]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -20396,20 +20213,301 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1020 | return numeric_no_pow(python_name, flex_root_scope) +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1031 | return numeric_no_pow(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1048 | return integer(python_name, flex_root_scope); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here + 242 | flex_wrapper::signed_integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 70 | if (idx_a[j] < slices[j].stop) break; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = long unsigned int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here + 131 | def( \ + | ~~~^~~ + 132 | #pyname"_from_byte_str", \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~ + 133 | shared_from_byte_str, \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 134 | (arg("byte_str"))); \ + | ~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ + 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); + | ^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = unsigned char]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here + 131 | def( \ + | ~~~^~~ + 132 | #pyname"_from_byte_str", \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~ + 133 | shared_from_byte_str, \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 134 | (arg("byte_str"))); \ + | ~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ + 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); + | ^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = short unsigned int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here + 131 | def( \ + | ~~~^~~ + 132 | #pyname"_from_byte_str", \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~ + 133 | shared_from_byte_str, \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 134 | (arg("byte_str"))); \ + | ~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ + 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); + | ^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = unsigned int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here + 131 | def( \ + | ~~~^~~ + 132 | #pyname"_from_byte_str", \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~ + 133 | shared_from_byte_str, \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 134 | (arg("byte_str"))); \ + | ~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ + 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); + | ^~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/accessors/flex_grid.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/flex_types.h:6, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double.cpp:1: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = long unsigned int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 963 | def("first_index", first_index_a_s); + | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1031 | return numeric_no_pow(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here + 105 | flex_wrapper::integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = long unsigned int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_function.h:1435, + from /usr/include/c++/14/functional:49, + from /usr/include/boost/config/no_tr1/functional.hpp:21, + from /usr/include/boost/function/detail/prologue.hpp:15, + from /usr/include/boost/function/function_template.hpp:13, + from /usr/include/boost/function/detail/maybe_include.hpp:15, + from /usr/include/boost/function/function0.hpp:11, + from /usr/include/boost/python/errors.hpp:13, + from /usr/include/boost/python/handle.hpp:11, + from /usr/include/boost/python/to_python_value.hpp:14, + from /usr/include/boost/python/default_call_policies.hpp:10, + from /usr/include/boost/python/make_function.hpp:10, + from /usr/include/boost/python/def.hpp:11, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: +/usr/include/c++/14/backward/binders.h:172:5: note: declared here + 172 | bind2nd(const _Operation& __fn, const _Tp& __x) + | ^~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = long unsigned int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 964 | def("last_index", last_index_a_s); + | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1031 | return numeric_no_pow(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here + 105 | flex_wrapper::integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = long unsigned int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/14/backward/binders.h:172:5: note: declared here + 172 | bind2nd(const _Operation& __fn, const _Tp& __x) + | ^~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = unsigned char]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 963 | def("first_index", first_index_a_s); + | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1031 | return numeric_no_pow(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here + 105 | flex_wrapper::integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = unsigned char]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/14/backward/binders.h:172:5: note: declared here + 172 | bind2nd(const _Operation& __fn, const _Tp& __x) + | ^~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = unsigned char]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 964 | def("last_index", last_index_a_s); + | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1031 | return numeric_no_pow(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here + 105 | flex_wrapper::integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = unsigned char]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/14/backward/binders.h:172:5: note: declared here + 172 | bind2nd(const _Operation& __fn, const _Tp& __x) + | ^~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = short unsigned int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 963 | def("first_index", first_index_a_s); + | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1031 | return numeric_no_pow(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here + 105 | flex_wrapper::integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = short unsigned int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/14/backward/binders.h:172:5: note: declared here + 172 | bind2nd(const _Operation& __fn, const _Tp& __x) + | ^~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = short unsigned int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 964 | def("last_index", last_index_a_s); + | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1031 | return numeric_no_pow(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here + 105 | flex_wrapper::integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = short unsigned int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/14/backward/binders.h:172:5: note: declared here + 172 | bind2nd(const _Operation& __fn, const _Tp& __x) + | ^~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = unsigned int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 963 | def("first_index", first_index_a_s); + | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here - 12 | flex_wrapper::numeric("float", boost::python::scope()) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 70 | if (idx_a[j] < slices[j].stop) break; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here + 105 | flex_wrapper::integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = unsigned int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/14/backward/binders.h:172:5: note: declared here + 172 | bind2nd(const _Operation& __fn, const _Tp& __x) + | ^~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = unsigned int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 964 | def("last_index", last_index_a_s); + | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1031 | return numeric_no_pow(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here + 105 | flex_wrapper::integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = unsigned int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/14/backward/binders.h:172:5: note: declared here + 172 | bind2nd(const _Operation& __fn, const _Tp& __x) + | ^~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double.cpp: In function ‘scitbx::af::flex::type* scitbx::af::{anonymous}::from_list_or_tuple_of_lists_or_tuples(PyObject*)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double.cpp:138:38: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 138 | if (PyList_GET_SIZE(row) != n_columns) { + | ^ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double.cpp:154:39: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 154 | if (PyTuple_GET_SIZE(row) != n_columns) { + | ^ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double.cpp:190:38: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 190 | if (PyList_GET_SIZE(row) != n_columns) { + | ^ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double.cpp:206:39: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 206 | if (PyTuple_GET_SIZE(row) != n_columns) { + | ^ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double.cpp: In function ‘std::string scitbx::af::{anonymous}::mathematica_form(const scitbx::af::const_ref >&)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double.cpp:452:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 452 | for (int i=1; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 454 | if (i != indices.size() - 1) o << ","; + | ~~^~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double.cpp:7: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/matrix/norms.h: In instantiation of ‘FloatType scitbx::matrix::norm_1(const scitbx::af::const_ref&) [with FloatType = double]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double.cpp:365:26: required from here + 365 | return matrix::norm_1(self); + | ~~~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/matrix/norms.h:25:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 25 | for (int i=0; i scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = double]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double.cpp:536:8: required from here + 536 | def( + | ~~~^ + 537 | "double_from_byte_str", + | ~~~~~~~~~~~~~~~~~~~~~~~ + 538 | shared_from_byte_str, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 539 | (arg("byte_str"))); + | ~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ + 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); + | ^~~~~~~~~~~~~ +g++ -o lib/mmtbx_tls_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_tls_utils_ext.so.0 mmtbx/tls/utils.o mmtbx/tls/utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lmmtbx_tls -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = double]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 963 | def("first_index", first_index_a_s); @@ -20456,11 +20554,241 @@ /usr/include/c++/14/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ -Create symlinks for: 'lib/rstbx_integration_ext.so.0.0.1' - 'lib/rstbx_integration_ext.so.0'->'lib/rstbx_integration_ext.so.0.0.1' - 'lib/rstbx_integration_ext.so'->'lib/rstbx_integration_ext.so.0.0.1' -g++ -o scitbx/array_family/boost_python/flex_std_string.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_std_string.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /usr/include/c++/14/cassert:44, + from /usr/include/boost/move/detail/type_traits.hpp:33, + from /usr/include/boost/move/traits.hpp:31, + from /usr/include/boost/move/utility.hpp:30, + from /usr/include/boost/optional/optional.hpp:59, + from /usr/include/boost/optional.hpp:15, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref_reductions.h:8, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:5, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/accessors/flex_grid.h:5: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ + 146 | &convertible, + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 769 | scitbx::boost_python::container_conversions::from_python_sequence< + | ^~~~~~~~~~~~~~~~~~~~~ + 770 | shared_plain, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~ + 771 | scitbx::boost_python::container_conversions + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 772 | ::variable_capacity_policy>(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 910 | return plain(python_name) + | ~~~~~^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 966 | return numeric_common(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1031 | return numeric_no_pow(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here + 105 | flex_wrapper::integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ + 146 | &convertible, + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 773 | scitbx::boost_python::container_conversions::from_python_sequence< + | ^~~~~~~~~~~~~~~~~~~~~ + 774 | shared, + | ~~~~~~~~~~~~~~~~~~~~ + 775 | scitbx::boost_python::container_conversions + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 776 | ::variable_capacity_policy>(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 910 | return plain(python_name) + | ~~~~~^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 966 | return numeric_common(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1031 | return numeric_no_pow(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here + 105 | flex_wrapper::integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ + 146 | &convertible, + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 769 | scitbx::boost_python::container_conversions::from_python_sequence< + | ^~~~~~~~~~~~~~~~~~~~~ + 770 | shared_plain, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~ + 771 | scitbx::boost_python::container_conversions + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 772 | ::variable_capacity_policy>(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 910 | return plain(python_name) + | ~~~~~^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 966 | return numeric_common(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1031 | return numeric_no_pow(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here + 105 | flex_wrapper::integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ + 146 | &convertible, + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 773 | scitbx::boost_python::container_conversions::from_python_sequence< + | ^~~~~~~~~~~~~~~~~~~~~ + 774 | shared, + | ~~~~~~~~~~~~~~~~~~~~ + 775 | scitbx::boost_python::container_conversions + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 776 | ::variable_capacity_policy>(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 910 | return plain(python_name) + | ~~~~~^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 966 | return numeric_common(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1031 | return numeric_no_pow(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here + 105 | flex_wrapper::integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ + 146 | &convertible, + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 769 | scitbx::boost_python::container_conversions::from_python_sequence< + | ^~~~~~~~~~~~~~~~~~~~~ + 770 | shared_plain, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~ + 771 | scitbx::boost_python::container_conversions + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 772 | ::variable_capacity_policy>(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 910 | return plain(python_name) + | ~~~~~^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 966 | return numeric_common(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1031 | return numeric_no_pow(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here + 105 | flex_wrapper::integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ + 146 | &convertible, + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 773 | scitbx::boost_python::container_conversions::from_python_sequence< + | ^~~~~~~~~~~~~~~~~~~~~ + 774 | shared, + | ~~~~~~~~~~~~~~~~~~~~ + 775 | scitbx::boost_python::container_conversions + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 776 | ::variable_capacity_policy>(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 910 | return plain(python_name) + | ~~~~~^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 966 | return numeric_common(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1031 | return numeric_no_pow(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here + 105 | flex_wrapper::integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ + 146 | &convertible, + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 769 | scitbx::boost_python::container_conversions::from_python_sequence< + | ^~~~~~~~~~~~~~~~~~~~~ + 770 | shared_plain, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~ + 771 | scitbx::boost_python::container_conversions + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 772 | ::variable_capacity_policy>(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 910 | return plain(python_name) + | ~~~~~^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 966 | return numeric_common(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1031 | return numeric_no_pow(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here + 105 | flex_wrapper::integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ + 146 | &convertible, + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 773 | scitbx::boost_python::container_conversions::from_python_sequence< + | ^~~~~~~~~~~~~~~~~~~~~ + 774 | shared, + | ~~~~~~~~~~~~~~~~~~~~ + 775 | scitbx::boost_python::container_conversions + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 776 | ::variable_capacity_policy>(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 910 | return plain(python_name) + | ~~~~~^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 966 | return numeric_common(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1031 | return numeric_no_pow(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here + 105 | flex_wrapper::integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ In file included from /usr/include/c++/14/cassert:44, from /usr/include/boost/move/detail/type_traits.hpp:33, from /usr/include/boost/move/traits.hpp:31, @@ -20528,15 +20856,18 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ +Create symlinks for: 'lib/mmtbx_tls_utils_ext.so.0.0.1' + 'lib/mmtbx_tls_utils_ext.so.0'->'lib/mmtbx_tls_utils_ext.so.0.0.1' + 'lib/mmtbx_tls_utils_ext.so'->'lib/mmtbx_tls_utils_ext.so.0.0.1' In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = double]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = long unsigned int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -20587,29 +20918,29 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1020 | return numeric_no_pow(python_name, flex_root_scope) +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here - 477 | f_w::class_f_t class_f_t(f_w::numeric("double", scope())); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here + 105 | flex_wrapper::integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = double]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = long unsigned int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -20668,6 +20999,81 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 910 | return plain(python_name) + | ~~~~~^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 966 | return numeric_common(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1031 | return numeric_no_pow(python_name, flex_root_scope) + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here + 105 | flex_wrapper::integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 114 | for (int i=0;i > scitbx::af::copy_slice(const const_ref >&, small) [with T = double]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ + 202 | return copy_slice(self, slices_simple); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ + 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 782 | result + | ~~~~~~ + 783 | .def(init const&, optional >()) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 784 | .def(init >()) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 785 | .def(init const&>()) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 786 | .def("element_size", element_size) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 787 | .staticmethod("element_size") + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 788 | .def("accessor", accessor) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~ + 789 | .def("nd", nd) + | ~~~~~~~~~~~~~~ + 790 | .def("is_0_based", is_0_based) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 791 | .def("origin", origin) + | ~~~~~~~~~~~~~~~~~~~~~~ + 792 | .def("all", all) + | ~~~~~~~~~~~~~~~~ + 793 | .def("last", last_0) + | ~~~~~~~~~~~~~~~~~~~~ + 794 | .def("last", last_1) + | ~~~~~~~~~~~~~~~~~~~~ + 795 | .def("is_padded", is_padded) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 796 | .def("focus", focus_0) + | ~~~~~~~~~~~~~~~~~~~~~~ + 797 | .def("focus", focus_1) + | ~~~~~~~~~~~~~~~~~~~~~~ + 798 | .def("focus_size_1d", focus_size_1d) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 799 | .def("is_trivial_1d", is_trivial_1d) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 800 | .def("shift_origin", shift_origin) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 801 | .def("id", id) + | ~~~~~~~~~~~~~~ + 802 | .def("size", size) + | ~~~~~~~~~~~~~~~~~~ + 803 | .def("__len__", size) + | ~~~~~~~~~~~~~~~~~~~~~ + 804 | .def("__sizeof__", memory_footprint) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 805 | .def("capacity", capacity) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~ + 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ @@ -20680,13 +21086,11 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here 477 | f_w::class_f_t class_f_t(f_w::numeric("double", scope())); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = double]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = double]’ - 119 | detail::copy_to_slice_detail(self, slices, other); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = double]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -20764,276 +21168,17 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here 477 | f_w::class_f_t class_f_t(f_w::numeric("double", scope())); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 70 | if (idx_a[j] < slices[j].stop) break; -In file included from /usr/include/c++/14/cassert:44, - from /usr/include/boost/move/detail/type_traits.hpp:33, - from /usr/include/boost/move/traits.hpp:31, - from /usr/include/boost/move/utility.hpp:30, - from /usr/include/boost/optional/optional.hpp:59, - from /usr/include/boost/optional.hpp:15, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref_reductions.h:8, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:5, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/accessors/flex_grid.h:5: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ - 146 | &convertible, - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 769 | scitbx::boost_python::container_conversions::from_python_sequence< - | ^~~~~~~~~~~~~~~~~~~~~ - 770 | shared_plain, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~ - 771 | scitbx::boost_python::container_conversions - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 772 | ::variable_capacity_policy>(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 910 | return plain(python_name) - | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 966 | return numeric_common(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1031 | return numeric_no_pow(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1048 | return integer(python_name, flex_root_scope); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here - 242 | flex_wrapper::signed_integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ - 146 | &convertible, - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 773 | scitbx::boost_python::container_conversions::from_python_sequence< - | ^~~~~~~~~~~~~~~~~~~~~ - 774 | shared, - | ~~~~~~~~~~~~~~~~~~~~ - 775 | scitbx::boost_python::container_conversions - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 776 | ::variable_capacity_policy>(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 910 | return plain(python_name) - | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 966 | return numeric_common(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1031 | return numeric_no_pow(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1048 | return integer(python_name, flex_root_scope); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here - 242 | flex_wrapper::signed_integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ - 146 | &convertible, - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 769 | scitbx::boost_python::container_conversions::from_python_sequence< - | ^~~~~~~~~~~~~~~~~~~~~ - 770 | shared_plain, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~ - 771 | scitbx::boost_python::container_conversions - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 772 | ::variable_capacity_policy>(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 910 | return plain(python_name) - | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 966 | return numeric_common(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1031 | return numeric_no_pow(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1048 | return integer(python_name, flex_root_scope); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here - 242 | flex_wrapper::signed_integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ - 146 | &convertible, - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 773 | scitbx::boost_python::container_conversions::from_python_sequence< - | ^~~~~~~~~~~~~~~~~~~~~ - 774 | shared, - | ~~~~~~~~~~~~~~~~~~~~ - 775 | scitbx::boost_python::container_conversions - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 776 | ::variable_capacity_policy>(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 910 | return plain(python_name) - | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 966 | return numeric_common(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1031 | return numeric_no_pow(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1048 | return integer(python_name, flex_root_scope); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here - 242 | flex_wrapper::signed_integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ - 146 | &convertible, - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 769 | scitbx::boost_python::container_conversions::from_python_sequence< - | ^~~~~~~~~~~~~~~~~~~~~ - 770 | shared_plain, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~ - 771 | scitbx::boost_python::container_conversions - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 772 | ::variable_capacity_policy>(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 910 | return plain(python_name) - | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 966 | return numeric_common(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1031 | return numeric_no_pow(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1048 | return integer(python_name, flex_root_scope); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here - 242 | flex_wrapper::signed_integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ - 146 | &convertible, - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 773 | scitbx::boost_python::container_conversions::from_python_sequence< - | ^~~~~~~~~~~~~~~~~~~~~ - 774 | shared, - | ~~~~~~~~~~~~~~~~~~~~ - 775 | scitbx::boost_python::container_conversions - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 776 | ::variable_capacity_policy>(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 910 | return plain(python_name) - | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 966 | return numeric_common(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1031 | return numeric_no_pow(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1048 | return integer(python_name, flex_root_scope); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here - 242 | flex_wrapper::signed_integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ - 146 | &convertible, - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 769 | scitbx::boost_python::container_conversions::from_python_sequence< - | ^~~~~~~~~~~~~~~~~~~~~ - 770 | shared_plain, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~ - 771 | scitbx::boost_python::container_conversions - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 772 | ::variable_capacity_policy>(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 910 | return plain(python_name) - | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 966 | return numeric_common(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1031 | return numeric_no_pow(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1048 | return integer(python_name, flex_root_scope); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here - 242 | flex_wrapper::signed_integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ - 146 | &convertible, - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 773 | scitbx::boost_python::container_conversions::from_python_sequence< - | ^~~~~~~~~~~~~~~~~~~~~ - 774 | shared, - | ~~~~~~~~~~~~~~~~~~~~ - 775 | scitbx::boost_python::container_conversions - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 776 | ::variable_capacity_policy>(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 910 | return plain(python_name) - | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 966 | return numeric_common(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1031 | return numeric_no_pow(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1048 | return integer(python_name, flex_root_scope); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here - 242 | flex_wrapper::signed_integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 114 | for (int i=0;i > scitbx::af::copy_slice(const const_ref >&, small) [with T = unsigned char]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -21084,32 +21229,29 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1048 | return integer(python_name, flex_root_scope); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here - 242 | flex_wrapper::signed_integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here + 105 | flex_wrapper::integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = unsigned char]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -21168,32 +21310,29 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1048 | return integer(python_name, flex_root_scope); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here - 242 | flex_wrapper::signed_integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here + 105 | flex_wrapper::integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i > scitbx::af::copy_slice(const const_ref >&, small) [with T = long int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = short unsigned int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -21244,32 +21383,29 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1048 | return integer(python_name, flex_root_scope); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here - 242 | flex_wrapper::signed_integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here + 105 | flex_wrapper::integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = long int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = short unsigned int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -21328,108 +21464,32 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1048 | return integer(python_name, flex_root_scope); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here - 242 | flex_wrapper::signed_integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here + 105 | flex_wrapper::integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i > scitbx::af::copy_slice(const const_ref >&, small) [with T = signed char]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ - 202 | return copy_slice(self, slices_simple); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ - 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 782 | result - | ~~~~~~ - 783 | .def(init const&, optional >()) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 784 | .def(init >()) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 785 | .def(init const&>()) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 786 | .def("element_size", element_size) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 787 | .staticmethod("element_size") - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 788 | .def("accessor", accessor) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~ - 789 | .def("nd", nd) - | ~~~~~~~~~~~~~~ - 790 | .def("is_0_based", is_0_based) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 791 | .def("origin", origin) - | ~~~~~~~~~~~~~~~~~~~~~~ - 792 | .def("all", all) - | ~~~~~~~~~~~~~~~~ - 793 | .def("last", last_0) - | ~~~~~~~~~~~~~~~~~~~~ - 794 | .def("last", last_1) - | ~~~~~~~~~~~~~~~~~~~~ - 795 | .def("is_padded", is_padded) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 796 | .def("focus", focus_0) - | ~~~~~~~~~~~~~~~~~~~~~~ - 797 | .def("focus", focus_1) - | ~~~~~~~~~~~~~~~~~~~~~~ - 798 | .def("focus_size_1d", focus_size_1d) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 799 | .def("is_trivial_1d", is_trivial_1d) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 800 | .def("shift_origin", shift_origin) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 801 | .def("id", id) - | ~~~~~~~~~~~~~~ - 802 | .def("size", size) - | ~~~~~~~~~~~~~~~~~~ - 803 | .def("__len__", size) - | ~~~~~~~~~~~~~~~~~~~~~ - 804 | .def("__sizeof__", memory_footprint) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 805 | .def("capacity", capacity) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~ - 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 910 | return plain(python_name) - | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 966 | return numeric_common(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1031 | return numeric_no_pow(python_name, flex_root_scope) - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1048 | return integer(python_name, flex_root_scope); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here - 242 | flex_wrapper::signed_integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 89 | for (int i=0;i >&, small, const const_ref >&) [with T = signed char]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = double]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = double]’ + 119 | detail::copy_to_slice_detail(self, slices, other); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -21488,32 +21548,28 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1031 | return numeric_no_pow(python_name, flex_root_scope) +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1048 | return integer(python_name, flex_root_scope); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here - 242 | flex_wrapper::signed_integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 114 | for (int i=0;i > scitbx::af::copy_slice(const const_ref >&, small) [with T = short int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here + 477 | f_w::class_f_t class_f_t(f_w::numeric("double", scope())); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 70 | if (idx_a[j] < slices[j].stop) break; +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = unsigned int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -21564,32 +21620,29 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1048 | return integer(python_name, flex_root_scope); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here - 242 | flex_wrapper::signed_integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here + 105 | flex_wrapper::integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = short int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = unsigned int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -21648,35 +21701,32 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1048 | return integer(python_name, flex_root_scope); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here - 242 | flex_wrapper::signed_integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here + 105 | flex_wrapper::integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = int]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = long unsigned int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = long unsigned int]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -21735,34 +21785,31 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1048 | return integer(python_name, flex_root_scope); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here - 242 | flex_wrapper::signed_integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here + 105 | flex_wrapper::integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = long int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = long int]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = unsigned char]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = unsigned char]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -21821,34 +21868,31 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1048 | return integer(python_name, flex_root_scope); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here - 242 | flex_wrapper::signed_integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here + 105 | flex_wrapper::integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = signed char]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = signed char]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = short unsigned int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = short unsigned int]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -21907,34 +21951,31 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1048 | return integer(python_name, flex_root_scope); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here - 242 | flex_wrapper::signed_integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here + 105 | flex_wrapper::integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = short int]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = short int]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = unsigned int]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = unsigned int]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -21993,31 +22034,20 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 1048 | return integer(python_name, flex_root_scope); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here - 242 | flex_wrapper::signed_integer(#pyname, scope()) \ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here + 105 | flex_wrapper::integer(#pyname, scope()) \ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; -g++ -o scitbx/array_family/boost_python/flex_random.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_random.cpp -g++ -o lib/rstbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_ext.so.0 rstbx/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/rstbx_ext.so.0.0.1' - 'lib/rstbx_ext.so.0'->'lib/rstbx_ext.so.0.0.1' - 'lib/rstbx_ext.so'->'lib/rstbx_ext.so.0.0.1' -g++ -o scitbx/array_family/boost_python/flex_sort.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_sort.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/flex_types.h:6, @@ -22308,6 +22338,12 @@ | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; +g++ -o lib/rstbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_ext.so.0 rstbx/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/rstbx_ext.so.0.0.1' + 'lib/rstbx_ext.so.0'->'lib/rstbx_ext.so.0.0.1' + 'lib/rstbx_ext.so'->'lib/rstbx_ext.so.0.0.1' +g++ -o scitbx/array_family/boost_python/flex_sort.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_sort.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_std_string.cpp:3: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/misc/split_lines.h: In function ‘scitbx::af::shared > scitbx::misc::split_lines(const char*, std::size_t, bool, bool)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/misc/split_lines.h:24:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] @@ -22655,6 +22691,8 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_median.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_median.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/array_family/boost_python/flex_linear_interpolation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_linear_interpolation.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_median.cpp:2: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/basic_statistics.h: In instantiation of ‘scitbx::math::median_statistics scitbx::math::median_functor::dispersion(const scitbx::af::ref&) [with FloatType = double]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_median.cpp:31:26: required from ‘static scitbx::math::median_statistics scitbx::af::boost_python::median_functor_wrapper::dispersion(wt&, const scitbx::af::const_ref&) [with FloatType = double; wt = scitbx::math::median_functor]’ @@ -22677,8 +22715,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/basic_statistics.h:210:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 210 | for (int i=0; i < data.size(); ++i) { | ~~^~~~~~~~~~~~~ -g++ -o scitbx/array_family/boost_python/flex_linear_interpolation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_linear_interpolation.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_vec3_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_vec3_double.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_vec2_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp @@ -22689,6 +22725,10 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_mat3_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/array_family/boost_python/flex_tiny_size_t_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/array_family/boost_python/loops.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/loops.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/flex_types.h:6, @@ -22753,8 +22793,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -g++ -o scitbx/array_family/boost_python/flex_tiny_size_t_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::vec3]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ @@ -22986,70 +23024,6 @@ 128 | for(std::size_t i=0;i::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ - 146 | &convertible, - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 769 | scitbx::boost_python::container_conversions::from_python_sequence< - | ^~~~~~~~~~~~~~~~~~~~~ - 770 | shared_plain, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~ - 771 | scitbx::boost_python::container_conversions - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 772 | ::variable_capacity_policy>(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here - 117 | f_w::plain("vec3_int") - | ~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ - 146 | &convertible, - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 773 | scitbx::boost_python::container_conversions::from_python_sequence< - | ^~~~~~~~~~~~~~~~~~~~~ - 774 | shared, - | ~~~~~~~~~~~~~~~~~~~~ - 775 | scitbx::boost_python::container_conversions - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 776 | ::variable_capacity_policy>(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here - 117 | f_w::plain("vec3_int") - | ~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ In file included from /usr/include/c++/14/cassert:44, from /usr/include/boost/move/detail/type_traits.hpp:33, from /usr/include/boost/move/traits.hpp:31, @@ -23080,21 +23054,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/accessors/flex_grid.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/flex_types.h:6, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:3: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, @@ -23115,14 +23074,14 @@ 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::vec3]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::vec2]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -23173,20 +23132,20 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here - 117 | f_w::plain("vec3_int") - | ~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:440:15: required from here + 440 | f_w::plain("vec2_double") + | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = scitbx::vec3]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::vec2]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -23245,78 +23204,31 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here - 117 | f_w::plain("vec3_int") - | ~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 114 | for (int i=0;i > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::vec2]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy]’ - 202 | return copy_slice(self, slices_simple); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy]’ - 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ - 782 | result - | ~~~~~~ - 783 | .def(init const&, optional >()) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 784 | .def(init >()) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 785 | .def(init const&>()) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 786 | .def("element_size", element_size) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 787 | .staticmethod("element_size") - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 788 | .def("accessor", accessor) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~ - 789 | .def("nd", nd) - | ~~~~~~~~~~~~~~ - 790 | .def("is_0_based", is_0_based) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 791 | .def("origin", origin) - | ~~~~~~~~~~~~~~~~~~~~~~ - 792 | .def("all", all) - | ~~~~~~~~~~~~~~~~ - 793 | .def("last", last_0) - | ~~~~~~~~~~~~~~~~~~~~ - 794 | .def("last", last_1) - | ~~~~~~~~~~~~~~~~~~~~ - 795 | .def("is_padded", is_padded) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 796 | .def("focus", focus_0) - | ~~~~~~~~~~~~~~~~~~~~~~ - 797 | .def("focus", focus_1) - | ~~~~~~~~~~~~~~~~~~~~~~ - 798 | .def("focus_size_1d", focus_size_1d) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 799 | .def("is_trivial_1d", is_trivial_1d) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 800 | .def("shift_origin", shift_origin) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 801 | .def("id", id) - | ~~~~~~~~~~~~~~ - 802 | .def("size", size) - | ~~~~~~~~~~~~~~~~~~ - 803 | .def("__len__", size) - | ~~~~~~~~~~~~~~~~~~~~~ - 804 | .def("__sizeof__", memory_footprint) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 805 | .def("capacity", capacity) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~ - 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:440:15: required from here 440 | f_w::plain("vec2_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 89 | for (int i=0;i >&, small, const const_ref >&) [with T = scitbx::vec2]’: +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/accessors/flex_grid.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/flex_types.h:6, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:3: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::vec2]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::vec2]’ + 119 | detail::copy_to_slice_detail(self, slices, other); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -23385,9 +23297,10 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:440:15: required from here 440 | f_w::plain("vec2_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::vec3]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::vec3]’ - 119 | detail::copy_to_slice_detail(self, slices, other); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ - 269 | copy_to_slice(self, slices_simple, other.const_ref()); - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ - 289 | setitem_nd_slice(a, slices, b); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::sym_mat3]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ + 202 | return copy_slice(self, slices_simple); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ + 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -23497,29 +23408,21 @@ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 807 | .def("__getitem__", getitem_1d_slice) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here - 117 | f_w::plain("vec3_int") - | ~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 70 | if (idx_a[j] < slices[j].stop) break; -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::sym_mat3]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ - 202 | return copy_slice(self, slices_simple); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ - 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:124:15: required from here + 124 | f_w::plain("sym_mat3_double") + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 89 | for (int i=0;i >&, small, const const_ref >&) [with T = scitbx::sym_mat3]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ + 269 | copy_to_slice(self, slices_simple, other.const_ref()); + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ + 289 | setitem_nd_slice(a, slices, b); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -23569,14 +23472,25 @@ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 807 | .def("__getitem__", getitem_1d_slice) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:124:15: required from here 124 | f_w::plain("sym_mat3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 89 | for (int i=0;i >&, small, const const_ref >&) [with T = scitbx::sym_mat3]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::sym_mat3]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::sym_mat3]’ + 119 | detail::copy_to_slice_detail(self, slices, other); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -23645,20 +23559,133 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:124:15: required from here 124 | f_w::plain("sym_mat3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 114 | for (int i=0;i::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ + 146 | &convertible, + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 769 | scitbx::boost_python::container_conversions::from_python_sequence< + | ^~~~~~~~~~~~~~~~~~~~~ + 770 | shared_plain, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~ + 771 | scitbx::boost_python::container_conversions + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 772 | ::variable_capacity_policy>(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:32:47: required from here + 32 | flex_wrapper >::plain("tiny_size_t_2") + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ + 146 | &convertible, + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 773 | scitbx::boost_python::container_conversions::from_python_sequence< + | ^~~~~~~~~~~~~~~~~~~~~ + 774 | shared, + | ~~~~~~~~~~~~~~~~~~~~ + 775 | scitbx::boost_python::container_conversions + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 776 | ::variable_capacity_policy>(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:32:47: required from here + 32 | flex_wrapper >::plain("tiny_size_t_2") + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = tiny]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy]’ + 202 | return copy_slice(self, slices_simple); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy]’ + 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ + 782 | result + | ~~~~~~ + 783 | .def(init const&, optional >()) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 784 | .def(init >()) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 785 | .def(init const&>()) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 786 | .def("element_size", element_size) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 787 | .staticmethod("element_size") + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 788 | .def("accessor", accessor) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~ + 789 | .def("nd", nd) + | ~~~~~~~~~~~~~~ + 790 | .def("is_0_based", is_0_based) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 791 | .def("origin", origin) + | ~~~~~~~~~~~~~~~~~~~~~~ + 792 | .def("all", all) + | ~~~~~~~~~~~~~~~~ + 793 | .def("last", last_0) + | ~~~~~~~~~~~~~~~~~~~~ + 794 | .def("last", last_1) + | ~~~~~~~~~~~~~~~~~~~~ + 795 | .def("is_padded", is_padded) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 796 | .def("focus", focus_0) + | ~~~~~~~~~~~~~~~~~~~~~~ + 797 | .def("focus", focus_1) + | ~~~~~~~~~~~~~~~~~~~~~~ + 798 | .def("focus_size_1d", focus_size_1d) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 799 | .def("is_trivial_1d", is_trivial_1d) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 800 | .def("shift_origin", shift_origin) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 801 | .def("id", id) + | ~~~~~~~~~~~~~~ + 802 | .def("size", size) + | ~~~~~~~~~~~~~~~~~~ + 803 | .def("__len__", size) + | ~~~~~~~~~~~~~~~~~~~~~ + 804 | .def("__sizeof__", memory_footprint) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 805 | .def("capacity", capacity) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~ + 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:32:47: required from here + 32 | flex_wrapper >::plain("tiny_size_t_2") + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 89 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::vec2]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::vec2]’ - 119 | detail::copy_to_slice_detail(self, slices, other); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = tiny]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -23717,22 +23744,38 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:440:15: required from here - 440 | f_w::plain("vec2_double") - | ~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 70 | if (idx_a[j] < slices[j].stop) break; -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::sym_mat3]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::sym_mat3]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:32:47: required from here + 32 | flex_wrapper >::plain("tiny_size_t_2") + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::af::tiny]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = tiny]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -23791,26 +23834,11 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:124:15: required from here - 124 | f_w::plain("sym_mat3_double") - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:32:47: required from here + 32 | flex_wrapper >::plain("tiny_size_t_2") + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/accessors/flex_grid.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/flex_types.h:6, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp:3: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ^~~~~~~~~~~~~ In file included from /usr/include/c++/14/cassert:44, from /usr/include/boost/move/detail/type_traits.hpp:33, from /usr/include/boost/move/traits.hpp:31, @@ -23860,8 +23888,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -g++ -o scitbx/array_family/boost_python/loops.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/loops.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::mat3]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ @@ -24073,8 +24099,23 @@ | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; -g++ -o scitbx/array_family/boost_python/show_sizes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/show_sizes.cpp +g++ -o scitbx/array_family/boost_python/numpy_bridge.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DSCITBX_HAVE_NUMPY_INCLUDE -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/accessors/flex_grid.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/flex_types.h:6, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:3: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ^~~~~~~~~~~~~ In file included from /usr/include/c++/14/cassert:44, from /usr/include/boost/move/detail/type_traits.hpp:33, from /usr/include/boost/move/traits.hpp:31, @@ -24085,15 +24126,12 @@ from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/accessors/flex_grid.h:5, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/flex_types.h:6, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:3: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/accessors/flex_grid.h:5: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, @@ -24102,17 +24140,17 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:32:47: required from here - 32 | flex_wrapper >::plain("tiny_size_t_2") - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here + 117 | f_w::plain("vec3_int") + | ~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, @@ -24121,21 +24159,21 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:32:47: required from here - 32 | flex_wrapper >::plain("tiny_size_t_2") - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here + 117 | f_w::plain("vec3_int") + | ~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = tiny]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::vec3]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -24186,20 +24224,20 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:32:47: required from here - 32 | flex_wrapper >::plain("tiny_size_t_2") - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here + 117 | f_w::plain("vec3_int") + | ~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = tiny]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::vec3]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -24258,23 +24296,23 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:32:47: required from here - 32 | flex_wrapper >::plain("tiny_size_t_2") - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here + 117 | f_w::plain("vec3_int") + | ~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::af::tiny]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = tiny]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::vec3]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::vec3]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) @@ -24333,108 +24371,13 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:32:47: required from here - 32 | flex_wrapper >::plain("tiny_size_t_2") - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here + 117 | f_w::plain("vec3_int") + | ~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; -g++ -o scitbx/array_family/boost_python/numpy_bridge.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DSCITBX_HAVE_NUMPY_INCLUDE -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:5, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/flex_types.h:7: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] - 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/memory:69, - from /usr/include/boost/function/function_base.hpp:33, - from /usr/include/boost/function/detail/prologue.hpp:18, - from /usr/include/boost/function/function_template.hpp:13, - from /usr/include/boost/function/detail/maybe_include.hpp:15, - from /usr/include/boost/function/function0.hpp:11, - from /usr/include/boost/python/errors.hpp:13, - from /usr/include/boost/python/handle.hpp:11, - from /usr/include/boost/python/to_python_value.hpp:14, - from /usr/include/boost/python/default_call_policies.hpp:10, - from /usr/include/boost/python/make_function.hpp:10, - from /usr/include/boost/python/def.hpp:11, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: -/usr/include/c++/14/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here - 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) - | ^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here - 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); - | ^~~~~~~~~~~~~ g++ -o scitbx/array_family/boost_python/shared_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/shared_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::vec3; AccessorType = scitbx::af::flex_grid<>]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] - 168 | base_class::resize(m_accessor.size_1d(), ElementType()); - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:307: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::vec3]’ declared here - 165 | void resize(size_type const& new_size, ElementType const& x) { - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here - 168 | base_class::resize(m_accessor.size_1d(), ElementType()); - | ^~~~~~~~~~~~~ -g++ -o scitbx/cubicle_neighbors_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/cubicle_neighbors_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:5, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/flex_types.h:7: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::sym_mat3]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] - 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/memory:69, - from /usr/include/boost/function/function_base.hpp:33, - from /usr/include/boost/function/detail/prologue.hpp:18, - from /usr/include/boost/function/function_template.hpp:13, - from /usr/include/boost/function/detail/maybe_include.hpp:15, - from /usr/include/boost/function/function0.hpp:11, - from /usr/include/boost/python/errors.hpp:13, - from /usr/include/boost/python/handle.hpp:11, - from /usr/include/boost/python/to_python_value.hpp:14, - from /usr/include/boost/python/default_call_policies.hpp:10, - from /usr/include/boost/python/make_function.hpp:10, - from /usr/include/boost/python/def.hpp:11, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: -/usr/include/c++/14/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::sym_mat3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::sym_mat3*; _Size = long unsigned int; _Tp = scitbx::sym_mat3]’ declared here - 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) - | ^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here - 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); - | ^~~~~~~~~~~~~ -g++ -o scitbx/fftpack/boost_python/fftpack_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/fftpack/boost_python/fftpack_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:5, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/flex_types.h:7: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::mat3]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] - 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/memory:69, - from /usr/include/boost/function/function_base.hpp:33, - from /usr/include/boost/function/detail/prologue.hpp:18, - from /usr/include/boost/function/function_template.hpp:13, - from /usr/include/boost/function/detail/maybe_include.hpp:15, - from /usr/include/boost/function/function0.hpp:11, - from /usr/include/boost/python/errors.hpp:13, - from /usr/include/boost/python/handle.hpp:11, - from /usr/include/boost/python/to_python_value.hpp:14, - from /usr/include/boost/python/default_call_policies.hpp:10, - from /usr/include/boost/python/make_function.hpp:10, - from /usr/include/boost/python/def.hpp:11, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: -/usr/include/c++/14/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::mat3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::mat3*; _Size = long unsigned int; _Tp = scitbx::mat3]’ declared here - 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) - | ^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here - 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); - | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:5, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/flex_types.h:7: @@ -24461,6 +24404,8 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ +g++ -o scitbx/cubicle_neighbors_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/cubicle_neighbors_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp: In instantiation of ‘boost::python::api::object scitbx::af::boost_python::ref_flex_as_numpy_array(const scitbx::af::ref >&, bool, int) [with ElementType = bool]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:202:3: required from here 191 | return ref_flex_as_numpy_array(O, optional, type_num); \ @@ -24803,7 +24748,7 @@ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:5, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/flex_types.h:7: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::sym_mat3]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -24820,27 +24765,16 @@ from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: -/usr/include/c++/14/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here +/usr/include/c++/14/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::sym_mat3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::sym_mat3*; _Size = long unsigned int; _Tp = scitbx::sym_mat3]’ declared here 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::sym_mat3; AccessorType = scitbx::af::flex_grid<>]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] - 168 | base_class::resize(m_accessor.size_1d(), ElementType()); - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:307: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::sym_mat3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::sym_mat3]’ declared here - 165 | void resize(size_type const& new_size, ElementType const& x) { - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here - 168 | base_class::resize(m_accessor.size_1d(), ElementType()); - | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:5, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/flex_types.h:7: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec2]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::mat3]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -24857,23 +24791,38 @@ from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: -/usr/include/c++/14/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::vec2&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec2*; _Size = long unsigned int; _Tp = scitbx::vec2]’ declared here +/usr/include/c++/14/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::mat3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::mat3*; _Size = long unsigned int; _Tp = scitbx::mat3]’ declared here + 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) + | ^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here + 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); + | ^~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:5, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/flex_types.h:7: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] + 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/memory:69, + from /usr/include/boost/function/function_base.hpp:33, + from /usr/include/boost/function/detail/prologue.hpp:18, + from /usr/include/boost/function/function_template.hpp:13, + from /usr/include/boost/function/detail/maybe_include.hpp:15, + from /usr/include/boost/function/function0.hpp:11, + from /usr/include/boost/python/errors.hpp:13, + from /usr/include/boost/python/handle.hpp:11, + from /usr/include/boost/python/to_python_value.hpp:14, + from /usr/include/boost/python/default_call_policies.hpp:10, + from /usr/include/boost/python/make_function.hpp:10, + from /usr/include/boost/python/def.hpp:11, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: +/usr/include/c++/14/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::mat3; AccessorType = scitbx::af::flex_grid<>]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] - 168 | base_class::resize(m_accessor.size_1d(), ElementType()); - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:307: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::mat3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::mat3]’ declared here - 165 | void resize(size_type const& new_size, ElementType const& x) { - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here - 168 | base_class::resize(m_accessor.size_1d(), ElementType()); - | ^~~~~~~~~~~~~ In file included from /usr/include/c++/14/cassert:44, from /usr/include/boost/move/detail/type_traits.hpp:33, from /usr/include/boost/move/traits.hpp:31, @@ -25019,26 +24968,45 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::vec2; AccessorType = scitbx::af::flex_grid<>]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::sym_mat3; AccessorType = scitbx::af::flex_grid<>]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:307: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::vec2&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::vec2]’ declared here +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::sym_mat3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::sym_mat3]’ declared here 165 | void resize(size_type const& new_size, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ^~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/fftpack/gridding.h:5, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/fftpack/boost_python/fftpack_ext.cpp:4: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/fftpack/factorization.h: In constructor ‘scitbx::fftpack::factorization::factorization(std::size_t, bool)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/fftpack/factorization.h:64:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 64 | for (i = 0; red_n > 1 && i < opt_factors.size(); i++) { - | ~~^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/fftpack/factorization.h:67:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 67 | for (i = 0; i < opt_factors.size(); i++) { - | ~~^~~~~~~~~~~~~~~~~~~~ +g++ -o scitbx/fftpack/boost_python/fftpack_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/fftpack/boost_python/fftpack_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:5, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/flex_types.h:7: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec2]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] + 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/memory:69, + from /usr/include/boost/function/function_base.hpp:33, + from /usr/include/boost/function/detail/prologue.hpp:18, + from /usr/include/boost/function/function_template.hpp:13, + from /usr/include/boost/function/detail/maybe_include.hpp:15, + from /usr/include/boost/function/function0.hpp:11, + from /usr/include/boost/python/errors.hpp:13, + from /usr/include/boost/python/handle.hpp:11, + from /usr/include/boost/python/to_python_value.hpp:14, + from /usr/include/boost/python/default_call_policies.hpp:10, + from /usr/include/boost/python/make_function.hpp:10, + from /usr/include/boost/python/def.hpp:11, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: +/usr/include/c++/14/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::vec2&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec2*; _Size = long unsigned int; _Tp = scitbx::vec2]’ declared here + 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) + | ^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here + 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); + | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/cubicle_neighbors_ext.cpp:3: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/cubicle_neighbors.hpp: In instantiation of ‘std::map > scitbx::cubicle_neighbors::neighbors_of(const scitbx::af::const_ref >&, const FloatType&) [with FloatType = double]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/cubicle_neighbors_ext.cpp:23:36: required from here @@ -25136,12 +25104,23 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/cubicles.h:176:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 176 | else if (j >= ref.accessor()[i]) j = ref.accessor()[i]-1; | ~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::vec3; AccessorType = scitbx::af::flex_grid<>]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::mat3; AccessorType = scitbx::af::flex_grid<>]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:307: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::vec3]’ declared here +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::mat3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::mat3]’ declared here + 165 | void resize(size_type const& new_size, ElementType const& x) { + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here + 168 | base_class::resize(m_accessor.size_1d(), ElementType()); + | ^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::vec2; AccessorType = scitbx::af::flex_grid<>]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] + 168 | base_class::resize(m_accessor.size_1d(), ElementType()); + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:307: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::vec2&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::vec2]’ declared here 165 | void resize(size_type const& new_size, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here @@ -25149,20 +25128,79 @@ | ^~~~~~~~~~~~~ g++ -o scitbx/glmtbx/boost_python/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/glmtbx/boost_python/ext.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::vec3; AccessorType = scitbx::af::flex_grid<>]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] + 168 | base_class::resize(m_accessor.size_1d(), ElementType()); + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:307: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::vec3]’ declared here + 165 | void resize(size_type const& new_size, ElementType const& x) { + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here + 168 | base_class::resize(m_accessor.size_1d(), ElementType()); + | ^~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:5, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/flex_types.h:7: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] + 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/memory:69, + from /usr/include/boost/function/function_base.hpp:33, + from /usr/include/boost/function/detail/prologue.hpp:18, + from /usr/include/boost/function/function_template.hpp:13, + from /usr/include/boost/function/detail/maybe_include.hpp:15, + from /usr/include/boost/function/function0.hpp:11, + from /usr/include/boost/python/errors.hpp:13, + from /usr/include/boost/python/handle.hpp:11, + from /usr/include/boost/python/to_python_value.hpp:14, + from /usr/include/boost/python/default_call_policies.hpp:10, + from /usr/include/boost/python/make_function.hpp:10, + from /usr/include/boost/python/def.hpp:11, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: +/usr/include/c++/14/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here + 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) + | ^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here + 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); + | ^~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/fftpack/gridding.h:5, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/fftpack/boost_python/fftpack_ext.cpp:4: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/fftpack/factorization.h: In constructor ‘scitbx::fftpack::factorization::factorization(std::size_t, bool)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/fftpack/factorization.h:64:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 64 | for (i = 0; red_n > 1 && i < opt_factors.size(); i++) { + | ~~^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/fftpack/factorization.h:67:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 67 | for (i = 0; i < opt_factors.size(); i++) { + | ~~^~~~~~~~~~~~~~~~~~~~ g++ -o scitbx/graphics_utils/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/graphics_utils/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::vec3; AccessorType = scitbx::af::flex_grid<>]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] + 168 | base_class::resize(m_accessor.size_1d(), ElementType()); + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:307: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::vec3]’ declared here + 165 | void resize(size_type const& new_size, ElementType const& x) { + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here + 168 | base_class::resize(m_accessor.size_1d(), ElementType()); + | ^~~~~~~~~~~~~ g++ -o scitbx/iso_surface/iso_surface_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/iso_surface/iso_surface_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/lbfgs/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DSCITBX_LBFGS_HAVE_LBFGS_FEM -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgs/ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/lbfgs/lbfgs_fem.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable scitbx/lbfgs/lbfgs_fem.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_cubicle_neighbors_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_cubicle_neighbors_ext.so.0 scitbx/cubicle_neighbors_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/scitbx_cubicle_neighbors_ext.so.0.0.1' 'lib/scitbx_cubicle_neighbors_ext.so.0'->'lib/scitbx_cubicle_neighbors_ext.so.0.0.1' 'lib/scitbx_cubicle_neighbors_ext.so'->'lib/scitbx_cubicle_neighbors_ext.so.0.0.1' +g++ -o scitbx/lbfgs/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DSCITBX_LBFGS_HAVE_LBFGS_FEM -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgs/ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/lbfgs/lbfgs_fem.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable scitbx/lbfgs/lbfgs_fem.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/lbfgsb/boost_python/lbfgsb_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb/boost_python/lbfgsb_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/linalg/boost_python/linalg_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/linalg/boost_python/linalg_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/io.hpp:8, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/close_chain.hpp:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/common.hpp:4, @@ -25195,11 +25233,24 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/equivalence.hpp:93:28: warning: comparison of integer expressions of different signedness: ‘const fem::ssize_t’ {aka ‘const long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 93 | if (c0e[0] == i0) { | ~~~~~~~^~~~~ +g++ -o scitbx/linalg/boost_python/matrix.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/linalg/boost_python/matrix.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/major_types.hpp:8: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/write.hpp: In destructor ‘fem::write_loop::~write_loop()’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/write.hpp:704:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 704 | while (pos < internal_file_len) { | ~~~~^~~~~~~~~~~~~~~~~~~ +g++ -o scitbx/linalg/boost_python/cholesky.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/linalg/boost_python/cholesky.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_iso_surface_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_iso_surface_ext.so.0 scitbx/iso_surface/iso_surface_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/scitbx_iso_surface_ext.so.0.0.1' + 'lib/scitbx_iso_surface_ext.so.0'->'lib/scitbx_iso_surface_ext.so.0.0.1' + 'lib/scitbx_iso_surface_ext.so'->'lib/scitbx_iso_surface_ext.so.0.0.1' +g++ -o scitbx/linalg/boost_python/householder.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/linalg/boost_python/householder.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/linalg/boost_python/svd.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/linalg/boost_python/svd.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_glmtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_glmtbx_ext.so.0 scitbx/glmtbx/boost_python/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/serialization/base_256.h:2, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/floating_point_epsilon.h:4, @@ -25462,6 +25513,9 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb/raw.h:188:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 188 | for(int j=0;j'lib/scitbx_glmtbx_ext.so.0.0.1' + 'lib/scitbx_glmtbx_ext.so'->'lib/scitbx_glmtbx_ext.so.0.0.1' /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb.h: In instantiation of ‘scitbx::lbfgsb::minimizer::minimizer(const int&, const int&, scitbx::af::shared, scitbx::af::shared, scitbx::af::shared, bool, const FloatType&, const FloatType&, const int&) [with FloatType = double]’: /usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0, A1, A2, A3, A4, A5, A6, A7, A8) [with A0 = boost::python::objects::reference_to_value; A1 = boost::python::objects::reference_to_value; A2 = boost::python::objects::reference_to_value >; A3 = boost::python::objects::reference_to_value >; A4 = boost::python::objects::reference_to_value >; A5 = bool; A6 = boost::python::objects::reference_to_value; A7 = boost::python::objects::reference_to_value; A8 = boost::python::objects::reference_to_value; Value = scitbx::lbfgsb::minimizer; PyObject = _object]’ 131 | PyObject* self BOOST_PP_COMMA_IF(N) BOOST_PP_ENUM_BINARY_PARAMS_Z(1, N, A, a)) @@ -25572,48 +25626,24 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb.h:120:9: note: in expansion of macro ‘SCITBX_ASSERT’ 120 | SCITBX_ASSERT(nbd.size() == n); | ^~~~~~~~~~~~~ -g++ -o scitbx/linalg/boost_python/linalg_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/linalg/boost_python/linalg_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/linalg/boost_python/matrix.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/linalg/boost_python/matrix.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/linalg/boost_python/cholesky.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/linalg/boost_python/cholesky.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/linalg/boost_python/householder.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/linalg/boost_python/householder.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/scitbx_iso_surface_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_iso_surface_ext.so.0 scitbx/iso_surface/iso_surface_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/scitbx_iso_surface_ext.so.0.0.1' - 'lib/scitbx_iso_surface_ext.so.0'->'lib/scitbx_iso_surface_ext.so.0.0.1' - 'lib/scitbx_iso_surface_ext.so'->'lib/scitbx_iso_surface_ext.so.0.0.1' -g++ -o scitbx/linalg/boost_python/svd.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/linalg/boost_python/svd.cpp +g++ -o scitbx/linalg/boost_python/eigensystem.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/linalg/boost_python/eigensystem.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_graphics_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_graphics_utils_ext.so.0 scitbx/graphics_utils/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/scitbx_graphics_utils_ext.so.0.0.1' 'lib/scitbx_graphics_utils_ext.so.0'->'lib/scitbx_graphics_utils_ext.so.0.0.1' 'lib/scitbx_graphics_utils_ext.so'->'lib/scitbx_graphics_utils_ext.so.0.0.1' -g++ -o scitbx/linalg/boost_python/eigensystem.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/linalg/boost_python/eigensystem.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/scitbx_fftpack_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_fftpack_ext.so.0 scitbx/fftpack/boost_python/fftpack_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/scitbx_fftpack_ext.so.0.0.1' - 'lib/scitbx_fftpack_ext.so.0'->'lib/scitbx_fftpack_ext.so.0.0.1' - 'lib/scitbx_fftpack_ext.so'->'lib/scitbx_fftpack_ext.so.0.0.1' g++ -o scitbx/linalg/boost_python/lapack_fem_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/linalg/boost_python/lapack_fem_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/lstbx/boost_python/lstbx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lstbx/boost_python/lstbx_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/scitbx_glmtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_glmtbx_ext.so.0 scitbx/glmtbx/boost_python/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o lib/scitbx_fftpack_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_fftpack_ext.so.0 scitbx/fftpack/boost_python/fftpack_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm g++ -o scitbx/lstbx/boost_python/normal_equations.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lstbx/boost_python/normal_equations.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/scitbx_glmtbx_ext.so.0.0.1' - 'lib/scitbx_glmtbx_ext.so.0'->'lib/scitbx_glmtbx_ext.so.0.0.1' - 'lib/scitbx_glmtbx_ext.so'->'lib/scitbx_glmtbx_ext.so.0.0.1' +Create symlinks for: 'lib/scitbx_fftpack_ext.so.0.0.1' + 'lib/scitbx_fftpack_ext.so.0'->'lib/scitbx_fftpack_ext.so.0.0.1' + 'lib/scitbx_fftpack_ext.so'->'lib/scitbx_fftpack_ext.so.0.0.1' g++ -o scitbx/math/boost_python/math_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/boost_python/math_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/scitbx_lbfgsb_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_lbfgsb_ext.so.0 scitbx/lbfgsb/boost_python/lbfgsb_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -lboost_timer -Create symlinks for: 'lib/scitbx_lbfgsb_ext.so.0.0.1' - 'lib/scitbx_lbfgsb_ext.so.0'->'lib/scitbx_lbfgsb_ext.so.0.0.1' - 'lib/scitbx_lbfgsb_ext.so'->'lib/scitbx_lbfgsb_ext.so.0.0.1' -g++ -o scitbx/math/boost_python/basic_statistics.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/boost_python/basic_statistics.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/mat3.h:5, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/sym_mat3.h:4, @@ -25628,32 +25658,38 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/linalg/boost_python/lapack_fem_bpl.cpp:246:5: note: in expansion of macro ‘SCITBX_ASSERT’ 246 | SCITBX_ASSERT(w.size() == n); | ^~~~~~~~~~~~~ +g++ -o lib/scitbx_lbfgsb_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_lbfgsb_ext.so.0 scitbx/lbfgsb/boost_python/lbfgsb_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -lboost_timer +Create symlinks for: 'lib/scitbx_lbfgsb_ext.so.0.0.1' + 'lib/scitbx_lbfgsb_ext.so.0'->'lib/scitbx_lbfgsb_ext.so.0.0.1' + 'lib/scitbx_lbfgsb_ext.so'->'lib/scitbx_lbfgsb_ext.so.0.0.1' +g++ -o scitbx/math/boost_python/basic_statistics.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/boost_python/basic_statistics.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/gaussian.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/boost_python/gaussian.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/golay.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/boost_python/golay.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_array_family_shared_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_array_family_shared_ext.so.0 scitbx/array_family/boost_python/shared_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -lboost_numpy313 +Create symlinks for: 'lib/scitbx_array_family_shared_ext.so.0.0.1' + 'lib/scitbx_array_family_shared_ext.so.0'->'lib/scitbx_array_family_shared_ext.so.0.0.1' + 'lib/scitbx_array_family_shared_ext.so'->'lib/scitbx_array_family_shared_ext.so.0.0.1' g++ -o scitbx/math/boost_python/minimum_covering_sphere.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/boost_python/minimum_covering_sphere.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/scitbx_lbfgs_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_lbfgs_ext.so.0 scitbx/lbfgs/ext.o scitbx/lbfgs/lbfgs_fem.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm g++ -o scitbx/math/boost_python/principal_axes_of_inertia.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/boost_python/principal_axes_of_inertia.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/math/boost_python/row_echelon.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/boost_python/row_echelon.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_lbfgs_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_lbfgs_ext.so.0 scitbx/lbfgs/ext.o scitbx/lbfgs/lbfgs_fem.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o lib/scitbx_linalg_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_linalg_ext.so.0 scitbx/linalg/boost_python/linalg_ext.o scitbx/linalg/boost_python/matrix.o scitbx/linalg/boost_python/cholesky.o scitbx/linalg/boost_python/householder.o scitbx/linalg/boost_python/svd.o scitbx/linalg/boost_python/eigensystem.o scitbx/linalg/boost_python/lapack_fem_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/scitbx_lbfgs_ext.so.0.0.1' 'lib/scitbx_lbfgs_ext.so.0'->'lib/scitbx_lbfgs_ext.so.0.0.1' 'lib/scitbx_lbfgs_ext.so'->'lib/scitbx_lbfgs_ext.so.0.0.1' -g++ -o scitbx/math/boost_python/row_echelon.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/boost_python/row_echelon.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/tensor_rank_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/boost_python/tensor_rank_2.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/scitbx_array_family_shared_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_array_family_shared_ext.so.0 scitbx/array_family/boost_python/shared_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -lboost_numpy313 -Create symlinks for: 'lib/scitbx_array_family_shared_ext.so.0.0.1' - 'lib/scitbx_array_family_shared_ext.so.0'->'lib/scitbx_array_family_shared_ext.so.0.0.1' - 'lib/scitbx_array_family_shared_ext.so'->'lib/scitbx_array_family_shared_ext.so.0.0.1' -g++ -o scitbx/math/boost_python/chebyshev.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/boost_python/chebyshev.cpp -g++ -o lib/scitbx_linalg_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_linalg_ext.so.0 scitbx/linalg/boost_python/linalg_ext.o scitbx/linalg/boost_python/matrix.o scitbx/linalg/boost_python/cholesky.o scitbx/linalg/boost_python/householder.o scitbx/linalg/boost_python/svd.o scitbx/linalg/boost_python/eigensystem.o scitbx/linalg/boost_python/lapack_fem_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/scitbx_linalg_ext.so.0.0.1' 'lib/scitbx_linalg_ext.so.0'->'lib/scitbx_linalg_ext.so.0.0.1' 'lib/scitbx_linalg_ext.so'->'lib/scitbx_linalg_ext.so.0.0.1' +g++ -o scitbx/math/boost_python/chebyshev.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/boost_python/chebyshev.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/icosahedron.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/boost_python/icosahedron.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/slatec.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/boost_python/slatec.cpp @@ -25671,11 +25707,11 @@ g++ -o scitbx/math/boost_python/halton.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/boost_python/halton.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_lstbx_normal_equations_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_lstbx_normal_equations_ext.so.0 scitbx/lstbx/boost_python/lstbx_ext.o scitbx/lstbx/boost_python/normal_equations.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -g++ -o scitbx/math/boost_python/least_squares_plane.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/boost_python/least_squares_plane.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/scitbx_lstbx_normal_equations_ext.so.0.0.1' 'lib/scitbx_lstbx_normal_equations_ext.so.0'->'lib/scitbx_lstbx_normal_equations_ext.so.0.0.1' 'lib/scitbx_lstbx_normal_equations_ext.so'->'lib/scitbx_lstbx_normal_equations_ext.so.0.0.1' +g++ -o scitbx/math/boost_python/least_squares_plane.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/boost_python/least_squares_plane.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/continued_fraction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/boost_python/continued_fraction.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/numeric_limits.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/boost_python/numeric_limits.cpp @@ -25695,8 +25731,9 @@ g++ -o scitbx/math/boost_python/rotation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/boost_python/rotation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/interpolation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/boost_python/interpolation.cpp -g++ -o scitbx/math/boost_python/tetrahedron.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/boost_python/tetrahedron.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_array_family_flex_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_array_family_flex_ext.so.0 scitbx/array_family/boost_python/flex_ext.o scitbx/array_family/boost_python/flex_grid.o scitbx/array_family/boost_python/flex_bool.o scitbx/array_family/boost_python/flex_size_t.o scitbx/array_family/boost_python/flex_int.o scitbx/array_family/boost_python/flex_float.o scitbx/array_family/boost_python/flex_double.o scitbx/array_family/boost_python/flex_double_matrix.o scitbx/array_family/boost_python/flex_complex_double.o scitbx/array_family/boost_python/flex_std_string.o scitbx/array_family/boost_python/flex_random.o scitbx/array_family/boost_python/flex_sort.o scitbx/array_family/boost_python/flex_histogram.o scitbx/array_family/boost_python/flex_weighted_histogram.o scitbx/array_family/boost_python/flex_mean_and_variance.o scitbx/array_family/boost_python/flex_median.o scitbx/array_family/boost_python/flex_linear_interpolation.o scitbx/array_family/boost_python/flex_vec3_double.o scitbx/array_family/boost_python/flex_vec2_double.o scitbx/array_family/boost_python/flex_vec3_int.o scitbx/array_family/boost_python/flex_sym_mat3_double.o scitbx/array_family/boost_python/flex_mat3_double.o scitbx/array_family/boost_python/flex_tiny_size_t_2.o scitbx/array_family/boost_python/loops.o scitbx/array_family/boost_python/show_sizes.o scitbx/array_family/boost_python/numpy_bridge.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -lboost_numpy313 +g++ -o scitbx/math/boost_python/tetrahedron.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/boost_python/tetrahedron.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/angle_derivative.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/boost_python/angle_derivative.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ @@ -25719,28 +25756,18 @@ 80 | SCITBX_ASSERT(fvec.size() == m); | ^~~~~~~~~~~~~ g++ -o scitbx/random/boost_python/random_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/random/boost_python/random_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/random/boost_python/basic_distributions.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/random/boost_python/basic_distributions.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/rigid_body/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/rigid_body/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/scitbx_array_family_flex_ext.so.0.0.1' + 'lib/scitbx_array_family_flex_ext.so.0'->'lib/scitbx_array_family_flex_ext.so.0.0.1' + 'lib/scitbx_array_family_flex_ext.so'->'lib/scitbx_array_family_flex_ext.so.0.0.1' g++ -o scitbx/sparse/boost_python/vector.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/sparse/boost_python/vector.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/scitbx_array_family_flex_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_array_family_flex_ext.so.0 scitbx/array_family/boost_python/flex_ext.o scitbx/array_family/boost_python/flex_grid.o scitbx/array_family/boost_python/flex_bool.o scitbx/array_family/boost_python/flex_size_t.o scitbx/array_family/boost_python/flex_int.o scitbx/array_family/boost_python/flex_float.o scitbx/array_family/boost_python/flex_double.o scitbx/array_family/boost_python/flex_double_matrix.o scitbx/array_family/boost_python/flex_complex_double.o scitbx/array_family/boost_python/flex_std_string.o scitbx/array_family/boost_python/flex_random.o scitbx/array_family/boost_python/flex_sort.o scitbx/array_family/boost_python/flex_histogram.o scitbx/array_family/boost_python/flex_weighted_histogram.o scitbx/array_family/boost_python/flex_mean_and_variance.o scitbx/array_family/boost_python/flex_median.o scitbx/array_family/boost_python/flex_linear_interpolation.o scitbx/array_family/boost_python/flex_vec3_double.o scitbx/array_family/boost_python/flex_vec2_double.o scitbx/array_family/boost_python/flex_vec3_int.o scitbx/array_family/boost_python/flex_sym_mat3_double.o scitbx/array_family/boost_python/flex_mat3_double.o scitbx/array_family/boost_python/flex_tiny_size_t_2.o scitbx/array_family/boost_python/loops.o scitbx/array_family/boost_python/show_sizes.o scitbx/array_family/boost_python/numpy_bridge.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -lboost_numpy313 -g++ -o lib/scitbx_r3_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_r3_utils_ext.so.0 scitbx/r3_utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -g++ -o lib/scitbx_minpack_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_minpack_ext.so.0 scitbx/minpack/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_minpack -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/scitbx_r3_utils_ext.so.0.0.1' - 'lib/scitbx_r3_utils_ext.so.0'->'lib/scitbx_r3_utils_ext.so.0.0.1' - 'lib/scitbx_r3_utils_ext.so'->'lib/scitbx_r3_utils_ext.so.0.0.1' g++ -o scitbx/sparse/boost_python/matrix.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/sparse/boost_python/matrix.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/scitbx_minpack_ext.so.0.0.1' - 'lib/scitbx_minpack_ext.so.0'->'lib/scitbx_minpack_ext.so.0.0.1' - 'lib/scitbx_minpack_ext.so'->'lib/scitbx_minpack_ext.so.0.0.1' -g++ -o scitbx/sparse/boost_python/approx_equal.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/sparse/boost_python/approx_equal.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/sparse/boost_python/random.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/sparse/boost_python/random.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:6, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/vec3.h:4, @@ -25763,6 +25790,8 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:30:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_TINY_CONVENIENCE_CONSTRUCTORS’ 30 | SCITBX_ARRAY_FAMILY_TINY_CONVENIENCE_CONSTRUCTORS(tiny) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o scitbx/sparse/boost_python/approx_equal.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/sparse/boost_python/approx_equal.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/accessors/flex_grid.h:5, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_matrix.h:6, @@ -25903,6 +25932,7 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/rigid_body/tardy.h:163:9: note: in expansion of macro ‘SCITBX_ASSERT’ 163 | SCITBX_ASSERT(body->parent < nc); | ^~~~~~~~~~~~~ +g++ -o lib/scitbx_r3_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_r3_utils_ext.so.0 scitbx/r3_utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h: In instantiation of ‘scitbx::af::tiny::tiny(const OtherElementType*, const OtherElementType*) [with OtherElementType = double; ElementType = double; long unsigned int N = 1]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/rigid_body/joint_lib.h:648:13: required from ‘boost::shared_ptr > scitbx::rigid_body::joint_lib::revolute::new_q(const scitbx::af::const_ref&) const [with FloatType = double]’ 648 | af::tiny(q.begin(), q.end()))); @@ -25961,11 +25991,17 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:59:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 59 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ +Create symlinks for: 'lib/scitbx_r3_utils_ext.so.0.0.1' + 'lib/scitbx_r3_utils_ext.so.0'->'lib/scitbx_r3_utils_ext.so.0.0.1' + 'lib/scitbx_r3_utils_ext.so'->'lib/scitbx_r3_utils_ext.so.0.0.1' +g++ -o scitbx/sparse/boost_python/random.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/sparse/boost_python/random.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_minpack_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_minpack_ext.so.0 scitbx/minpack/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_minpack -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/scitbx_minpack_ext.so.0.0.1' + 'lib/scitbx_minpack_ext.so.0'->'lib/scitbx_minpack_ext.so.0.0.1' + 'lib/scitbx_minpack_ext.so'->'lib/scitbx_minpack_ext.so.0.0.1' g++ -o scitbx/sparse/boost_python/lu_factorization.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/sparse/boost_python/lu_factorization.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/scitbx_array_family_flex_ext.so.0.0.1' - 'lib/scitbx_array_family_flex_ext.so.0'->'lib/scitbx_array_family_flex_ext.so.0.0.1' - 'lib/scitbx_array_family_flex_ext.so'->'lib/scitbx_array_family_flex_ext.so.0.0.1' g++ -o scitbx/sparse/boost_python/sparse_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/sparse/boost_python/sparse_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/stl/map_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/stl/map_ext.cpp @@ -25976,6 +26012,98 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/suffixtree/boost_python/suffixtree_shared_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/suffixtree/boost_python/suffixtree_shared_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:5, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_matrix.h:4: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] + 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/c++/14/memory:69, + from /usr/include/boost/config/no_tr1/memory.hpp:21, + from /usr/include/boost/get_pointer.hpp:14, + from /usr/include/boost/python/object/pointer_holder.hpp:11, + from /usr/include/boost/python/to_python_indirect.hpp:10, + from /usr/include/boost/python/converter/arg_to_python.hpp:10, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/object.hpp:9, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/array_as_list.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/rigid_body/ext.cpp:3: +/usr/include/c++/14/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here + 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) + | ^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here + 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); + | ^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::af::tiny]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] + 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::af::tiny&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::af::tiny*; _Size = long unsigned int; _Tp = scitbx::af::tiny]’ declared here + 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) + | ^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here + 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); + | ^~~~~~~~~~~~~ +g++ -o scitbx/suffixtree/boost_python/suffixtree_single_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/suffixtree/boost_python/suffixtree_single_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/suffixtree/boost_python/object_extensions.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/suffixtree/boost_python/object_extensions.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/stl/set_ext.cpp:1: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/stl/set_wrapper.h: In static member function ‘static void scitbx::stl::boost_python::set_wrapper::wrap(const std::string&)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/stl/set_wrapper.h:52:28: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 52 | bp::class_ >(python_name.c_str()) + | ^~~~~~~~ +In file included from /usr/include/c++/14/memory:78, + from /usr/include/boost/config/no_tr1/memory.hpp:21, + from /usr/include/boost/get_pointer.hpp:14, + from /usr/include/boost/python/object/pointer_holder.hpp:11, + from /usr/include/boost/python/to_python_indirect.hpp:10, + from /usr/include/boost/python/converter/arg_to_python.hpp:10, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/object/class.hpp:9, + from /usr/include/boost/python/class.hpp:13, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/stl/set_wrapper.h:4: +/usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here + 59 | template class auto_ptr; + | ^~~~~~~~ +In file included from /usr/include/boost/assert.hpp:58, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:25, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::set, std::allocator >; ConversionPolicy = scitbx::boost_python::container_conversions::set_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::set, std::allocator >; ConversionPolicy = scitbx::boost_python::container_conversions::set_policy]’ + 146 | &convertible, + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/stl/set_wrapper.h:68:52: required from ‘static void scitbx::stl::boost_python::set_wrapper::wrap(const std::string&) [with ElementType = unsigned int; std::string = std::__cxx11::basic_string]’ + 68 | scitbx::boost_python::container_conversions::from_python_sequence< + | ^~~~~~~~~~~~~~~~~~~~~ + 69 | w_t, scitbx::boost_python::container_conversions::set_policy>(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/stl/set_ext.cpp:9:32: required from here + 9 | set_wrapper::wrap("unsigned"); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::set, std::less >, std::allocator > >; ConversionPolicy = scitbx::boost_python::container_conversions::set_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::set, std::less >, std::allocator > >; ConversionPolicy = scitbx::boost_python::container_conversions::set_policy]’ + 146 | &convertible, + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/stl/set_wrapper.h:68:52: required from ‘static void scitbx::stl::boost_python::set_wrapper::wrap(const std::string&) [with ElementType = std::__cxx11::basic_string; std::string = std::__cxx11::basic_string]’ + 68 | scitbx::boost_python::container_conversions::from_python_sequence< + | ^~~~~~~~~~~~~~~~~~~~~ + 69 | w_t, scitbx::boost_python::container_conversions::set_policy>(); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/stl/set_ext.cpp:10:35: required from here + 10 | set_wrapper::wrap("stl_string"); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:58, from /usr/include/boost/smart_ptr/shared_ptr.hpp:25, from /usr/include/boost/shared_ptr.hpp:17, @@ -26044,102 +26172,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -g++ -o scitbx/suffixtree/boost_python/suffixtree_single_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/suffixtree/boost_python/suffixtree_single_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/stl/set_ext.cpp:1: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/stl/set_wrapper.h: In static member function ‘static void scitbx::stl::boost_python::set_wrapper::wrap(const std::string&)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/stl/set_wrapper.h:52:28: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 52 | bp::class_ >(python_name.c_str()) - | ^~~~~~~~ -In file included from /usr/include/c++/14/memory:78, - from /usr/include/boost/config/no_tr1/memory.hpp:21, - from /usr/include/boost/get_pointer.hpp:14, - from /usr/include/boost/python/object/pointer_holder.hpp:11, - from /usr/include/boost/python/to_python_indirect.hpp:10, - from /usr/include/boost/python/converter/arg_to_python.hpp:10, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/object/class.hpp:9, - from /usr/include/boost/python/class.hpp:13, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/stl/set_wrapper.h:4: -/usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here - 59 | template class auto_ptr; - | ^~~~~~~~ -In file included from /usr/include/boost/assert.hpp:58, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:25, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::set, std::allocator >; ConversionPolicy = scitbx::boost_python::container_conversions::set_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::set, std::allocator >; ConversionPolicy = scitbx::boost_python::container_conversions::set_policy]’ - 146 | &convertible, - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/stl/set_wrapper.h:68:52: required from ‘static void scitbx::stl::boost_python::set_wrapper::wrap(const std::string&) [with ElementType = unsigned int; std::string = std::__cxx11::basic_string]’ - 68 | scitbx::boost_python::container_conversions::from_python_sequence< - | ^~~~~~~~~~~~~~~~~~~~~ - 69 | w_t, scitbx::boost_python::container_conversions::set_policy>(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/stl/set_ext.cpp:9:32: required from here - 9 | set_wrapper::wrap("unsigned"); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::set, std::less >, std::allocator > >; ConversionPolicy = scitbx::boost_python::container_conversions::set_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::set, std::less >, std::allocator > >; ConversionPolicy = scitbx::boost_python::container_conversions::set_policy]’ - 146 | &convertible, - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/stl/set_wrapper.h:68:52: required from ‘static void scitbx::stl::boost_python::set_wrapper::wrap(const std::string&) [with ElementType = std::__cxx11::basic_string; std::string = std::__cxx11::basic_string]’ - 68 | scitbx::boost_python::container_conversions::from_python_sequence< - | ^~~~~~~~~~~~~~~~~~~~~ - 69 | w_t, scitbx::boost_python::container_conversions::set_policy>(); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/stl/set_ext.cpp:10:35: required from here - 10 | set_wrapper::wrap("stl_string"); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:5, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_matrix.h:4: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] - 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/c++/14/memory:69, - from /usr/include/boost/config/no_tr1/memory.hpp:21, - from /usr/include/boost/get_pointer.hpp:14, - from /usr/include/boost/python/object/pointer_holder.hpp:11, - from /usr/include/boost/python/to_python_indirect.hpp:10, - from /usr/include/boost/python/converter/arg_to_python.hpp:10, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/object.hpp:9, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/array_as_list.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/rigid_body/ext.cpp:3: -/usr/include/c++/14/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here - 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) - | ^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here - 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); - | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::af::tiny]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] - 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::af::tiny&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::af::tiny*; _Size = long unsigned int; _Tp = scitbx::af::tiny]’ declared here - 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) - | ^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here - 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); - | ^~~~~~~~~~~~~ -g++ -o scitbx/suffixtree/boost_python/object_extensions.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/suffixtree/boost_python/object_extensions.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/scitbx_suffixtree_shared_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_suffixtree_shared_ext.so.0 scitbx/suffixtree/boost_python/suffixtree_shared_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/scitbx_suffixtree_shared_ext.so.0.0.1' - 'lib/scitbx_suffixtree_shared_ext.so.0'->'lib/scitbx_suffixtree_shared_ext.so.0.0.1' - 'lib/scitbx_suffixtree_shared_ext.so'->'lib/scitbx_suffixtree_shared_ext.so.0.0.1' g++ -o scitbx/wigner/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/wigner/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:307: @@ -26153,50 +26185,54 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/push_back_etc.h:175:26: note: ‘’ declared here 175 | resize(new_size, ElementType()); | ^~~~~~~~~~~~~ +g++ -o lib/scitbx_suffixtree_shared_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_suffixtree_shared_ext.so.0 scitbx/suffixtree/boost_python/suffixtree_shared_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/scitbx_suffixtree_shared_ext.so.0.0.1' + 'lib/scitbx_suffixtree_shared_ext.so.0'->'lib/scitbx_suffixtree_shared_ext.so.0.0.1' + 'lib/scitbx_suffixtree_shared_ext.so'->'lib/scitbx_suffixtree_shared_ext.so.0.0.1' g++ -o smtbx/ab_initio/ab_initio_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/ab_initio/ab_initio_ext.cpp -g++ -o lib/scitbx_random_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_random_ext.so.0 scitbx/random/boost_python/random_ext.o scitbx/random/boost_python/basic_distributions.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/scitbx_random_ext.so.0.0.1' - 'lib/scitbx_random_ext.so.0'->'lib/scitbx_random_ext.so.0.0.1' - 'lib/scitbx_random_ext.so'->'lib/scitbx_random_ext.so.0.0.1' g++ -o smtbx/array_family/af_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/array_family/af_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/affine.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/boost_python/affine.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/scitbx_math_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_math_ext.so.0 scitbx/math/boost_python/math_ext.o scitbx/math/boost_python/basic_statistics.o scitbx/math/boost_python/gaussian.o scitbx/math/boost_python/golay.o scitbx/math/boost_python/minimum_covering_sphere.o scitbx/math/boost_python/principal_axes_of_inertia.o scitbx/math/boost_python/row_echelon.o scitbx/math/boost_python/tensor_rank_2.o scitbx/math/boost_python/chebyshev.o scitbx/math/boost_python/icosahedron.o scitbx/math/boost_python/slatec.o scitbx/math/boost_python/line_search.o scitbx/math/boost_python/r3_rotation.o scitbx/math/boost_python/resample.o scitbx/math/boost_python/quadrature.o scitbx/math/boost_python/unimodular_generator.o scitbx/math/boost_python/halton.o scitbx/math/boost_python/least_squares_plane.o scitbx/math/boost_python/continued_fraction.o scitbx/math/boost_python/numeric_limits.o scitbx/math/boost_python/distributions.o scitbx/math/boost_python/exp_functions.o scitbx/math/boost_python/zernike.o scitbx/math/boost_python/zernike_moments.o scitbx/math/boost_python/2d_zernike_moments.o scitbx/math/boost_python/weighted_covariance.o scitbx/math/boost_python/rotation.o scitbx/math/boost_python/interpolation.o scitbx/math/boost_python/tetrahedron.o scitbx/math/boost_python/angle_derivative.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_slatec -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o lib/scitbx_random_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_random_ext.so.0 scitbx/random/boost_python/random_ext.o scitbx/random/boost_python/basic_distributions.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/scitbx_random_ext.so.0.0.1' + 'lib/scitbx_random_ext.so.0'->'lib/scitbx_random_ext.so.0.0.1' + 'lib/scitbx_random_ext.so'->'lib/scitbx_random_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/constraints_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/boost_python/constraints_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_math_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_math_ext.so.0 scitbx/math/boost_python/math_ext.o scitbx/math/boost_python/basic_statistics.o scitbx/math/boost_python/gaussian.o scitbx/math/boost_python/golay.o scitbx/math/boost_python/minimum_covering_sphere.o scitbx/math/boost_python/principal_axes_of_inertia.o scitbx/math/boost_python/row_echelon.o scitbx/math/boost_python/tensor_rank_2.o scitbx/math/boost_python/chebyshev.o scitbx/math/boost_python/icosahedron.o scitbx/math/boost_python/slatec.o scitbx/math/boost_python/line_search.o scitbx/math/boost_python/r3_rotation.o scitbx/math/boost_python/resample.o scitbx/math/boost_python/quadrature.o scitbx/math/boost_python/unimodular_generator.o scitbx/math/boost_python/halton.o scitbx/math/boost_python/least_squares_plane.o scitbx/math/boost_python/continued_fraction.o scitbx/math/boost_python/numeric_limits.o scitbx/math/boost_python/distributions.o scitbx/math/boost_python/exp_functions.o scitbx/math/boost_python/zernike.o scitbx/math/boost_python/zernike_moments.o scitbx/math/boost_python/2d_zernike_moments.o scitbx/math/boost_python/weighted_covariance.o scitbx/math/boost_python/rotation.o scitbx/math/boost_python/interpolation.o scitbx/math/boost_python/tetrahedron.o scitbx/math/boost_python/angle_derivative.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_slatec -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm g++ -o lib/scitbx_stl_set_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_stl_set_ext.so.0 scitbx/stl/set_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/scitbx_stl_set_ext.so.0.0.1' 'lib/scitbx_stl_set_ext.so.0'->'lib/scitbx_stl_set_ext.so.0.0.1' 'lib/scitbx_stl_set_ext.so'->'lib/scitbx_stl_set_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/direction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/boost_python/direction.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/scitbx_math_ext.so.0.0.1' - 'lib/scitbx_math_ext.so.0'->'lib/scitbx_math_ext.so.0.0.1' - 'lib/scitbx_math_ext.so'->'lib/scitbx_math_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/geometrical_hydrogens.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/boost_python/geometrical_hydrogens.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/smtbx_array_family_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_array_family_ext.so.0 smtbx/array_family/af_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python313 -lm -g++ -o lib/smtbx_ab_initio_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_ab_initio_ext.so.0 smtbx/ab_initio/ab_initio_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/smtbx_array_family_ext.so.0.0.1' 'lib/smtbx_array_family_ext.so.0'->'lib/smtbx_array_family_ext.so.0.0.1' 'lib/smtbx_array_family_ext.so'->'lib/smtbx_array_family_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/independent_scalar_parameters.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/boost_python/independent_scalar_parameters.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/smtbx_ab_initio_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_ab_initio_ext.so.0 smtbx/ab_initio/ab_initio_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/smtbx_ab_initio_ext.so.0.0.1' 'lib/smtbx_ab_initio_ext.so.0'->'lib/smtbx_ab_initio_ext.so.0.0.1' 'lib/smtbx_ab_initio_ext.so'->'lib/smtbx_ab_initio_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/occupancy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/boost_python/occupancy.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_wigner_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_wigner_ext.so.0 scitbx/wigner/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/scitbx_math_ext.so.0.0.1' + 'lib/scitbx_math_ext.so.0'->'lib/scitbx_math_ext.so.0.0.1' + 'lib/scitbx_math_ext.so'->'lib/scitbx_math_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/reparametrisation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/boost_python/reparametrisation.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/scitbx_wigner_ext.so.0.0.1' 'lib/scitbx_wigner_ext.so.0'->'lib/scitbx_wigner_ext.so.0.0.1' 'lib/scitbx_wigner_ext.so'->'lib/scitbx_wigner_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/rigid.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/boost_python/rigid.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_sparse_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_sparse_ext.so.0 scitbx/sparse/boost_python/vector.o scitbx/sparse/boost_python/matrix.o scitbx/sparse/boost_python/approx_equal.o scitbx/sparse/boost_python/random.o scitbx/sparse/boost_python/lu_factorization.o scitbx/sparse/boost_python/sparse_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/scitbx_sparse_ext.so.0.0.1' 'lib/scitbx_sparse_ext.so.0'->'lib/scitbx_sparse_ext.so.0.0.1' @@ -26209,34 +26245,34 @@ 'lib/scitbx_rigid_body_ext.so'->'lib/scitbx_rigid_body_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/scaled_adp.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/boost_python/scaled_adp.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o smtbx/refinement/constraints/boost_python/scatterer_parameters.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/boost_python/scatterer_parameters.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_stl_vector_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_stl_vector_ext.so.0 scitbx/stl/vector_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/scitbx_stl_vector_ext.so.0.0.1' 'lib/scitbx_stl_vector_ext.so.0'->'lib/scitbx_stl_vector_ext.so.0.0.1' 'lib/scitbx_stl_vector_ext.so'->'lib/scitbx_stl_vector_ext.so.0.0.1' -g++ -o smtbx/refinement/constraints/boost_python/scatterer_parameters.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/boost_python/scatterer_parameters.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/shared.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/boost_python/shared.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_stl_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_stl_map_ext.so.0 scitbx/stl/map_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm g++ -o smtbx/refinement/constraints/boost_python/special_position.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/boost_python/special_position.cpp +Create symlinks for: 'lib/scitbx_stl_map_ext.so.0.0.1' + 'lib/scitbx_stl_map_ext.so.0'->'lib/scitbx_stl_map_ext.so.0.0.1' + 'lib/scitbx_stl_map_ext.so'->'lib/scitbx_stl_map_ext.so.0.0.1' cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/symmetry_equivalent.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/boost_python/symmetry_equivalent.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/scitbx_suffixtree_single_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_suffixtree_single_ext.so.0 scitbx/suffixtree/boost_python/suffixtree_single_ext.o scitbx/suffixtree/boost_python/object_extensions.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/scitbx_suffixtree_single_ext.so.0.0.1' - 'lib/scitbx_suffixtree_single_ext.so.0'->'lib/scitbx_suffixtree_single_ext.so.0.0.1' - 'lib/scitbx_suffixtree_single_ext.so'->'lib/scitbx_suffixtree_single_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/u_eq_dependent_u_iso.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/boost_python/u_eq_dependent_u_iso.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/u_iso_dependent_u_iso.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/boost_python/u_iso_dependent_u_iso.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/scitbx_stl_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_stl_map_ext.so.0 scitbx/stl/map_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/scitbx_stl_map_ext.so.0.0.1' - 'lib/scitbx_stl_map_ext.so.0'->'lib/scitbx_stl_map_ext.so.0.0.1' - 'lib/scitbx_stl_map_ext.so'->'lib/scitbx_stl_map_ext.so.0.0.1' g++ -o smtbx/refinement/boost_python/least_squares_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/boost_python/least_squares_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/boost_python/weighting_schemes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/boost_python/weighting_schemes.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_suffixtree_single_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_suffixtree_single_ext.so.0 scitbx/suffixtree/boost_python/suffixtree_single_ext.o scitbx/suffixtree/boost_python/object_extensions.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +Create symlinks for: 'lib/scitbx_suffixtree_single_ext.so.0.0.1' + 'lib/scitbx_suffixtree_single_ext.so.0'->'lib/scitbx_suffixtree_single_ext.so.0.0.1' + 'lib/scitbx_suffixtree_single_ext.so'->'lib/scitbx_suffixtree_single_ext.so.0.0.1' g++ -o smtbx/refinement/boost_python/least_squares.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/boost_python/least_squares.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/restraints/boost_python/origin_fixing.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/restraints/boost_python/origin_fixing.cpp @@ -26267,20 +26303,22 @@ 'lib/std_pair_ext.so'->'lib/std_pair_ext.so.0.0.1' g++ -o mmtbx/masks/tst_mask.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/mmtbx/masks/tst_mask.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/array_family/boost_python/regression_test_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/smtbx_stl_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_stl_map_ext.so.0 smtbx/stl/map_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/smtbx_stl_map_ext.so.0.0.1' 'lib/smtbx_stl_map_ext.so.0'->'lib/smtbx_stl_map_ext.so.0.0.1' 'lib/smtbx_stl_map_ext.so'->'lib/smtbx_stl_map_ext.so.0.0.1' -g++ -o scitbx/array_family/tst_accessors.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_accessors.cpp -g++ -o scitbx/array_family/tst_af_1.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_1.cpp +g++ -o scitbx/array_family/boost_python/regression_test_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/array_family/tst_accessors.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_accessors.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include/scitbx/array_family/tiny_plain_apply.h:15, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_1.cpp:1: + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/accessors/flex_grid.h:5, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/flex_types.h:6, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_accessors.cpp:1: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -26307,6 +26345,143 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h: In member function ‘const ElementType& scitbx::af::small_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘const ElementType& scitbx::af::shared_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h: In member function ‘ElementType& scitbx::af::versa_plain::at(size_type)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h: In member function ‘const ElementType& scitbx::af::versa_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_accessors.cpp:15: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::c_grid<1>]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_accessors.cpp:127:11: required from here + 127 | verify(__LINE__, a.as_flex_grid().all(), a); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] + 17 | if (v[i] != a[i]) { + | ~~~~~^~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::c_grid<4>]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_accessors.cpp:145:11: required from here + 145 | verify(__LINE__, a.as_flex_grid().all(), a); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] + 17 | if (v[i] != a[i]) { + | ~~~~~^~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::c_grid<2>]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_accessors.cpp:172:11: required from here + 172 | verify(__LINE__, a.as_flex_grid().all(), a); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] + 17 | if (v[i] != a[i]) { + | ~~~~~^~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::c_grid<3>]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_accessors.cpp:202:11: required from here + 202 | verify(__LINE__, a.as_flex_grid().all(), a); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] + 17 | if (v[i] != a[i]) { + | ~~~~~^~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::tiny]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_accessors.cpp:248:11: required from here + 248 | verify(__LINE__, a.as_flex_grid().all(), a.all()); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] + 17 | if (v[i] != a[i]) { + | ~~~~~^~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::tiny]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_accessors.cpp:280:11: required from here + 280 | verify(__LINE__, a.as_flex_grid().all(), a.all()); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] + 17 | if (v[i] != a[i]) { + | ~~~~~^~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::tiny]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_accessors.cpp:326:11: required from here + 326 | verify(__LINE__, a.as_flex_grid().all(), a.all()); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] + 17 | if (v[i] != a[i]) { + | ~~~~~^~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::tiny]’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_accessors.cpp:371:11: required from here + 371 | verify(__LINE__, a.as_flex_grid().all(), a.all()); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] + 17 | if (v[i] != a[i]) { + | ~~~~~^~~~~ +g++ -o scitbx/array_family/tst_af_1.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_1.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/assert.hpp:58, from /usr/include/boost/smart_ptr/shared_ptr.hpp:25, from /usr/include/boost/shared_ptr.hpp:17, @@ -26368,27 +26543,10 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/accessors/flex_grid.h:5, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/flex_types.h:6, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_accessors.cpp:1: + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include/scitbx/array_family/tiny_plain_apply.h:15, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_1.cpp:1: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -26415,71 +26573,7 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h: In member function ‘const ElementType& scitbx::af::small_plain::at(size_type) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘const ElementType& scitbx::af::shared_plain::at(size_type) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h: In member function ‘ElementType& scitbx::af::versa_plain::at(size_type)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h: In member function ‘const ElementType& scitbx::af::versa_plain::at(size_type) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o lib/spotfinder_hough_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=spotfinder_hough_ext.so.0 spotfinder/core_toolbox/boost_python/hough_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lspotfinder -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -26558,6 +26652,11 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +Create symlinks for: 'lib/spotfinder_hough_ext.so.0.0.1' + 'lib/spotfinder_hough_ext.so.0'->'lib/spotfinder_hough_ext.so.0.0.1' + 'lib/spotfinder_hough_ext.so'->'lib/spotfinder_hough_ext.so.0.0.1' +g++ -o scitbx/array_family/tst_af_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_2.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/smart_ptr/detail/requires_cxx11.hpp:9, from /usr/include/boost/smart_ptr/scoped_array.hpp:13, from /usr/include/boost/scoped_array.hpp:13, @@ -26566,63 +26665,7 @@ /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_accessors.cpp:15: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::c_grid<1>]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_accessors.cpp:127:11: required from here - 127 | verify(__LINE__, a.as_flex_grid().all(), a); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] - 17 | if (v[i] != a[i]) { - | ~~~~~^~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::c_grid<4>]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_accessors.cpp:145:11: required from here - 145 | verify(__LINE__, a.as_flex_grid().all(), a); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] - 17 | if (v[i] != a[i]) { - | ~~~~~^~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::c_grid<2>]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_accessors.cpp:172:11: required from here - 172 | verify(__LINE__, a.as_flex_grid().all(), a); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] - 17 | if (v[i] != a[i]) { - | ~~~~~^~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::c_grid<3>]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_accessors.cpp:202:11: required from here - 202 | verify(__LINE__, a.as_flex_grid().all(), a); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] - 17 | if (v[i] != a[i]) { - | ~~~~~^~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::tiny]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_accessors.cpp:248:11: required from here - 248 | verify(__LINE__, a.as_flex_grid().all(), a.all()); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] - 17 | if (v[i] != a[i]) { - | ~~~~~^~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::tiny]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_accessors.cpp:280:11: required from here - 280 | verify(__LINE__, a.as_flex_grid().all(), a.all()); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] - 17 | if (v[i] != a[i]) { - | ~~~~~^~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::tiny]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_accessors.cpp:326:11: required from here - 326 | verify(__LINE__, a.as_flex_grid().all(), a.all()); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] - 17 | if (v[i] != a[i]) { - | ~~~~~^~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::tiny]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_accessors.cpp:371:11: required from here - 371 | verify(__LINE__, a.as_flex_grid().all(), a.all()); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] - 17 | if (v[i] != a[i]) { - | ~~~~~^~~~~ +g++ -o scitbx/array_family/tst_accessors -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_accessors.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_1.cpp: In instantiation of ‘static void {anonymous}::array_exercise::run_2() [with ArrayType = scitbx::af::small_plain]’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_1.cpp:29:12: required from ‘static void {anonymous}::array_exercise::run() [with ArrayType = scitbx::af::small_plain]’ 29 | run_2(); @@ -26726,10 +26769,8 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:59:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 59 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ -g++ -o mmtbx/masks/tst_mask -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread mmtbx/masks/tst_mask.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lmmtbx_masks -liotbx_pdb -lcctbx -lomptbx -lcctbx_sgtbx_asu -lm -g++ -o scitbx/array_family/tst_af_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_2.cpp +g++ -o scitbx/array_family/tst_af_3.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_3.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/spotfinder_hough_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=spotfinder_hough_ext.so.0 spotfinder/core_toolbox/boost_python/hough_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lspotfinder -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, @@ -26841,10 +26882,8 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -Create symlinks for: 'lib/spotfinder_hough_ext.so.0.0.1' - 'lib/spotfinder_hough_ext.so.0'->'lib/spotfinder_hough_ext.so.0.0.1' - 'lib/spotfinder_hough_ext.so'->'lib/spotfinder_hough_ext.so.0.0.1' -g++ -o scitbx/array_family/tst_af_3.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_3.cpp +g++ -o mmtbx/masks/tst_mask -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread mmtbx/masks/tst_mask.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lmmtbx_masks -liotbx_pdb -lcctbx -lomptbx -lcctbx_sgtbx_asu -lm +g++ -o scitbx/array_family/tst_af_4.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_4.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/simple_io.h:5, @@ -26954,20 +26993,9 @@ 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -o scitbx/array_family/tst_af_2 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_2.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -g++ -o scitbx/array_family/tst_af_4.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_4.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/spotfinder_dxtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=spotfinder_dxtbx_ext.so.0 spotfinder/dxtbx_toolbox/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -ldxtbxspotfinder -lspotfinder -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -g++ -o scitbx/array_family/tst_accessors -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_accessors.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -Create symlinks for: 'lib/spotfinder_dxtbx_ext.so.0.0.1' - 'lib/spotfinder_dxtbx_ext.so.0'->'lib/spotfinder_dxtbx_ext.so.0.0.1' - 'lib/spotfinder_dxtbx_ext.so'->'lib/spotfinder_dxtbx_ext.so.0.0.1' -g++ -o scitbx/array_family/tst_af_5.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_5.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/array_family/tst_mat3.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_mat3.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/simple_io.h:5, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_5.cpp:1: + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_4.cpp:1: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -26994,6 +27022,34 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o scitbx/array_family/tst_af_5.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_5.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h: In member function ‘const ElementType& scitbx::af::small_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -27020,62 +27076,61 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/simple_io.h:5, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_4.cpp:1: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h: In member function ‘ElementType& scitbx::af::versa_plain::at(size_type)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 62 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h: In member function ‘const ElementType& scitbx::af::versa_plain::at(size_type) const’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 65 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 65 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/simple_io.h:5, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_af_5.cpp:1: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 62 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h: In member function ‘const ElementType& scitbx::af::small_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 65 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 65 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o lib/smtbx_refinement_constraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_refinement_constraints_ext.so.0 smtbx/refinement/constraints/boost_python/affine.o smtbx/refinement/constraints/boost_python/constraints_ext.o smtbx/refinement/constraints/boost_python/direction.o smtbx/refinement/constraints/boost_python/geometrical_hydrogens.o smtbx/refinement/constraints/boost_python/independent_scalar_parameters.o smtbx/refinement/constraints/boost_python/occupancy.o smtbx/refinement/constraints/boost_python/reparametrisation.o smtbx/refinement/constraints/boost_python/rigid.o smtbx/refinement/constraints/boost_python/same_group.o smtbx/refinement/constraints/boost_python/scaled_adp.o smtbx/refinement/constraints/boost_python/scatterer_parameters.o smtbx/refinement/constraints/boost_python/shared.o smtbx/refinement/constraints/boost_python/special_position.o smtbx/refinement/constraints/boost_python/symmetry_equivalent.o smtbx/refinement/constraints/boost_python/u_eq_dependent_u_iso.o smtbx/refinement/constraints/boost_python/u_iso_dependent_u_iso.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lsmtbx_refinement_constraints -lscitbx_boost_python -lcctbx -lboost_thread -lboost_system -lboost_python313 -lm /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -27102,32 +27157,16 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h: In member function ‘ElementType& scitbx::af::versa_plain::at(size_type)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h: In member function ‘const ElementType& scitbx::af::versa_plain::at(size_type) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o lib/spotfinder_dxtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=spotfinder_dxtbx_ext.so.0 spotfinder/dxtbx_toolbox/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -ldxtbxspotfinder -lspotfinder -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o lib/smtbx_refinement_constraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_refinement_constraints_ext.so.0 smtbx/refinement/constraints/boost_python/affine.o smtbx/refinement/constraints/boost_python/constraints_ext.o smtbx/refinement/constraints/boost_python/direction.o smtbx/refinement/constraints/boost_python/geometrical_hydrogens.o smtbx/refinement/constraints/boost_python/independent_scalar_parameters.o smtbx/refinement/constraints/boost_python/occupancy.o smtbx/refinement/constraints/boost_python/reparametrisation.o smtbx/refinement/constraints/boost_python/rigid.o smtbx/refinement/constraints/boost_python/same_group.o smtbx/refinement/constraints/boost_python/scaled_adp.o smtbx/refinement/constraints/boost_python/scatterer_parameters.o smtbx/refinement/constraints/boost_python/shared.o smtbx/refinement/constraints/boost_python/special_position.o smtbx/refinement/constraints/boost_python/symmetry_equivalent.o smtbx/refinement/constraints/boost_python/u_eq_dependent_u_iso.o smtbx/refinement/constraints/boost_python/u_iso_dependent_u_iso.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lsmtbx_refinement_constraints -lscitbx_boost_python -lcctbx -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o scitbx/array_family/tst_af_3 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system +g++ -o scitbx/array_family/tst_mat3.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_mat3.cpp +Create symlinks for: 'lib/spotfinder_dxtbx_ext.so.0.0.1' + 'lib/spotfinder_dxtbx_ext.so.0'->'lib/spotfinder_dxtbx_ext.so.0.0.1' + 'lib/spotfinder_dxtbx_ext.so'->'lib/spotfinder_dxtbx_ext.so.0.0.1' +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/array_family/tst_optional_copy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_optional_copy.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, @@ -27160,18 +27199,7 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o scitbx/array_family/tst_af_3 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -g++ -o scitbx/array_family/tst_af_1 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_1.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -g++ -o scitbx/array_family/tst_optional_copy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_optional_copy.cpp -g++ -o scitbx/array_family/boost_python/regression_test_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=regression_test_ext.so.0 scitbx/array_family/boost_python/regression_test_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -lboost_numpy313 -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/array_family/tst_rectangular_full_packed.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_rectangular_full_packed.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'scitbx/array_family/boost_python/regression_test_ext.so.0.0.1' - 'scitbx/array_family/boost_python/regression_test_ext.so.0'->'scitbx/array_family/boost_python/regression_test_ext.so.0.0.1' - 'scitbx/array_family/boost_python/regression_test_ext.so'->'scitbx/array_family/boost_python/regression_test_ext.so.0.0.1' -g++ -o scitbx/array_family/tst_ref_matrix_facet.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_ref_matrix_facet.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/array_family/tst_af_5 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_5.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lm Create symlinks for: 'lib/smtbx_refinement_constraints_ext.so.0.0.1' 'lib/smtbx_refinement_constraints_ext.so.0'->'lib/smtbx_refinement_constraints_ext.so.0.0.1' 'lib/smtbx_refinement_constraints_ext.so'->'lib/smtbx_refinement_constraints_ext.so.0.0.1' @@ -27286,9 +27314,43 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o scitbx/array_family/tst_rectangular_full_packed.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_rectangular_full_packed.cpp +g++ -o scitbx/array_family/tst_ref_matrix_facet.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_ref_matrix_facet.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/array_family/tst_af_1 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_1.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system g++ -o scitbx/array_family/tst_sym_mat3.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_sym_mat3.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/array_family/tst_af_5 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_5.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lm +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/accessors/rectangular_full_packed.h:3, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_rectangular_full_packed.cpp:1: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_ref_matrix_facet.cpp:1: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: @@ -27395,36 +27457,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/accessors/rectangular_full_packed.h:3, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_rectangular_full_packed.cpp:1: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -27451,6 +27483,13 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_rectangular_full_packed.cpp: In function ‘int main()’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_rectangular_full_packed.cpp:52:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 52 | for(int i=0; i::at(size_type)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -27503,17 +27542,14 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_rectangular_full_packed.cpp: In function ‘int main()’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_rectangular_full_packed.cpp:52:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 52 | for(int i=0; i'scitbx/array_family/boost_python/regression_test_ext.so.0.0.1' + 'scitbx/array_family/boost_python/regression_test_ext.so'->'scitbx/array_family/boost_python/regression_test_ext.so.0.0.1' g++ -o scitbx/array_family/tst_unsigned_float_arithmetic.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_unsigned_float_arithmetic.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/array_family/tst_mat3 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_mat3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lm -g++ -o scitbx/array_family/tst_rectangular_full_packed -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_rectangular_full_packed.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, @@ -27548,15 +27584,23 @@ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -o scitbx/array_family/tst_vec3.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_vec3.cpp -g++ -o scitbx/array_family/tst_ref_matrix_facet -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_ref_matrix_facet.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/smtbx_refinement_restraints_ext.so.0.0.1' + 'lib/smtbx_refinement_restraints_ext.so.0'->'lib/smtbx_refinement_restraints_ext.so.0.0.1' + 'lib/smtbx_refinement_restraints_ext.so'->'lib/smtbx_refinement_restraints_ext.so.0.0.1' g++ -o scitbx/error/tst_error.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Iscitbx/error -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error/tst_error.cpp +g++ -o scitbx/array_family/tst_mat3 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_mat3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lm +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/fftpack/timing/fftpack_timer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/fftpack/timing/fftpack_timer.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/array_family/tst_optional_copy -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_optional_copy.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system +g++ -o scitbx/array_family/tst_ref_matrix_facet -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_ref_matrix_facet.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system +g++ -o scitbx/fftpack/timing/test0.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/fftpack/timing/test0.cpp In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include/scitbx/array_family/tiny_algebra.h:14, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_unsigned_float_arithmetic.cpp:3: + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/vec3.h:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_vec3.cpp:2: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -27583,14 +27627,12 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o scitbx/fftpack/timing/fftpack_timer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/fftpack/timing/fftpack_timer.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/array_family/tst_unsigned_float_arithmetic -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_unsigned_float_arithmetic.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/vec3.h:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_vec3.cpp:2: + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include/scitbx/array_family/tiny_algebra.h:14, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tst_unsigned_float_arithmetic.cpp:3: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -27617,12 +27659,10 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o scitbx/array_family/tst_optional_copy -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_optional_copy.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -g++ -o scitbx/error/tst_error -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/error/tst_error.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -g++ -o scitbx/fftpack/timing/test0.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/fftpack/timing/test0.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/lbfgs/sdrive_fem.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable scitbx/lbfgs/sdrive_fem.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/array_family/tst_unsigned_float_arithmetic -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_unsigned_float_arithmetic.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system +g++ -o scitbx/error/tst_error -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/error/tst_error.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system g++ -o scitbx/lbfgs/tst_lbfgs.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgs/tst_lbfgs.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, @@ -27658,6 +27698,8 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o scitbx/lbfgsb/dev/driver1.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb/dev/driver1.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -27691,30 +27733,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/fftpack/factorization.h:67:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 67 | for (i = 0; i < opt_factors.size(); i++) { | ~~^~~~~~~~~~~~~~~~~~~~ -g++ -o lib/smtbx_refinement_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_refinement_restraints_ext.so.0 smtbx/refinement/restraints/boost_python/origin_fixing.o smtbx/refinement/restraints/boost_python/restraints_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python313 -lm -g++ -o scitbx/array_family/tst_vec3 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_vec3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lm -g++ -o scitbx/array_family/tst_sym_mat3 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_sym_mat3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lm -Create symlinks for: 'lib/smtbx_refinement_restraints_ext.so.0.0.1' - 'lib/smtbx_refinement_restraints_ext.so.0'->'lib/smtbx_refinement_restraints_ext.so.0.0.1' - 'lib/smtbx_refinement_restraints_ext.so'->'lib/smtbx_refinement_restraints_ext.so.0.0.1' -g++ -o scitbx/lbfgsb/dev/driver1.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb/dev/driver1.cpp -g++ -o scitbx/lbfgsb/dev/driver2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb/dev/driver2.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/lbfgsb/dev/driver3.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb/dev/driver3.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/io.hpp:8, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/close_chain.hpp:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/common.hpp:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/read.hpp:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/major_types.hpp:6, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem.hpp:10, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include/scitbx/lbfgs_fem.hpp:1, - from scitbx/lbfgs/sdrive_fem.cpp:1: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/simple_streams.hpp: In member function ‘virtual void fem::utils::simple_ostream_to_char_ptr_and_size::put(char)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/simple_streams.hpp:63:13: warning: comparison of integer expressions of different signedness: ‘fem::ssize_t’ {aka ‘long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 63 | if (i < sz) s[i++] = c; - | ~~^~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny.h:4, @@ -27782,26 +27800,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/fftpack/factorization.h:67:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 67 | for (i = 0; i < opt_factors.size(); i++) { | ~~^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/common.hpp: In member function ‘void fem::common::getarg(int, fem::str_ref) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/common.hpp:40:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 40 | if (pos < 0 || pos >= command_line_args.buffer.size()) { - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/string_to_double_fmt.hpp:4, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/read.hpp:9: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/string_to_double.hpp: In member function ‘void fem::utils::string_to_double::convert(fem::utils::simple_istream&, unsigned int, int)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/string_to_double.hpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] - 115 | if (dexp <= ad_hoc_limits::max_digit_count) { - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/read.hpp: In member function ‘double fem::read_loop::read_fmt_double()’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/read.hpp:653:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 653 | if (iw+1 != ed.size()) { - | ~~~~~^~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/variant.hpp:5, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/major_types.hpp:7: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/equivalence.hpp: In member function ‘void fem::utils::equivalence::array_alignment::infer_diffs0_from_diff_matrix()’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/equivalence.hpp:93:28: warning: comparison of integer expressions of different signedness: ‘const fem::ssize_t’ {aka ‘const long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 93 | if (c0e[0] == i0) { - | ~~~~~~~^~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/versa_plain.h: In member function ‘ElementType& scitbx::af::versa_plain::at(size_type)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -27854,11 +27852,47 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o scitbx/array_family/tst_vec3 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_vec3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lm +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/io.hpp:8, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/close_chain.hpp:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/common.hpp:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/read.hpp:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/major_types.hpp:6, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem.hpp:10, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include/scitbx/lbfgs_fem.hpp:1, + from scitbx/lbfgs/sdrive_fem.cpp:1: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/simple_streams.hpp: In member function ‘virtual void fem::utils::simple_ostream_to_char_ptr_and_size::put(char)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/simple_streams.hpp:63:13: warning: comparison of integer expressions of different signedness: ‘fem::ssize_t’ {aka ‘long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 63 | if (i < sz) s[i++] = c; + | ~~^~~~ +g++ -o scitbx/lbfgsb/dev/driver2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb/dev/driver2.cpp +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/common.hpp: In member function ‘void fem::common::getarg(int, fem::str_ref) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/common.hpp:40:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 40 | if (pos < 0 || pos >= command_line_args.buffer.size()) { + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/string_to_double_fmt.hpp:4, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/read.hpp:9: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/string_to_double.hpp: In member function ‘void fem::utils::string_to_double::convert(fem::utils::simple_istream&, unsigned int, int)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/string_to_double.hpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] + 115 | if (dexp <= ad_hoc_limits::max_digit_count) { + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/read.hpp: In member function ‘double fem::read_loop::read_fmt_double()’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/read.hpp:653:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 653 | if (iw+1 != ed.size()) { + | ~~~~~^~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/variant.hpp:5, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/major_types.hpp:7: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/equivalence.hpp: In member function ‘void fem::utils::equivalence::array_alignment::infer_diffs0_from_diff_matrix()’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/utils/equivalence.hpp:93:28: warning: comparison of integer expressions of different signedness: ‘const fem::ssize_t’ {aka ‘const long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 93 | if (c0e[0] == i0) { + | ~~~~~~~^~~~~ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/major_types.hpp:8: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/write.hpp: In destructor ‘fem::write_loop::~write_loop()’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/fable/fem/write.hpp:704:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 704 | while (pos < internal_file_len) { | ~~~~^~~~~~~~~~~~~~~~~~~ +g++ -o scitbx/array_family/tst_sym_mat3 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_sym_mat3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lm In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb/raw.h:6, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb/dev/driver1.cpp:1: @@ -27940,6 +27974,8 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o scitbx/lbfgsb/dev/driver3.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb/dev/driver3.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/serialization/base_256.h:2, from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/floating_point_epsilon.h:4, @@ -28149,61 +28185,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb/raw.h:6, - from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb/dev/driver3.cpp:1: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h: In member function ‘const ElementType& scitbx::af::small_plain::at(size_type) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -28230,33 +28211,6 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o scitbx/lbfgs/sdrive_fem -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgs/sdrive_fem.o scitbx/lbfgs/lbfgs_fem.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lm -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘const ElementType& scitbx::af::shared_plain::at(size_type) const’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -28284,16 +28238,15 @@ 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb/raw.h: In instantiation of ‘void scitbx::lbfgsb::raw::write_ref1(const std::string&, const ref1&, const char*) [with ElementType = double; std::string = std::__cxx11::basic_string]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb/dev/driver3.cpp:82:19: required from here - 82 | write_ref1(" ", wa.get1(j+1,n)); - | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb/dev/driver2.cpp:102:19: required from here + 102 | write_ref1(" ", x); + | ~~~~~~~~~~^~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb/raw.h:184:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 184 | for(int i=1;i<=a.size();i++) { | ~^~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb/raw.h:188:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 188 | for(int j=0;j::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3671 | SCITBX_ASSERT(x.size() == n); @@ -28397,10 +28350,92 @@ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb/raw.h:3675:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3675 | SCITBX_ASSERT(g.size() == n); | ^~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/ref.h:8, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb/raw.h:6, + from /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb/dev/driver3.cpp:1: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h: In member function ‘const ElementType& scitbx::af::small_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o scitbx/lbfgs/tst_lbfgs -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgs/tst_lbfgs.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lm +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h: In member function ‘const ElementType& scitbx::af::shared_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb/raw.h: In instantiation of ‘void scitbx::lbfgsb::raw::write_ref1(const std::string&, const ref1&, const char*) [with ElementType = double; std::string = std::__cxx11::basic_string]’: -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb/dev/driver2.cpp:102:19: required from here - 102 | write_ref1(" ", x); - | ~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb/dev/driver3.cpp:82:19: required from here + 82 | write_ref1(" ", wa.get1(j+1,n)); + | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb/raw.h:184:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 184 | for(int i=1;i<=a.size();i++) { | ~^~~~~~~~~~ @@ -28463,12 +28498,12 @@ | ~~~~~~ 4457 | enable_stp_init); | ~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb/dev/driver2.cpp:70:11: required from here - 70 | setulb( +/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb/dev/driver3.cpp:72:11: required from here + 72 | setulb( | ~~~~~~^ - 71 | n,m,x,l,u,nbd,f,g,factr,pgtol,wa,iwa,task,iprint, + 73 | n,m,x,l,u,nbd,f,g,factr,pgtol,wa,iwa,task,iprint, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 72 | csave,lsave,isave,dsave); + 74 | csave,lsave,isave,dsave); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/lbfgsb/raw.h:3671:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3671 | SCITBX_ASSERT(x.size() == n); @@ -28511,6 +28546,7 @@ 3675 | SCITBX_ASSERT(g.size() == n); | ^~~~~~~~~~~~~ g++ -o scitbx/math/tests/tst.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Iscitbx/math/tests -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/tests /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/math/tests/tst.cpp +g++ -o scitbx/lbfgs/sdrive_fem -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgs/sdrive_fem.o scitbx/lbfgs/lbfgs_fem.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lm cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/matrix/tests/tst_cholesky.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Iscitbx/matrix/tests -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/matrix/tests /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/matrix/tests/tst_cholesky.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ @@ -28519,52 +28555,52 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/tests/tst -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/math/tests/tst.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system g++ -o scitbx/matrix/tests/tst_householder.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Iscitbx/matrix/tests -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/matrix/tests /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/matrix/tests/tst_householder.cpp +g++ -o scitbx/lbfgsb/dev/driver2 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgsb/dev/driver2.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_timer -lboost_chrono -lm cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/lbfgsb/dev/driver1 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgsb/dev/driver1.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_timer -lboost_chrono -lm -g++ -o scitbx/lbfgsb/dev/driver3 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgsb/dev/driver3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_timer -lboost_chrono -lm g++ -o scitbx/matrix/tests/tst_svd.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Iscitbx/matrix/tests -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/matrix/tests /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/matrix/tests/tst_svd.cpp -g++ -o scitbx/serialization/tst_base_256.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Iscitbx/serialization -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/serialization /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/serialization/tst_base_256.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/fftpack/timing/test0 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/fftpack/timing/test0.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lomptbx -lm +g++ -o scitbx/serialization/tst_base_256.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Iscitbx/serialization -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/serialization /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/serialization/tst_base_256.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/spotfinder_distltbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=spotfinder_distltbx_ext.so.0 spotfinder/core_toolbox/boost_python/distltbx_ext.o spotfinder/diffraction/geometry.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lspotfinder -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm -Create symlinks for: 'lib/spotfinder_distltbx_ext.so.0.0.1' - 'lib/spotfinder_distltbx_ext.so.0'->'lib/spotfinder_distltbx_ext.so.0.0.1' - 'lib/spotfinder_distltbx_ext.so'->'lib/spotfinder_distltbx_ext.so.0.0.1' +g++ -o scitbx/lbfgsb/dev/driver3 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgsb/dev/driver3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_timer -lboost_chrono -lm g++ -o scitbx/sparse/tests/tst_sparse.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Iscitbx/sparse/tests -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/sparse/tests /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/scitbx/sparse/tests/tst_sparse.cpp -g++ -o scitbx/matrix/tests/tst_givens -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_givens.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/tests/tst_geometrical_hydrogens.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens.cpp -g++ -o scitbx/fftpack/timing/test0 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/fftpack/timing/test0.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -lomptbx -lm cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/matrix/tests/tst_givens -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_givens.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system g++ -o smtbx/refinement/constraints/tests/tst_reparametrisation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/tests/tst_reparametrisation.cpp -g++ -o scitbx/lbfgsb/dev/driver2 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgsb/dev/driver2.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_timer -lboost_chrono -lm cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/serialization/tst_base_256 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/serialization/tst_base_256.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lm g++ -o smtbx/refinement/constraints/tests/tst_special_position.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/.pybuild/cpython3_3.13/build_/include -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/smtbx/refinement/constraints/tests/tst_special_position.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/serialization/tst_base_256 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/serialization/tst_base_256.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lm g++ -o scitbx/matrix/tests/tst_cholesky -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_cholesky.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -g++ -o scitbx/matrix/tests/tst_svd -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_svd.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -g++ -o scitbx/matrix/tests/tst_householder -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_householder.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system -g++ -o scitbx/sparse/tests/tst_sparse -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/sparse/tests/tst_sparse.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system g++ -o lib/smtbx_refinement_least_squares_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_refinement_least_squares_ext.so.0 smtbx/refinement/boost_python/least_squares_ext.o smtbx/refinement/boost_python/weighting_schemes.o smtbx/refinement/boost_python/least_squares.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lsmtbx_refinement_constraints -lscitbx_boost_python -lcctbx -lboost_thread -lboost_system -lboost_python313 -lm +g++ -o lib/spotfinder_distltbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=spotfinder_distltbx_ext.so.0 spotfinder/core_toolbox/boost_python/distltbx_ext.o spotfinder/diffraction/geometry.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lspotfinder -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/smtbx_refinement_least_squares_ext.so.0.0.1' 'lib/smtbx_refinement_least_squares_ext.so.0'->'lib/smtbx_refinement_least_squares_ext.so.0.0.1' 'lib/smtbx_refinement_least_squares_ext.so'->'lib/smtbx_refinement_least_squares_ext.so.0.0.1' +g++ -o scitbx/matrix/tests/tst_svd -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_svd.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system +Create symlinks for: 'lib/spotfinder_distltbx_ext.so.0.0.1' + 'lib/spotfinder_distltbx_ext.so.0'->'lib/spotfinder_distltbx_ext.so.0.0.1' + 'lib/spotfinder_distltbx_ext.so'->'lib/spotfinder_distltbx_ext.so.0.0.1' +g++ -o scitbx/matrix/tests/tst_householder -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_householder.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system +g++ -o scitbx/sparse/tests/tst_sparse -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/sparse/tests/tst_sparse.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lboost_thread -lboost_system g++ -o lib/smtbx_structure_factors_direct_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_structure_factors_direct_ext.so.0 smtbx/structure_factors/direct/boost_python/ext.o smtbx/structure_factors/direct/boost_python/standard_xray.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/smtbx_structure_factors_direct_ext.so.0.0.1' 'lib/smtbx_structure_factors_direct_ext.so.0'->'lib/smtbx_structure_factors_direct_ext.so.0.0.1' 'lib/smtbx_structure_factors_direct_ext.so'->'lib/smtbx_structure_factors_direct_ext.so.0.0.1' -g++ -o smtbx/refinement/constraints/tests/tst_special_position -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread smtbx/refinement/constraints/tests/tst_special_position.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lsmtbx_refinement_constraints -lboost_thread -lboost_system g++ -o smtbx/refinement/constraints/tests/tst_reparametrisation -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread smtbx/refinement/constraints/tests/tst_reparametrisation.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lsmtbx_refinement_constraints -lboost_thread -lboost_system g++ -o smtbx/refinement/constraints/tests/tst_geometrical_hydrogens -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread smtbx/refinement/constraints/tests/tst_geometrical_hydrogens.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lsmtbx_refinement_constraints -lboost_thread -lboost_system +g++ -o smtbx/refinement/constraints/tests/tst_special_position -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread smtbx/refinement/constraints/tests/tst_special_position.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lcctbx -lsmtbx_refinement_constraints -lboost_thread -lboost_system g++ -o scitbx/array_family/tst_af_4 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_4.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lm g++ -o lib/spotfinder_array_family_flex_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=spotfinder_array_family_flex_ext.so.0 spotfinder/array_family/flex_ext.o spotfinder/array_family/flex_distl_spot.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -Llib -L/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/lib -lspotfinder -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python313 -lm Create symlinks for: 'lib/spotfinder_array_family_flex_ext.so.0.0.1' 'lib/spotfinder_array_family_flex_ext.so.0'->'lib/spotfinder_array_family_flex_ext.so.0.0.1' 'lib/spotfinder_array_family_flex_ext.so'->'lib/spotfinder_array_family_flex_ext.so.0.0.1' scons: done building targets. -usr+sys time: 27.47 seconds -wall clock time: 7 minutes 53.33 seconds (473.33 seconds total) +usr+sys time: 27.63 seconds +wall clock time: 9 minutes 47.80 seconds (587.80 seconds total) iconv -f ISO-8859-1 -t UTF-8 cctbx/eltbx/covalent_radii.h > covalent_radii.h mv covalent_radii.h cctbx/eltbx/covalent_radii.h # cp all extensions into the python build directory @@ -43855,7 +43891,8 @@ {'_dispatcher_include_at_start': [], '_dispatcher_include_before_command': [], '_dispatcher_precall_commands': None, - '_dispatcher_registry': {relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/dxtbx.print_header"): relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../dxtbx/src/dxtbx/command_line/print_header.py"), + '_dispatcher_registry': {relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/dxtbx.print_matching_images"): relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../dxtbx/src/dxtbx/command_line/print_matching_images.py"), + relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/dxtbx.print_header"): relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../dxtbx/src/dxtbx/command_line/print_header.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/dxtbx.plot_detector_models"): relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../dxtbx/src/dxtbx/command_line/plot_detector_models.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/dxtbx.overload"): relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../dxtbx/src/dxtbx/command_line/overload.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/dxtbx.install_format"): relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../dxtbx/src/dxtbx/command_line/install_format.py"), @@ -44065,7 +44102,6 @@ relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/dxtbx.saturation"): relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../dxtbx/src/dxtbx/command_line/saturation.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/dev.dxtbx.read_sequence"): relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../dxtbx/src/dxtbx/command_line/read_sequence.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/dxtbx.radial_average"): relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../dxtbx/src/dxtbx/command_line/radial_average.py"), - relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/dxtbx.print_matching_images"): relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../dxtbx/src/dxtbx/command_line/print_matching_images.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/phenix.emma"): relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../iotbx/command_line/emma.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/iotbx.emma"): relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../iotbx/command_line/emma.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/phenix.resolution"): relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../iotbx/command_line/effective_resolution.py"), @@ -44202,6 +44238,7 @@ relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/iotbx.file_reader"): relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../iotbx/command_line/file_reader.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/iotbx.export_scalepack_unmerged"): relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../iotbx/command_line/export_scalepack_unmerged.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/phenix.explore_metric_symmetry"): relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../iotbx/command_line/explore_metric_symmetry.py"), + relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.assert_stdin_contains_strings"): relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/assert_stdin_contains_strings.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.assert_stdin_does_not_contain_strings"): relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/assert_stdin_contains_strings.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.assert_stdin"): relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/assert_stdin.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.assert_not_show_diff"): relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/assert_not_show_diff.py"), @@ -44326,7 +44363,6 @@ relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.bibtex"): relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/bibtex.sh"), relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.bash"): relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/bash.sh"), relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.assert_stdin_ends_with"): relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/assert_stdin_ends_with.py"), - relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.assert_stdin_contains_strings"): relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/assert_stdin_contains_strings.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.python"): relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="/usr/bin/python3.13"), relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.wait_for_file"): relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/wait_for_file.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.valgrind"): relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/valgrind.sh"), @@ -44369,7 +44405,7 @@ relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.resource_monitor_plot"): relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/resource_monitor_plot.py")}, 'bin_path': relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin"), 'boost_version': 108300, - 'build_options': , + 'build_options': , 'build_path': absolute_path("/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13"), 'command_line_redirections': {}, 'command_version_suffix': None, @@ -44406,30 +44442,30 @@ 'lib_path': relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="lib"), 'missing_for_build': set(), 'missing_for_use': set(), - 'missing_optional': {'king', 'cbflib', 'docutils', 'reduce', 'probe'}, - 'module_dict': {'annlib': , - 'boost': , - 'cbflib': , - 'ccp4io': , - 'cctbx': , - 'chiltbx': , - 'cma_es': , - 'crys3d': , - 'dxtbx': , - 'fable': , - 'gltbx': , - 'iotbx': , - 'libtbx': , - 'mmtbx': , - 'omptbx': , - 'rstbx': , - 'scitbx': , - 'serialtbx': , - 'smtbx': , - 'spotfinder': , - 'tbxx': , - 'ucif': , - 'wxtbx': }, + 'missing_optional': {'cbflib', 'reduce', 'king', 'probe', 'docutils'}, + 'module_dict': {'annlib': , + 'boost': , + 'cbflib': , + 'ccp4io': , + 'cctbx': , + 'chiltbx': , + 'cma_es': , + 'crys3d': , + 'dxtbx': , + 'fable': , + 'gltbx': , + 'iotbx': , + 'libtbx': , + 'mmtbx': , + 'omptbx': , + 'rstbx': , + 'scitbx': , + 'serialtbx': , + 'smtbx': , + 'spotfinder': , + 'tbxx': , + 'ucif': , + 'wxtbx': }, 'module_dist_paths': {'annlib': relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../annlib"), 'annlib_adaptbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../annlib_adaptbx"), 'boost': relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../boost"), @@ -44456,29 +44492,29 @@ 'tbxx': relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../tbxx"), 'ucif': relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../ucif"), 'wxtbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../wxtbx")}, - 'module_list': [, - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - ], + 'module_list': [, + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + ], 'no_bin_python': False, 'path_utility': relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/path_utility.py"), 'python_exe': relocatable_path(anchor="/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="/usr/bin/python3.13"), @@ -44580,6 +44616,7 @@ relocatable_path(anchor="/usr", relocatable="bin/iotbx.mtz.dump"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/iotbx/command_line/mtz.dump.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.pdb.mtrix_reconstruction"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/iotbx/command_line/mtrix_reconstruction.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.merging_statistics"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/iotbx/command_line/merging_statistics.py"), + relocatable_path(anchor="/usr", relocatable="bin/cma_es.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.13"), relocatable_path(anchor="/usr", relocatable="bin/fable.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.13"), relocatable_path(anchor="/usr", relocatable="bin/scitbx.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.13"), relocatable_path(anchor="/usr", relocatable="bin/annlib.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.13"), @@ -44714,7 +44751,6 @@ relocatable_path(anchor="/usr", relocatable="bin/dxtbx.any2nexus"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/dxtbx/src/dxtbx/command_line/any2nexus.py"), relocatable_path(anchor="/usr", relocatable="bin/boost.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.13"), relocatable_path(anchor="/usr", relocatable="bin/omptbx.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.13"), - relocatable_path(anchor="/usr", relocatable="bin/cma_es.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.13"), relocatable_path(anchor="/usr", relocatable="bin/mmtbx.reduce2"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/reduce2.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.reciprocal_space_arrays"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/reciprocal_space_arrays.py"), relocatable_path(anchor="/usr", relocatable="bin/mmtbx.rebuild_rotarama_cache"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/rebuild_rotarama_cache.py"), @@ -44872,6 +44908,7 @@ relocatable_path(anchor="/usr", relocatable="bin/mmtbx.ribbons"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/ribbons.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.remove_outliers"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/remove_outliers.py"), relocatable_path(anchor="/usr", relocatable="bin/mmtbx.refine_anomalous_substructure"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/refine_anomalous_substructure.py"), + relocatable_path(anchor="/usr", relocatable="bin/libtbx.latex"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/latex.sh"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.install_conda"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/install_conda.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.install"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/install.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.import_all_python"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/import_all_python.py"), @@ -45006,13 +45043,12 @@ relocatable_path(anchor="/usr", relocatable="bin/libtbx.list_modules"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/list_modules.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.list_files"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/list_files.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.line_count"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/line_count.py"), - relocatable_path(anchor="/usr", relocatable="bin/libtbx.latex"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/latex.sh"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.13"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.wait_for_file"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/wait_for_file.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.valgrind"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/valgrind.sh")}, 'bin_path': relocatable_path(anchor="/usr", relocatable="bin"), 'boost_version': 108300, - 'build_options': , + 'build_options': , 'build_path': absolute_path("/usr/lib/cctbx/python3.13"), 'command_line_redirections': {}, 'command_version_suffix': None, @@ -45049,30 +45085,30 @@ 'lib_path': relocatable_path(anchor="/usr", relocatable="lib"), 'missing_for_build': set(), 'missing_for_use': set(), - 'missing_optional': {'king', 'cbflib', 'docutils', 'reduce', 'probe'}, - 'module_dict': {'annlib': , - 'boost': , - 'cbflib': , - 'ccp4io': , - 'cctbx': , - 'chiltbx': , - 'cma_es': , - 'crys3d': , - 'dxtbx': , - 'fable': , - 'gltbx': , - 'iotbx': , - 'libtbx': , - 'mmtbx': , - 'omptbx': , - 'rstbx': , - 'scitbx': , - 'serialtbx': , - 'smtbx': , - 'spotfinder': , - 'tbxx': , - 'ucif': , - 'wxtbx': }, + 'missing_optional': {'cbflib', 'reduce', 'king', 'probe', 'docutils'}, + 'module_dict': {'annlib': , + 'boost': , + 'cbflib': , + 'ccp4io': , + 'cctbx': , + 'chiltbx': , + 'cma_es': , + 'crys3d': , + 'dxtbx': , + 'fable': , + 'gltbx': , + 'iotbx': , + 'libtbx': , + 'mmtbx': , + 'omptbx': , + 'rstbx': , + 'scitbx': , + 'serialtbx': , + 'smtbx': , + 'spotfinder': , + 'tbxx': , + 'ucif': , + 'wxtbx': }, 'module_dist_paths': {'annlib': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/annlib"), 'annlib_adaptbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/annlib_adaptbx"), 'boost': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/boost"), @@ -45099,29 +45135,29 @@ 'tbxx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/tbxx"), 'ucif': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/ucif"), 'wxtbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/wxtbx")}, - 'module_list': [, - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - ], + 'module_list': [, + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + ], 'no_bin_python': True, 'path_utility': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/path_utility.py"), 'python_exe': relocatable_path(anchor="/usr", relocatable="bin/python3.13"), @@ -45176,7 +45212,7 @@ smtbx/refinement/constraints/tests/tst_reparametrisation smtbx/refinement/constraints/tests/tst_special_position -sent 17,025,779 bytes received 568 bytes 34,052,694.00 bytes/sec +sent 17,025,745 bytes received 568 bytes 34,052,626.00 bytes/sec total size is 17,014,008 speedup is 1.00 building file list ... done ./ @@ -45238,7 +45274,7 @@ libspotfinder.so.0 -> libspotfinder.so.0.0.1 libspotfinder.so.0.0.1 -sent 58,271,031 bytes received 494 bytes 116,543,050.00 bytes/sec +sent 58,270,997 bytes received 494 bytes 38,847,660.67 bytes/sec total size is 58,254,474 speedup is 1.00 building file list ... done annlib_adaptbx/ @@ -45284,7 +45320,7 @@ cbflib_adaptbx/detectors/boost_python/cbf_binary_adaptor.h cbflib_adaptbx/detectors/boost_python/general_cbf_write.h -sent 22,316 bytes received 158 bytes 44,948.00 bytes/sec +sent 22,314 bytes received 158 bytes 44,944.00 bytes/sec total size is 21,627 speedup is 0.96 building file list ... done ccp4io_adaptbx/ @@ -45566,7 +45602,7 @@ cctbx/xray/targets/mli.h cctbx/xray/targets/shelxl_wght_ls.hpp -sent 1,904,545 bytes received 4,420 bytes 3,817,930.00 bytes/sec +sent 1,904,566 bytes received 4,420 bytes 3,817,972.00 bytes/sec total size is 1,887,892 speedup is 0.99 building file list ... done cma_es/ @@ -45620,7 +45656,7 @@ dxtbx/model/boost_python/pickle_suite.h dxtbx/model/boost_python/to_from_dict.h -sent 393,408 bytes received 610 bytes 788,036.00 bytes/sec +sent 393,407 bytes received 610 bytes 788,034.00 bytes/sec total size is 390,975 speedup is 0.99 building file list ... done ./ @@ -45674,7 +45710,7 @@ fem/utils/string_to_double_fmt.hpp fem/utils/token.hpp -sent 203,944 bytes received 918 bytes 409,724.00 bytes/sec +sent 203,950 bytes received 918 bytes 409,736.00 bytes/sec total size is 200,764 speedup is 0.98 building file list ... done gltbx/ @@ -45688,7 +45724,7 @@ gltbx/special_wrapper_support.h gltbx/util.h -sent 598,786 bytes received 190 bytes 1,197,952.00 bytes/sec +sent 598,790 bytes received 190 bytes 1,197,960.00 bytes/sec total size is 597,954 speedup is 1.00 building file list ... done iotbx/ @@ -45731,11 +45767,11 @@ iotbx/xplor/map_reader.h iotbx/xplor/map_writer.h -sent 270,332 bytes received 629 bytes 541,922.00 bytes/sec +sent 270,330 bytes received 629 bytes 541,918.00 bytes/sec total size is 267,526 speedup is 0.99 building file list ... done -sent 457 bytes received 12 bytes 938.00 bytes/sec +sent 485 bytes received 12 bytes 994.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done mmtbx/ @@ -46195,7 +46231,7 @@ scitbx/wigner/ scitbx/wigner/wigner3j.h -sent 1,905,857 bytes received 5,521 bytes 3,822,756.00 bytes/sec +sent 1,905,869 bytes received 5,521 bytes 1,274,260.00 bytes/sec total size is 1,886,121 speedup is 0.99 building file list ... done @@ -46235,7 +46271,7 @@ smtbx/structure_factors/direct/standard_xray.h smtbx/structure_factors/direct/table_based.h -sent 182,117 bytes received 512 bytes 365,258.00 bytes/sec +sent 182,137 bytes received 512 bytes 365,298.00 bytes/sec total size is 179,686 speedup is 0.98 building file list ... done spotfinder/ @@ -46278,6 +46314,7 @@ cctbx/ cctbx/boost_python/ cctbx/boost_python/flex_fwd.h +scitbx/ scitbx/lbfgs_fem.hpp scitbx/array_family/ scitbx/array_family/operator_traits_builtin.h @@ -46304,10 +46341,11 @@ scitbx/array_family/detail/ scitbx/array_family/detail/operator_functors.h scitbx/array_family/detail/std_imports.h +smtbx/ smtbx/boost_python/ smtbx/boost_python/flex_fwd.h -sent 347,307 bytes received 534 bytes 695,682.00 bytes/sec +sent 347,284 bytes received 540 bytes 695,648.00 bytes/sec total size is 345,070 speedup is 0.99 building file list ... done @@ -46317,14 +46355,14 @@ boost_adaptbx/ boost_adaptbx/command_line/ -sent 517 bytes received 22 bytes 1,078.00 bytes/sec -total size is 6,883 speedup is 12.77 +sent 554 bytes received 55 bytes 1,218.00 bytes/sec +total size is 6,883 speedup is 11.30 building file list ... done cbflib_adaptbx/ cbflib_adaptbx/command_line/ -sent 234 bytes received 22 bytes 512.00 bytes/sec -total size is 1,215 speedup is 4.75 +sent 238 bytes received 28 bytes 532.00 bytes/sec +total size is 1,215 speedup is 4.57 building file list ... done sent 149 bytes received 12 bytes 322.00 bytes/sec @@ -46334,8 +46372,8 @@ cctbx/command_line/ cctbx/command_line/web.install.csh -sent 3,003 bytes received 41 bytes 6,088.00 bytes/sec -total size is 39,666 speedup is 13.03 +sent 3,084 bytes received 101 bytes 6,370.00 bytes/sec +total size is 39,666 speedup is 12.45 building file list ... done sent 87 bytes received 12 bytes 198.00 bytes/sec @@ -46344,32 +46382,32 @@ crys3d/ crys3d/command_line/ -sent 468 bytes received 22 bytes 980.00 bytes/sec -total size is 31,515 speedup is 64.32 +sent 498 bytes received 52 bytes 1,100.00 bytes/sec +total size is 31,515 speedup is 57.30 building file list ... done dxtbx/ dxtbx/command_line/ -sent 865 bytes received 22 bytes 1,774.00 bytes/sec -total size is 82,029 speedup is 92.48 +sent 924 bytes received 82 bytes 2,012.00 bytes/sec +total size is 82,029 speedup is 81.54 building file list ... done fable/ fable/command_line/ -sent 452 bytes received 22 bytes 948.00 bytes/sec -total size is 15,542 speedup is 32.79 +sent 479 bytes received 43 bytes 1,044.00 bytes/sec +total size is 15,542 speedup is 29.77 building file list ... done gltbx/ gltbx/command_line/ -sent 177 bytes received 22 bytes 398.00 bytes/sec -total size is 606 speedup is 3.05 +sent 195 bytes received 28 bytes 446.00 bytes/sec +total size is 606 speedup is 2.72 building file list ... done iotbx/ iotbx/command_line/ -sent 2,618 bytes received 22 bytes 5,280.00 bytes/sec -total size is 240,961 speedup is 91.27 +sent 2,838 bytes received 244 bytes 6,164.00 bytes/sec +total size is 240,961 speedup is 78.18 building file list ... done libtbx/ libtbx/command_line/ @@ -46390,8 +46428,8 @@ libtbx/command_line/unpack_in_sources.csh libtbx/command_line/valgrind.sh -sent 6,895 bytes received 329 bytes 14,448.00 bytes/sec -total size is 175,315 speedup is 24.27 +sent 7,204 bytes received 614 bytes 15,636.00 bytes/sec +total size is 175,315 speedup is 22.42 building file list ... done mmtbx/ mmtbx/command_line/ @@ -46399,8 +46437,8 @@ mmtbx/regression/command_line/ mmtbx/regression/command_line/tst_find_residue_in_pdb.py -sent 4,678 bytes received 47 bytes 9,450.00 bytes/sec -total size is 709,467 speedup is 150.15 +sent 5,044 bytes received 413 bytes 10,914.00 bytes/sec +total size is 709,467 speedup is 130.01 building file list ... done sent 76 bytes received 12 bytes 176.00 bytes/sec @@ -46409,8 +46447,8 @@ rstbx/ rstbx/command_line/ -sent 755 bytes received 22 bytes 1,554.00 bytes/sec -total size is 11,108 speedup is 14.30 +sent 782 bytes received 49 bytes 1,662.00 bytes/sec +total size is 11,108 speedup is 13.37 building file list ... done scitbx/ scitbx/command_line/ @@ -46421,7 +46459,7 @@ scitbx/command_line/show_sizes.py scitbx/command_line/unicode_examples.py -sent 11,675 bytes received 136 bytes 23,622.00 bytes/sec +sent 11,703 bytes received 136 bytes 23,678.00 bytes/sec total size is 9,958 speedup is 0.84 building file list ... done @@ -46431,14 +46469,14 @@ smtbx/ smtbx/command_line/ -sent 872 bytes received 22 bytes 1,788.00 bytes/sec -total size is 37,436 speedup is 41.87 +sent 910 bytes received 40 bytes 1,900.00 bytes/sec +total size is 37,436 speedup is 39.41 building file list ... done spotfinder/ spotfinder/command_line/ -sent 518 bytes received 22 bytes 1,080.00 bytes/sec -total size is 22,750 speedup is 42.13 +sent 543 bytes received 43 bytes 1,172.00 bytes/sec +total size is 22,750 speedup is 38.82 building file list ... done sent 87 bytes received 12 bytes 198.00 bytes/sec @@ -46447,8 +46485,8 @@ wxtbx/ wxtbx/command_line/ -sent 449 bytes received 22 bytes 942.00 bytes/sec -total size is 16,078 speedup is 34.14 +sent 489 bytes received 58 bytes 1,094.00 bytes/sec +total size is 16,078 speedup is 29.39 building file list ... done sent 256 bytes received 12 bytes 536.00 bytes/sec @@ -46484,13 +46522,13 @@ boost_adaptbx/tests/tst_swig_args.py boost_adaptbx/tests/tst_tuple.py -sent 91,616 bytes received 515 bytes 184,262.00 bytes/sec +sent 91,620 bytes received 515 bytes 184,270.00 bytes/sec total size is 89,657 speedup is 0.97 building file list ... done cbflib_adaptbx/detectors/ cbflib_adaptbx/detectors/tst_memory.cpp -sent 1,213 bytes received 34 bytes 2,494.00 bytes/sec +sent 1,211 bytes received 34 bytes 2,490.00 bytes/sec total size is 967 speedup is 0.78 building file list ... done ccp4io_adaptbx/ @@ -46590,21 +46628,21 @@ cctbx/xray/observations/ cctbx/xray/targets/ -sent 454,344 bytes received 939 bytes 910,566.00 bytes/sec -total size is 2,071,527 speedup is 4.55 +sent 454,736 bytes received 1,314 bytes 912,100.00 bytes/sec +total size is 2,071,527 speedup is 4.54 building file list ... done cma_es/ -sent 118 bytes received 19 bytes 274.00 bytes/sec -total size is 3,008 speedup is 21.96 +sent 121 bytes received 22 bytes 286.00 bytes/sec +total size is 3,008 speedup is 21.03 building file list ... done crys3d/regression/ -sent 355 bytes received 15 bytes 740.00 bytes/sec -total size is 41,841 speedup is 113.08 +sent 373 bytes received 33 bytes 812.00 bytes/sec +total size is 41,841 speedup is 103.06 building file list ... done -sent 676 bytes received 12 bytes 1,376.00 bytes/sec +sent 691 bytes received 12 bytes 468.67 bytes/sec total size is 0 speedup is 0.00 building file list ... done fable/test/ @@ -46613,12 +46651,12 @@ fable/test/tst_separate_files.py fable/test/tst_show_calls.py -sent 12,848 bytes received 91 bytes 25,878.00 bytes/sec -total size is 151,869 speedup is 11.74 +sent 12,865 bytes received 106 bytes 25,942.00 bytes/sec +total size is 151,869 speedup is 11.71 building file list ... done -sent 206 bytes received 12 bytes 436.00 bytes/sec -total size is 8,108 speedup is 37.19 +sent 222 bytes received 24 bytes 492.00 bytes/sec +total size is 8,108 speedup is 32.96 building file list ... done iotbx/bioinformatics/ iotbx/bioinformatics/test/ @@ -46667,14 +46705,14 @@ iotbx/xds/tests/tst_xparm.py iotbx/xplor/ -sent 273,024 bytes received 522 bytes 547,092.00 bytes/sec -total size is 2,423,412 speedup is 8.86 +sent 273,433 bytes received 933 bytes 548,732.00 bytes/sec +total size is 2,423,412 speedup is 8.83 building file list ... done libtbx/phil/ libtbx/queuing_system_utils/ -sent 1,111 bytes received 18 bytes 2,258.00 bytes/sec -total size is 252,704 speedup is 223.83 +sent 1,217 bytes received 108 bytes 2,650.00 bytes/sec +total size is 252,704 speedup is 190.72 building file list ... done mmtbx/atomic_environment_vectors/ mmtbx/building/ @@ -46767,13 +46805,13 @@ mmtbx/validation/regression/ mmtbx/wwpdb/ -sent 799,215 bytes received 930 bytes 1,600,290.00 bytes/sec -total size is 7,290,260 speedup is 9.11 +sent 800,316 bytes received 2,031 bytes 1,604,694.00 bytes/sec +total size is 7,290,260 speedup is 9.09 building file list ... done omptbx/ -sent 97 bytes received 19 bytes 232.00 bytes/sec -total size is 1,175 speedup is 10.13 +sent 100 bytes received 22 bytes 244.00 bytes/sec +total size is 1,175 speedup is 9.63 building file list ... done rstbx/bpcx/ rstbx/bpcx/detector_model/ @@ -46787,8 +46825,8 @@ rstbx/sublattice_support/ rstbx/viewer/ -sent 1,007 bytes received 45 bytes 2,104.00 bytes/sec -total size is 179,407 speedup is 170.54 +sent 1,049 bytes received 87 bytes 2,272.00 bytes/sec +total size is 179,407 speedup is 157.93 building file list ... done scitbx/array_family/ scitbx/array_family/tst_accessors.cpp @@ -46895,8 +46933,8 @@ scitbx/tests/tst_smoothing.py scitbx/wigner/ -sent 678,029 bytes received 1,368 bytes 1,358,794.00 bytes/sec -total size is 1,111,401 speedup is 1.64 +sent 678,243 bytes received 1,566 bytes 1,359,618.00 bytes/sec +total size is 1,111,401 speedup is 1.63 building file list ... done sent 152 bytes received 12 bytes 328.00 bytes/sec @@ -46932,7 +46970,7 @@ smtbx/tests/ smtbx/tests/tst_utils.py -sent 144,547 bytes received 291 bytes 289,676.00 bytes/sec +sent 144,595 bytes received 327 bytes 289,844.00 bytes/sec total size is 248,243 speedup is 1.71 building file list ... done spotfinder/core_toolbox/ @@ -46946,7 +46984,7 @@ tbxx/tests/ tbxx/tests/tst_pretty_type_name.cpp -sent 495 bytes received 41 bytes 1,072.00 bytes/sec +sent 499 bytes received 41 bytes 1,080.00 bytes/sec total size is 323 speedup is 0.60 building file list ... done wxtbx/regression/ @@ -47430,7 +47468,7 @@ smtbx/regression/test_data/thpp.hkl smtbx/regression/test_data/thpp.ins -sent 5,014,754 bytes received 8,866 bytes 3,349,080.00 bytes/sec +sent 5,015,686 bytes received 8,866 bytes 3,349,701.33 bytes/sec total size is 4,956,934 speedup is 0.99 make[1]: Leaving directory '/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1' dh_install -O--buildsystem=pybuild @@ -47452,12 +47490,12 @@ install -m0755 -d debian/python3-cctbx/usr/share/doc/python3-cctbx install -p -m0644 debian/copyright debian/python3-cctbx/usr/share/doc/python3-cctbx/copyright dh_installchangelogs -O--buildsystem=pybuild - install -m0755 -d debian/python3-cctbx/usr/share/doc/python3-cctbx - install -p -m0644 debian/.debhelper/generated/python3-cctbx/dh_installchangelogs.dch.trimmed debian/python3-cctbx/usr/share/doc/python3-cctbx/changelog.Debian - install -p -m0644 ./CHANGELOG.rst debian/python3-cctbx/usr/share/doc/python3-cctbx/changelog install -m0755 -d debian/libcctbx0/usr/share/doc/libcctbx0 install -p -m0644 debian/.debhelper/generated/libcctbx0/dh_installchangelogs.dch.trimmed debian/libcctbx0/usr/share/doc/libcctbx0/changelog.Debian install -p -m0644 ./CHANGELOG.rst debian/libcctbx0/usr/share/doc/libcctbx0/changelog + install -m0755 -d debian/python3-cctbx/usr/share/doc/python3-cctbx + install -p -m0644 debian/.debhelper/generated/python3-cctbx/dh_installchangelogs.dch.trimmed debian/python3-cctbx/usr/share/doc/python3-cctbx/changelog.Debian + install -p -m0644 ./CHANGELOG.rst debian/python3-cctbx/usr/share/doc/python3-cctbx/changelog install -m0755 -d debian/libcctbx-dev/usr/share/doc/libcctbx-dev install -p -m0644 debian/.debhelper/generated/libcctbx-dev/dh_installchangelogs.dch.trimmed debian/libcctbx-dev/usr/share/doc/libcctbx-dev/changelog.Debian install -p -m0644 ./CHANGELOG.rst debian/libcctbx-dev/usr/share/doc/libcctbx-dev/changelog @@ -48160,7 +48198,7 @@ D: dh_python3 tools:101: fix_shebang (debian/python3-cctbx/usr/bin/annlib.show_dist_paths): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:101: fix_shebang (debian/python3-cctbx/usr/bin/annlib.show_build_path): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:101: fix_shebang (debian/python3-cctbx/usr/bin/annlib.python): doesn't look like a shebang: #! /bin/sh -D: dh_python3 fs:338: package python3-cctbx details = {'requires.txt': {'debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx-2023.12.egg-info/requires.txt'}, 'egg-info': {'debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx-3.22.0.egg-info/PKG-INFO', 'debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx-2023.12.egg-info/PKG-INFO'}, 'dist-info': set(), 'nsp.txt': set(), 'shebangs': set(), 'public_vers': {Version('3')}, 'private_dirs': {}, 'compile': True, 'ext_vers': {Version('3.13')}, 'ext_no_version': set()} +D: dh_python3 fs:338: package python3-cctbx details = {'requires.txt': {'debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx-2023.12.egg-info/requires.txt'}, 'egg-info': {'debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx-2023.12.egg-info/PKG-INFO', 'debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx-3.22.0.egg-info/PKG-INFO'}, 'dist-info': set(), 'nsp.txt': set(), 'shebangs': set(), 'public_vers': {Version('3')}, 'private_dirs': {}, 'compile': True, 'ext_vers': {Version('3.13')}, 'ext_no_version': set()} D: dh_python3 depends:103: generating dependencies for package python3-cctbx D: dh_python3 pydist:175: trying to find dependency for PIL (python=None) D: dh_python3 pydist:209: dependency: module seems to be installed @@ -48213,7 +48251,7 @@ D: dh_python3 pydist:175: trying to find dependency for wxPython (python=None) D: dh_python3 pydist:209: dependency: module seems to be installed D: dh_python3 pydist:284: dependency: included in build-deps -D: dh_python3 depends:253: D={'python3:any', 'python3-scipy', 'python3-six', 'python3-ordered-set', 'python3-wxgtk4.0', 'python3-matplotlib', 'python3-requests', 'python3-procrunner', 'python3-natsort', 'python3 (>= 3.13~)', 'python3-hdf5plugin', 'python3 (<< 3.14)', 'python3-pint', 'python3-tqdm', 'python3-pil', 'python3-pymol', 'python3-numpy', 'python3-h5py (>= 3)', 'python3-nxmx', 'python3-mrcfile'}; R=[]; S=[]; E=[], B=[]; RT=[] +D: dh_python3 depends:253: D={'python3-pymol', 'python3 (<< 3.14)', 'python3-nxmx', 'python3-numpy', 'python3-pint', 'python3-procrunner', 'python3-six', 'python3 (>= 3.13~)', 'python3:any', 'python3-natsort', 'python3-wxgtk4.0', 'python3-hdf5plugin', 'python3-mrcfile', 'python3-scipy', 'python3-requests', 'python3-pil', 'python3-matplotlib', 'python3-ordered-set', 'python3-tqdm', 'python3-h5py (>= 3)'}; R=[]; S=[]; E=[], B=[]; RT=[] dh_installsystemduser -O--buildsystem=pybuild dh_lintian -O--buildsystem=pybuild install -m0755 -d debian/python3-cctbx/usr/share/lintian/overrides @@ -48272,15 +48310,15 @@ Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx/bioinformatics/test/ebi_blast.xml.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx/bioinformatics/test/ncbi_blast.xml.gz using File::StripNondeterminism::handlers::gzip dh_compress -O--buildsystem=pybuild - cd debian/libcctbx-dev cd debian/libcctbx0 + cd debian/libcctbx-dev cd debian/python3-cctbx chmod a-x usr/share/doc/libcctbx-dev/changelog usr/share/doc/libcctbx-dev/changelog.Debian chmod a-x usr/share/doc/python3-cctbx/changelog usr/share/doc/python3-cctbx/changelog.Debian - chmod a-x usr/share/doc/libcctbx0/changelog usr/share/doc/libcctbx0/changelog.Debian gzip -9nf usr/share/doc/libcctbx-dev/changelog usr/share/doc/libcctbx-dev/changelog.Debian - gzip -9nf usr/share/doc/libcctbx0/changelog usr/share/doc/libcctbx0/changelog.Debian + chmod a-x usr/share/doc/libcctbx0/changelog usr/share/doc/libcctbx0/changelog.Debian gzip -9nf usr/share/doc/python3-cctbx/changelog usr/share/doc/python3-cctbx/changelog.Debian + gzip -9nf usr/share/doc/libcctbx0/changelog usr/share/doc/libcctbx0/changelog.Debian cd '/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1' cd '/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1' cd '/build/reproducible-path/cctbx-2024.10+ds2+~3.22.1+ds1' @@ -48289,16 +48327,16 @@ find debian/libcctbx-dev ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/python3-cctbx ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/libcctbx0/usr/share/doc -type f -a -true -a ! -regex 'debian/libcctbx0/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 - find debian/libcctbx0/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/libcctbx-dev/usr/share/doc -type f -a -true -a ! -regex 'debian/libcctbx-dev/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 - find debian/libcctbx0 -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 + find debian/libcctbx0/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/libcctbx-dev/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 - find debian/libcctbx0/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w + find debian/libcctbx0 -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/libcctbx-dev/usr/include -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 + find debian/libcctbx0/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w find debian/libcctbx-dev -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 - find debian/libcctbx-dev/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w find debian/python3-cctbx/usr/share/doc -type f -a -true -a ! -regex 'debian/python3-cctbx/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-cctbx/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 + find debian/libcctbx-dev/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w find debian/python3-cctbx/usr/share/lintian/overrides -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-cctbx -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-cctbx/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x @@ -48314,15 +48352,10 @@ objcopy --compress-debug-sections debian/python3-cctbx/usr/lib/debug/.dwz/aarch64-linux-gnu/python3-cctbx.debug chmod 0644 -- debian/python3-cctbx/usr/lib/debug/.dwz/aarch64-linux-gnu/python3-cctbx.debug dh_strip -a -O--buildsystem=pybuild - install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/6b - objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcctbx.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/6b/289ea76e9f782241c34404c18d3b94f16fda4e.debug - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c1 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c1/0a4b4e35078f108a94b8140dda59ef46e84ac4.debug - chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/6b/289ea76e9f782241c34404c18d3b94f16fda4e.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcctbx.so.0.0.1 - objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/6b/289ea76e9f782241c34404c18d3b94f16fda4e.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcctbx.so.0.0.1 install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/42 objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libsmtbx_refinement_constraints.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/42/64c8e07d9871e378ab34c47c18839f95a69671.debug + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c1 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c1/0a4b4e35078f108a94b8140dda59ef46e84ac4.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/42/64c8e07d9871e378ab34c47c18839f95a69671.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libsmtbx_refinement_constraints.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/42/64c8e07d9871e378ab34c47c18839f95a69671.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libsmtbx_refinement_constraints.so.0.0.1 @@ -48331,6 +48364,11 @@ chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/fd/a883199416af149e1aaa7975ece3e1b3fd9295.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_pdb.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/fd/a883199416af149e1aaa7975ece3e1b3fd9295.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_pdb.so.0.0.1 + install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/6b + objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcctbx.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/6b/289ea76e9f782241c34404c18d3b94f16fda4e.debug + chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/6b/289ea76e9f782241c34404c18d3b94f16fda4e.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcctbx.so.0.0.1 + objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/6b/289ea76e9f782241c34404c18d3b94f16fda4e.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcctbx.so.0.0.1 install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/ab objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libspotfinder.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/ab/ca4d83f5d5de06af44756ef0f593fc6237f78f.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/ab/ca4d83f5d5de06af44756ef0f593fc6237f78f.debug @@ -48366,33 +48404,33 @@ chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/34/b03649fede805483cc75f4a984a97ce1a3ee30.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/34/b03649fede805483cc75f4a984a97ce1a3ee30.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 - install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/0b - objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libasymmetric_map.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/0b/a78004a69cf2993ce6cddc0436c51d733892e6.debug - chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/0b/a78004a69cf2993ce6cddc0436c51d733892e6.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libasymmetric_map.so.0.0.1 - objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/0b/a78004a69cf2993ce6cddc0436c51d733892e6.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libasymmetric_map.so.0.0.1 install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/90 objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libomptbx.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/90/5b91f8463a62c4fe11cf2da681facf0932a22c.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/90/5b91f8463a62c4fe11cf2da681facf0932a22c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libomptbx.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/90/5b91f8463a62c4fe11cf2da681facf0932a22c.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libomptbx.so.0.0.1 + install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/0b + objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libasymmetric_map.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/0b/a78004a69cf2993ce6cddc0436c51d733892e6.debug + chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/0b/a78004a69cf2993ce6cddc0436c51d733892e6.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libasymmetric_map.so.0.0.1 + objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/0b/a78004a69cf2993ce6cddc0436c51d733892e6.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libasymmetric_map.so.0.0.1 install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/35 objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libmmtbx_tls.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/35/756d71727faedf77afeaf0e9271d000569194e.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/35/756d71727faedf77afeaf0e9271d000569194e.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libmmtbx_tls.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/35/756d71727faedf77afeaf0e9271d000569194e.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libmmtbx_tls.so.0.0.1 - install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/12 - objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_mtz.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/12/472d59ebbf9c5be284a69b1dece9ce88bdb77c.debug - chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/12/472d59ebbf9c5be284a69b1dece9ce88bdb77c.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_mtz.so.0.0.1 - objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/12/472d59ebbf9c5be284a69b1dece9ce88bdb77c.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_mtz.so.0.0.1 - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c1/0a4b4e35078f108a94b8140dda59ef46e84ac4.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/07 objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_xplor.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/07/673b131df3a66c874d3e2a1670bee8b27d0e4b.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/07/673b131df3a66c874d3e2a1670bee8b27d0e4b.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_xplor.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/07/673b131df3a66c874d3e2a1670bee8b27d0e4b.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_xplor.so.0.0.1 + install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/12 + objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_mtz.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/12/472d59ebbf9c5be284a69b1dece9ce88bdb77c.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c1/0a4b4e35078f108a94b8140dda59ef46e84ac4.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so + chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/12/472d59ebbf9c5be284a69b1dece9ce88bdb77c.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_mtz.so.0.0.1 + objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/12/472d59ebbf9c5be284a69b1dece9ce88bdb77c.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_mtz.so.0.0.1 install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/c1 objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libdxtbxspotfinder.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/c1/b0e7a7236f83e75eaa197e16060e1d151d9c9b.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/c1/b0e7a7236f83e75eaa197e16060e1d151d9c9b.debug @@ -48436,16 +48474,16 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52/c59e3f0dfbd6869f6588abcbb9aef807ccbf06.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52/c59e3f0dfbd6869f6588abcbb9aef807ccbf06.debug debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bf - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bf/fce3bfa7b368a6028781c50c00baae10019265.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bf/fce3bfa7b368a6028781c50c00baae10019265.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bf/fce3bfa7b368a6028781c50c00baae10019265.debug debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/74 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/74/c33a8963eba576d3b07fa3b182282979048844.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/74/c33a8963eba576d3b07fa3b182282979048844.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/74/c33a8963eba576d3b07fa3b182282979048844.debug debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bf + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bf/fce3bfa7b368a6028781c50c00baae10019265.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bf/fce3bfa7b368a6028781c50c00baae10019265.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bf/fce3bfa7b368a6028781c50c00baae10019265.debug debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/bc3d12995040e65df20b9cfa8e16e19d2390c2.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/bc3d12995040e65df20b9cfa8e16e19d2390c2.debug @@ -48476,11 +48514,6 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7c/b15fdc66143966162baeacedfb84ab5f6a3612.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7c/b15fdc66143966162baeacedfb84ab5f6a3612.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/14 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/14/021c17e92b0b6c39777939e17f6c1b942198c1.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/14/021c17e92b0b6c39777939e17f6c1b942198c1.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/14/021c17e92b0b6c39777939e17f6c1b942198c1.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17/225ea9dd664b59913aac1db4ad5f28a09722f4.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17/225ea9dd664b59913aac1db4ad5f28a09722f4.debug @@ -48491,6 +48524,11 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/98/9e2f1522c68f2f929e3ff697de102a76a568d6.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/98/9e2f1522c68f2f929e3ff697de102a76a568d6.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/14 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/14/021c17e92b0b6c39777939e17f6c1b942198c1.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/14/021c17e92b0b6c39777939e17f6c1b942198c1.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/14/021c17e92b0b6c39777939e17f6c1b942198c1.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c2 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c2/9b0038a53be656b3dcf0a1bc5388d8dfe1273c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c2/9b0038a53be656b3dcf0a1bc5388d8dfe1273c.debug @@ -48501,16 +48539,16 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ab/7ffe35302c121d6d4e8056a5d0dd0210c4baec.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ab/7ffe35302c121d6d4e8056a5d0dd0210c4baec.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e/f2a076c90c35077fc66936cf72c9f5ff4733b4.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e/f2a076c90c35077fc66936cf72c9f5ff4733b4.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e/f2a076c90c35077fc66936cf72c9f5ff4733b4.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d7 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d7/25cea31bda75ed0bf448f1e9042bd554b6c50c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d7/25cea31bda75ed0bf448f1e9042bd554b6c50c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d7/25cea31bda75ed0bf448f1e9042bd554b6c50c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e/f2a076c90c35077fc66936cf72c9f5ff4733b4.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e/f2a076c90c35077fc66936cf72c9f5ff4733b4.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e/f2a076c90c35077fc66936cf72c9f5ff4733b4.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/9a0194a95f90dfc52d17908c9dc7334286dc36.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/9a0194a95f90dfc52d17908c9dc7334286dc36.debug @@ -48536,16 +48574,21 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b/77690137d59d5c75a55c3d0dc97b435f8b98df.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b/77690137d59d5c75a55c3d0dc97b435f8b98df.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bf - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bf/cbc17da1f9056026c065f863b28b99d2be9408.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bf/cbc17da1f9056026c065f863b28b99d2be9408.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bf/cbc17da1f9056026c065f863b28b99d2be9408.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e3 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_r3_utils_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e3/42cdcbe02b4c6b1e590da838b5fe43a0692ba6.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e3/42cdcbe02b4c6b1e590da838b5fe43a0692ba6.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_r3_utils_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e3/42cdcbe02b4c6b1e590da838b5fe43a0692ba6.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_r3_utils_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/18 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/18/a09a3fa18185bcdea0fd8acd12e889ccf38641.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/18/a09a3fa18185bcdea0fd8acd12e889ccf38641.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/18/a09a3fa18185bcdea0fd8acd12e889ccf38641.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bf + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bf/cbc17da1f9056026c065f863b28b99d2be9408.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bf/cbc17da1f9056026c065f863b28b99d2be9408.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bf/cbc17da1f9056026c065f863b28b99d2be9408.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ff objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_minpack_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ff/ca660064ef791989ea4bd3b89c4a6c00849e69.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ff/ca660064ef791989ea4bd3b89c4a6c00849e69.debug @@ -48556,21 +48599,16 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45/427aaf5c26fc8a5be51e1dff310ba742d339b5.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgsb_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45/427aaf5c26fc8a5be51e1dff310ba742d339b5.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgsb_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/18 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/18/a09a3fa18185bcdea0fd8acd12e889ccf38641.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/18/a09a3fa18185bcdea0fd8acd12e889ccf38641.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/18/a09a3fa18185bcdea0fd8acd12e889ccf38641.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/279ffb0c3e4348c917fdda1d4ad6c1d9b76eab.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/279ffb0c3e4348c917fdda1d4ad6c1d9b76eab.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/279ffb0c3e4348c917fdda1d4ad6c1d9b76eab.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d0 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d0/8e59acae064ac6777bd343a8a554c8282af044.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d0/8e59acae064ac6777bd343a8a554c8282af044.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d0/8e59acae064ac6777bd343a8a554c8282af044.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/279ffb0c3e4348c917fdda1d4ad6c1d9b76eab.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/279ffb0c3e4348c917fdda1d4ad6c1d9b76eab.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/279ffb0c3e4348c917fdda1d4ad6c1d9b76eab.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04/c46ba6d395a316ff007569c511006184c57d46.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04/c46ba6d395a316ff007569c511006184c57d46.debug @@ -48581,76 +48619,71 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b9/9125696f5f86563cb5b00d82643feef87f4153.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b9/9125696f5f86563cb5b00d82643feef87f4153.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/08 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/08/c862d9654f43a32e0b192290ffcaf5c459455a.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/08/c862d9654f43a32e0b192290ffcaf5c459455a.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/08/c862d9654f43a32e0b192290ffcaf5c459455a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/72 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/72/2cf783ceca6b8251ed0f27c315543410809416.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/72/2cf783ceca6b8251ed0f27c315543410809416.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/72/2cf783ceca6b8251ed0f27c315543410809416.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c8 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c8/64361e0209e2a4911e9f245487bf654d2ecec3.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c8/64361e0209e2a4911e9f245487bf654d2ecec3.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c8/64361e0209e2a4911e9f245487bf654d2ecec3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cf - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cf/853f72ed9277812a8bcd2eea617b46559159fc.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cf/853f72ed9277812a8bcd2eea617b46559159fc.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cf/853f72ed9277812a8bcd2eea617b46559159fc.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fe - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fe/5772d3ccda06bd816f8d694fce4a89579be83e.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fe/5772d3ccda06bd816f8d694fce4a89579be83e.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fe/5772d3ccda06bd816f8d694fce4a89579be83e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/23 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/23/c1422f08ca4c0073a244f52fc7df1edf32c7e0.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/23/c1422f08ca4c0073a244f52fc7df1edf32c7e0.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/23/c1422f08ca4c0073a244f52fc7df1edf32c7e0.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/08 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/08/c862d9654f43a32e0b192290ffcaf5c459455a.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/08/c862d9654f43a32e0b192290ffcaf5c459455a.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/08/c862d9654f43a32e0b192290ffcaf5c459455a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f9 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f9/109b3e052967708a63864db500ec68f04ef188.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f9/109b3e052967708a63864db500ec68f04ef188.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f9/109b3e052967708a63864db500ec68f04ef188.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d7 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d7/1d82c68a6558b8c60cc2c8533bf155e630c1fb.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d7/1d82c68a6558b8c60cc2c8533bf155e630c1fb.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d7/1d82c68a6558b8c60cc2c8533bf155e630c1fb.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cf + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cf/853f72ed9277812a8bcd2eea617b46559159fc.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cf/853f72ed9277812a8bcd2eea617b46559159fc.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cf/853f72ed9277812a8bcd2eea617b46559159fc.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c8 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c8/64361e0209e2a4911e9f245487bf654d2ecec3.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c8/64361e0209e2a4911e9f245487bf654d2ecec3.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c8/64361e0209e2a4911e9f245487bf654d2ecec3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92/7e317dfee80f908e0e8e53960553a5556ff1c9.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92/7e317dfee80f908e0e8e53960553a5556ff1c9.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92/7e317dfee80f908e0e8e53960553a5556ff1c9.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d7 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d7/1d82c68a6558b8c60cc2c8533bf155e630c1fb.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d7/1d82c68a6558b8c60cc2c8533bf155e630c1fb.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d7/1d82c68a6558b8c60cc2c8533bf155e630c1fb.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fe + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fe/5772d3ccda06bd816f8d694fce4a89579be83e.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fe/5772d3ccda06bd816f8d694fce4a89579be83e.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fe/5772d3ccda06bd816f8d694fce4a89579be83e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5b objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5b/9f376dc467c5e50b096ba8f972bf62e79eb57e.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5b/9f376dc467c5e50b096ba8f972bf62e79eb57e.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5b/9f376dc467c5e50b096ba8f972bf62e79eb57e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bd - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bd/9fe4c7eb1e1de303a86bab52e47ce56b7635f1.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bd/9fe4c7eb1e1de303a86bab52e47ce56b7635f1.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bd/9fe4c7eb1e1de303a86bab52e47ce56b7635f1.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/9d2889c430567a3f8199d9ffd1306c1446bc2a.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/9d2889c430567a3f8199d9ffd1306c1446bc2a.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/9d2889c430567a3f8199d9ffd1306c1446bc2a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/23 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/23/c1422f08ca4c0073a244f52fc7df1edf32c7e0.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/23/c1422f08ca4c0073a244f52fc7df1edf32c7e0.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/23/c1422f08ca4c0073a244f52fc7df1edf32c7e0.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9f objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9f/0cba0bcf93964d7b9769c5f6337ee708b58fdd.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9f/0cba0bcf93964d7b9769c5f6337ee708b58fdd.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9f/0cba0bcf93964d7b9769c5f6337ee708b58fdd.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/30 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/30/ae06b6afca1a0cff997a0a15bd93088758acd6.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/30/ae06b6afca1a0cff997a0a15bd93088758acd6.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/30/ae06b6afca1a0cff997a0a15bd93088758acd6.debug debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/9d2889c430567a3f8199d9ffd1306c1446bc2a.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/9d2889c430567a3f8199d9ffd1306c1446bc2a.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/9d2889c430567a3f8199d9ffd1306c1446bc2a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bd + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bd/9fe4c7eb1e1de303a86bab52e47ce56b7635f1.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bd/9fe4c7eb1e1de303a86bab52e47ce56b7635f1.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bd/9fe4c7eb1e1de303a86bab52e47ce56b7635f1.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4c objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4c/3f6c15ca5a193732b3d3b7ca8cbd3b213a6e97.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4c/3f6c15ca5a193732b3d3b7ca8cbd3b213a6e97.debug @@ -48661,6 +48694,11 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f2/c71f43e75b5b029426d8b8826f46e1c3b24473.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f2/c71f43e75b5b029426d8b8826f46e1c3b24473.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/30 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/30/ae06b6afca1a0cff997a0a15bd93088758acd6.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/30/ae06b6afca1a0cff997a0a15bd93088758acd6.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/30/ae06b6afca1a0cff997a0a15bd93088758acd6.debug debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/47 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/omptbx_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/47/a6d9fe37d660c69f49b54457151e4f26ffa920.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/47/a6d9fe37d660c69f49b54457151e4f26ffa920.debug @@ -48686,51 +48724,56 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a1/f9190fb066b6ea3d8f9758268061b0999010e0.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a1/f9190fb066b6ea3d8f9758268061b0999010e0.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/d8137a6d6a982065f84c5c55c21e824c883cf9.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/d8137a6d6a982065f84c5c55c21e824c883cf9.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/d8137a6d6a982065f84c5c55c21e824c883cf9.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/70 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/70/45c3e55ff058ec3e5d64b35634bf06ab7aa4b9.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/70/45c3e55ff058ec3e5d64b35634bf06ab7aa4b9.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/70/45c3e55ff058ec3e5d64b35634bf06ab7aa4b9.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4f objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rsr_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4f/461057e9ceeae9300f0c00e90de754947eab46.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4f/461057e9ceeae9300f0c00e90de754947eab46.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rsr_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4f/461057e9ceeae9300f0c00e90de754947eab46.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rsr_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a/626be0c1df90508afa11fff58aa7e6765161e2.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a/626be0c1df90508afa11fff58aa7e6765161e2.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a/626be0c1df90508afa11fff58aa7e6765161e2.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/d8137a6d6a982065f84c5c55c21e824c883cf9.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/d8137a6d6a982065f84c5c55c21e824c883cf9.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/d8137a6d6a982065f84c5c55c21e824c883cf9.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/83 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/83/7c3b50753f7cfb7921cd6daea76e5b957b95ac.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/83/7c3b50753f7cfb7921cd6daea76e5b957b95ac.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/83/7c3b50753f7cfb7921cd6daea76e5b957b95ac.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/96 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/96/1819d90eb03deca5fdb20ccdc6773832a04c79.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/96/1819d90eb03deca5fdb20ccdc6773832a04c79.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/96/1819d90eb03deca5fdb20ccdc6773832a04c79.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a/626be0c1df90508afa11fff58aa7e6765161e2.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a/626be0c1df90508afa11fff58aa7e6765161e2.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a/626be0c1df90508afa11fff58aa7e6765161e2.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/70 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/70/45c3e55ff058ec3e5d64b35634bf06ab7aa4b9.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/70/45c3e55ff058ec3e5d64b35634bf06ab7aa4b9.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/70/45c3e55ff058ec3e5d64b35634bf06ab7aa4b9.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5c objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5c/82d85501dc2391cdc2afae7ce95f479d2a42c8.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5c/82d85501dc2391cdc2afae7ce95f479d2a42c8.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5c/82d85501dc2391cdc2afae7ce95f479d2a42c8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6f - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6f/69d0757f6b90f4dd7472028e73c3a6d3a50927.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6f/69d0757f6b90f4dd7472028e73c3a6d3a50927.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6f/69d0757f6b90f4dd7472028e73c3a6d3a50927.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/96 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/96/1819d90eb03deca5fdb20ccdc6773832a04c79.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/96/1819d90eb03deca5fdb20ccdc6773832a04c79.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/96/1819d90eb03deca5fdb20ccdc6773832a04c79.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/88 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/88/9f4295de79fda273c150a6d287d37b81197e02.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/88/9f4295de79fda273c150a6d287d37b81197e02.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/88/9f4295de79fda273c150a6d287d37b81197e02.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6f + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6f/69d0757f6b90f4dd7472028e73c3a6d3a50927.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6f/69d0757f6b90f4dd7472028e73c3a6d3a50927.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6f/69d0757f6b90f4dd7472028e73c3a6d3a50927.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04/d296ba53361ea4b41730cf4480b42984a0448d.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04/d296ba53361ea4b41730cf4480b42984a0448d.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04/d296ba53361ea4b41730cf4480b42984a0448d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fe objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fe/982cd5d1188ca3f41c117fd12fbdb84713792a.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fe/982cd5d1188ca3f41c117fd12fbdb84713792a.debug @@ -48741,21 +48784,16 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77/23580a073f7a8eb49d42b56fbe67153e93837d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_masks_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77/23580a073f7a8eb49d42b56fbe67153e93837d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_masks_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04/d296ba53361ea4b41730cf4480b42984a0448d.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04/d296ba53361ea4b41730cf4480b42984a0448d.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04/d296ba53361ea4b41730cf4480b42984a0448d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d/0ac82f5aa8e1812a079bb59f988485c70e7da6.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d/0ac82f5aa8e1812a079bb59f988485c70e7da6.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d/0ac82f5aa8e1812a079bb59f988485c70e7da6.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/00 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/00/09b3532c07de5601c932e31549f37518f4b57d.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/00/09b3532c07de5601c932e31549f37518f4b57d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/00/09b3532c07de5601c932e31549f37518f4b57d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d/0ac82f5aa8e1812a079bb59f988485c70e7da6.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d/0ac82f5aa8e1812a079bb59f988485c70e7da6.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d/0ac82f5aa8e1812a079bb59f988485c70e7da6.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cf objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cf/41f74375ea08a5d6988b68c0053bd3ca95ef4e.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cf/41f74375ea08a5d6988b68c0053bd3ca95ef4e.debug @@ -48766,26 +48804,26 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ed/9b414636de1363f9b60d61dbf4da3823ede306.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ed/9b414636de1363f9b60d61dbf4da3823ede306.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b3 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b3/5ac30e193838aefba04c0c327ad06cc5620be9.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b3/5ac30e193838aefba04c0c327ad06cc5620be9.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b3/5ac30e193838aefba04c0c327ad06cc5620be9.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7c - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7c/41cb5246a356fab897f672967c37e2d0eaf08f.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7c/41cb5246a356fab897f672967c37e2d0eaf08f.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7c/41cb5246a356fab897f672967c37e2d0eaf08f.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f6 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f6/5bf991985ac24efe8c7074e1d27293b835202d.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f6/5bf991985ac24efe8c7074e1d27293b835202d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f6/5bf991985ac24efe8c7074e1d27293b835202d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7c + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7c/41cb5246a356fab897f672967c37e2d0eaf08f.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7c/41cb5246a356fab897f672967c37e2d0eaf08f.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7c/41cb5246a356fab897f672967c37e2d0eaf08f.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/724ba98f2cf9b51c45bb9ca283f829572b1d58.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/724ba98f2cf9b51c45bb9ca283f829572b1d58.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/724ba98f2cf9b51c45bb9ca283f829572b1d58.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b3 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b3/5ac30e193838aefba04c0c327ad06cc5620be9.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b3/5ac30e193838aefba04c0c327ad06cc5620be9.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b3/5ac30e193838aefba04c0c327ad06cc5620be9.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a9 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a9/9841ba6cee670267184b592d2d08586b4d3e34.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a9/9841ba6cee670267184b592d2d08586b4d3e34.debug @@ -48806,31 +48844,36 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fa/4f58ad803e9e51c15e4f6d74240951ddf4b9dc.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fa/4f58ad803e9e51c15e4f6d74240951ddf4b9dc.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9c - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9c/4b39499486d9b252815e1898f4b9b2068923d0.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9c/4b39499486d9b252815e1898f4b9b2068923d0.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9c/4b39499486d9b252815e1898f4b9b2068923d0.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/66 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/66/00c6ea8840226509d74d5a7e7fb4764da14ee3.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/66/00c6ea8840226509d74d5a7e7fb4764da14ee3.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/66/00c6ea8840226509d74d5a7e7fb4764da14ee3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52/27d6e19eebd8a225109b9680eccdd0abeecd22.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52/27d6e19eebd8a225109b9680eccdd0abeecd22.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52/27d6e19eebd8a225109b9680eccdd0abeecd22.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/66 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/66/00c6ea8840226509d74d5a7e7fb4764da14ee3.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/66/00c6ea8840226509d74d5a7e7fb4764da14ee3.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/66/00c6ea8840226509d74d5a7e7fb4764da14ee3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17/0e03d5523ad91858737c0f8e17b98829e1ef81.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17/0e03d5523ad91858737c0f8e17b98829e1ef81.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17/0e03d5523ad91858737c0f8e17b98829e1ef81.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9c + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9c/4b39499486d9b252815e1898f4b9b2068923d0.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9c/4b39499486d9b252815e1898f4b9b2068923d0.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9c/4b39499486d9b252815e1898f4b9b2068923d0.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2e objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2e/7e1743b222e3d975e469954c5db160cbcfa7e1.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2e/7e1743b222e3d975e469954c5db160cbcfa7e1.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2e/7e1743b222e3d975e469954c5db160cbcfa7e1.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ff + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ff/18fc9d60d8143e87427abcec9411a7260f905c.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ff/18fc9d60d8143e87427abcec9411a7260f905c.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ff/18fc9d60d8143e87427abcec9411a7260f905c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/eb objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/eb/74d1e8173c46bd4aafd7b7f090146f7df76bac.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/eb/74d1e8173c46bd4aafd7b7f090146f7df76bac.debug @@ -48841,11 +48884,6 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/35/96da2d13e39fb5fa75fe64471f5a5b3a500edc.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/35/96da2d13e39fb5fa75fe64471f5a5b3a500edc.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ff - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ff/18fc9d60d8143e87427abcec9411a7260f905c.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ff/18fc9d60d8143e87427abcec9411a7260f905c.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ff/18fc9d60d8143e87427abcec9411a7260f905c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9a/1b8b968005ef75b3e6f89396f120a1d1ea142d.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9a/1b8b968005ef75b3e6f89396f120a1d1ea142d.debug @@ -48871,66 +48909,71 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce/a3dfb0aef2024259dae883f66dd7d714bd7dbb.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce/a3dfb0aef2024259dae883f66dd7d714bd7dbb.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/d4103baac8b7540823fa9c91e24c482388c869.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/d4103baac8b7540823fa9c91e24c482388c869.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/d4103baac8b7540823fa9c91e24c482388c869.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/43 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/43/c290e9450dd51e11be4905f1ab26c6952898e5.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/43/c290e9450dd51e11be4905f1ab26c6952898e5.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/43/c290e9450dd51e11be4905f1ab26c6952898e5.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b/409ebd1c391765fcb5740b6c8da9971e443394.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b/409ebd1c391765fcb5740b6c8da9971e443394.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b/409ebd1c391765fcb5740b6c8da9971e443394.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/d4103baac8b7540823fa9c91e24c482388c869.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/d4103baac8b7540823fa9c91e24c482388c869.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/d4103baac8b7540823fa9c91e24c482388c869.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_bruker_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0a/6bd65a70079a6ba72ae9ad4a5c43349ed0fa2f.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0a/6bd65a70079a6ba72ae9ad4a5c43349ed0fa2f.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_bruker_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0a/6bd65a70079a6ba72ae9ad4a5c43349ed0fa2f.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_bruker_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b4 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b4/aad063bbd2f140cb94199e7452ec6607630d6b.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b4/aad063bbd2f140cb94199e7452ec6607630d6b.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b4/aad063bbd2f140cb94199e7452ec6607630d6b.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b/409ebd1c391765fcb5740b6c8da9971e443394.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b/409ebd1c391765fcb5740b6c8da9971e443394.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b/409ebd1c391765fcb5740b6c8da9971e443394.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/be objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/be/594f1322cc2151c75801587b6ea73321296fbb.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/be/594f1322cc2151c75801587b6ea73321296fbb.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/be/594f1322cc2151c75801587b6ea73321296fbb.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b4 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b4/aad063bbd2f140cb94199e7452ec6607630d6b.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b4/aad063bbd2f140cb94199e7452ec6607630d6b.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b4/aad063bbd2f140cb94199e7452ec6607630d6b.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0e objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0e/0399cf77d03563515149184522b65b313eb7c9.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0e/0399cf77d03563515149184522b65b313eb7c9.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0e/0399cf77d03563515149184522b65b313eb7c9.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/d424c471e65cce392a8fcc0d23a9fb8ca09b51.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/d424c471e65cce392a8fcc0d23a9fb8ca09b51.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/d424c471e65cce392a8fcc0d23a9fb8ca09b51.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/23 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/23/2a7562e477f610a9ebc1bbe2f72e5d896424b1.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/23/2a7562e477f610a9ebc1bbe2f72e5d896424b1.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/23/2a7562e477f610a9ebc1bbe2f72e5d896424b1.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c3 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c3/d3a72c8014b0ec1f940db5eab8a9f62ddcb1dc.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c3/d3a72c8014b0ec1f940db5eab8a9f62ddcb1dc.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c3/d3a72c8014b0ec1f940db5eab8a9f62ddcb1dc.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ed - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ed/6cea462db6b759c4bbab7e2603bb1431f0ffc2.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ed/6cea462db6b759c4bbab7e2603bb1431f0ffc2.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ed/6cea462db6b759c4bbab7e2603bb1431f0ffc2.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/23 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/23/2a7562e477f610a9ebc1bbe2f72e5d896424b1.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/23/2a7562e477f610a9ebc1bbe2f72e5d896424b1.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/23/2a7562e477f610a9ebc1bbe2f72e5d896424b1.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/d424c471e65cce392a8fcc0d23a9fb8ca09b51.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/d424c471e65cce392a8fcc0d23a9fb8ca09b51.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/d424c471e65cce392a8fcc0d23a9fb8ca09b51.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3d objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3d/2e0f259bcd9aff666bcc398b42fb82f276cbcf.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3d/2e0f259bcd9aff666bcc398b42fb82f276cbcf.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3d/2e0f259bcd9aff666bcc398b42fb82f276cbcf.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9b + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9b/afc78c6fb220bdbc52f4520eb3f396a954802e.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9b/afc78c6fb220bdbc52f4520eb3f396a954802e.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9b/afc78c6fb220bdbc52f4520eb3f396a954802e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ed + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ed/6cea462db6b759c4bbab7e2603bb1431f0ffc2.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ed/6cea462db6b759c4bbab7e2603bb1431f0ffc2.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ed/6cea462db6b759c4bbab7e2603bb1431f0ffc2.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/25 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/25/4791246799b5318fd9f8a59e507df71e1cc1ff.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/25/4791246799b5318fd9f8a59e507df71e1cc1ff.debug @@ -48941,11 +48984,6 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9d/c7bbe7b4d5e554cb2a46ebf389e90d143b9339.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9d/c7bbe7b4d5e554cb2a46ebf389e90d143b9339.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9b - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9b/afc78c6fb220bdbc52f4520eb3f396a954802e.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9b/afc78c6fb220bdbc52f4520eb3f396a954802e.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9b/afc78c6fb220bdbc52f4520eb3f396a954802e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/18 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/18/57660266e52ae22153d02f13ffbd69cc3eb1af.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/18/57660266e52ae22153d02f13ffbd69cc3eb1af.debug @@ -49011,16 +49049,16 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/18/73a6a892cdab0e0ae175818e74ef4843f782d7.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/18/73a6a892cdab0e0ae175818e74ef4843f782d7.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/37 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/37/2a14f72944575a34b7f452968a6faf6304a3cf.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/37/2a14f72944575a34b7f452968a6faf6304a3cf.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/37/2a14f72944575a34b7f452968a6faf6304a3cf.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/42 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/42/3d88e433f5c1c65015cbdb35acdefaf73bdbd7.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/42/3d88e433f5c1c65015cbdb35acdefaf73bdbd7.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/42/3d88e433f5c1c65015cbdb35acdefaf73bdbd7.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/37 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/37/2a14f72944575a34b7f452968a6faf6304a3cf.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/37/2a14f72944575a34b7f452968a6faf6304a3cf.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/37/2a14f72944575a34b7f452968a6faf6304a3cf.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b5 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b5/27e4b0fe24479c30a3fa1943480fd5796ba288.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b5/27e4b0fe24479c30a3fa1943480fd5796ba288.debug @@ -49036,26 +49074,26 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cc/129ee27ee3232e624b5e0b5885ae67f5aa0bf9.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cc/129ee27ee3232e624b5e0b5885ae67f5aa0bf9.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4f - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4f/9cf9a909f2479d636e355d0b8f301224e6fec4.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4f/9cf9a909f2479d636e355d0b8f301224e6fec4.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4f/9cf9a909f2479d636e355d0b8f301224e6fec4.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/74 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_math_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/74/a2163f1336498dbf7d925da9828b5ca5904792.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/74/a2163f1336498dbf7d925da9828b5ca5904792.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_math_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/74/a2163f1336498dbf7d925da9828b5ca5904792.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_math_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/57 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_merging_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/57/0d35d4c11138431b53ba9ea79c0db4a352ad37.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/57/0d35d4c11138431b53ba9ea79c0db4a352ad37.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_merging_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/57/0d35d4c11138431b53ba9ea79c0db4a352ad37.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_merging_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4f + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4f/9cf9a909f2479d636e355d0b8f301224e6fec4.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4f/9cf9a909f2479d636e355d0b8f301224e6fec4.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4f/9cf9a909f2479d636e355d0b8f301224e6fec4.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3e objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3e/fa7ff3ec5734f6984d845cf6de1a756811a92d.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3e/fa7ff3ec5734f6984d845cf6de1a756811a92d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3e/fa7ff3ec5734f6984d845cf6de1a756811a92d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/74 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_math_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/74/a2163f1336498dbf7d925da9828b5ca5904792.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/74/a2163f1336498dbf7d925da9828b5ca5904792.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_math_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/74/a2163f1336498dbf7d925da9828b5ca5904792.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_math_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7a/e261895ccf639fe8e3510d06bb0b73ce30a611.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7a/e261895ccf639fe8e3510d06bb0b73ce30a611.debug @@ -49066,36 +49104,31 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0a/e2d8e5fee83a683b624f97dfaa0cc4876ff0e0.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0a/e2d8e5fee83a683b624f97dfaa0cc4876ff0e0.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b/5842e3b5296f0842bc4439a5ecdfe6d08a37f9.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b/5842e3b5296f0842bc4439a5ecdfe6d08a37f9.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b/5842e3b5296f0842bc4439a5ecdfe6d08a37f9.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a0 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a0/84d21c3ef949aa2647bbc0970d81a42c3470a1.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a0/84d21c3ef949aa2647bbc0970d81a42c3470a1.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a0/84d21c3ef949aa2647bbc0970d81a42c3470a1.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/70 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/70/4e552987b8ea403ee85ae74e28309284dc23d3.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/70/4e552987b8ea403ee85ae74e28309284dc23d3.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/70/4e552987b8ea403ee85ae74e28309284dc23d3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9a/6cfe86f7151cd1900394ceb3bc1e545ecb7332.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9a/6cfe86f7151cd1900394ceb3bc1e545ecb7332.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9a/6cfe86f7151cd1900394ceb3bc1e545ecb7332.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/70 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/70/4e552987b8ea403ee85ae74e28309284dc23d3.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/70/4e552987b8ea403ee85ae74e28309284dc23d3.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/70/4e552987b8ea403ee85ae74e28309284dc23d3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a0 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a0/84d21c3ef949aa2647bbc0970d81a42c3470a1.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a0/84d21c3ef949aa2647bbc0970d81a42c3470a1.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a0/84d21c3ef949aa2647bbc0970d81a42c3470a1.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b/5842e3b5296f0842bc4439a5ecdfe6d08a37f9.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b/5842e3b5296f0842bc4439a5ecdfe6d08a37f9.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b/5842e3b5296f0842bc4439a5ecdfe6d08a37f9.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e8 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e8/9da4b903dbf1b171f0804539183ae256112586.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e8/9da4b903dbf1b171f0804539183ae256112586.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e8/9da4b903dbf1b171f0804539183ae256112586.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/90 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/90/a9d3a024809d47348929c4d455d33274504536.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/90/a9d3a024809d47348929c4d455d33274504536.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/90/a9d3a024809d47348929c4d455d33274504536.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ae objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_tiny_pse_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ae/27fac6976757909b8f11ac4bac7dd3ca0d6585.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ae/27fac6976757909b8f11ac4bac7dd3ca0d6585.debug @@ -49106,46 +49139,46 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a/04a4dedaba1d54ba8a4ab7d9a9ca491112648c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a/04a4dedaba1d54ba8a4ab7d9a9ca491112648c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce/9570ca56d54514bf6187036ce23f0c50497e64.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce/9570ca56d54514bf6187036ce23f0c50497e64.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce/9570ca56d54514bf6187036ce23f0c50497e64.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/90 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/90/a9d3a024809d47348929c4d455d33274504536.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/90/a9d3a024809d47348929c4d455d33274504536.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/90/a9d3a024809d47348929c4d455d33274504536.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/21 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/21/92d86a73fe2f5a6c509017938501191cea38df.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/21/92d86a73fe2f5a6c509017938501191cea38df.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/21/92d86a73fe2f5a6c509017938501191cea38df.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c9 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c9/ca5aac3626260bfc7a5e0f4d33ccf654c71b10.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c9/ca5aac3626260bfc7a5e0f4d33ccf654c71b10.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c9/ca5aac3626260bfc7a5e0f4d33ccf654c71b10.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce/9570ca56d54514bf6187036ce23f0c50497e64.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce/9570ca56d54514bf6187036ce23f0c50497e64.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce/9570ca56d54514bf6187036ce23f0c50497e64.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45/3ccde14d1831a543e6e6eb409b72f427a098ec.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45/3ccde14d1831a543e6e6eb409b72f427a098ec.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45/3ccde14d1831a543e6e6eb409b72f427a098ec.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c9 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c9/ca5aac3626260bfc7a5e0f4d33ccf654c71b10.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c9/ca5aac3626260bfc7a5e0f4d33ccf654c71b10.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c9/ca5aac3626260bfc7a5e0f4d33ccf654c71b10.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6f objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_covalent_radii_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6f/6310275a4974bf1cac2c6a9aac3a914ee0c2a6.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6f/6310275a4974bf1cac2c6a9aac3a914ee0c2a6.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_covalent_radii_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6f/6310275a4974bf1cac2c6a9aac3a914ee0c2a6.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_covalent_radii_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c8 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c8/30f91360621a7f2ef9bd3a6aaf4283b0a75066.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c8/30f91360621a7f2ef9bd3a6aaf4283b0a75066.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c8/30f91360621a7f2ef9bd3a6aaf4283b0a75066.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c0 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c0/93995070ae84db683ffb0ab7233f75c4324553.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c0/93995070ae84db683ffb0ab7233f75c4324553.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c0/93995070ae84db683ffb0ab7233f75c4324553.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2b - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2b/997d03406e7c2274b8781dacb2ae848d5bf77a.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2b/997d03406e7c2274b8781dacb2ae848d5bf77a.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2b/997d03406e7c2274b8781dacb2ae848d5bf77a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c8 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c8/30f91360621a7f2ef9bd3a6aaf4283b0a75066.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c8/30f91360621a7f2ef9bd3a6aaf4283b0a75066.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c8/30f91360621a7f2ef9bd3a6aaf4283b0a75066.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fe objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adptbx_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fe/a775a7583d1fb5dfa0d21c333570318e638666.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fe/a775a7583d1fb5dfa0d21c333570318e638666.debug @@ -49156,16 +49189,21 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a4/da91d7d422ae1723fe1178377eef4e53b4ba4b.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a4/da91d7d422ae1723fe1178377eef4e53b4ba4b.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/93 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/93/ec8711e1b0c9efb3dd8822f8b37ca026100d1b.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/93/ec8711e1b0c9efb3dd8822f8b37ca026100d1b.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/93/ec8711e1b0c9efb3dd8822f8b37ca026100d1b.debug debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2b + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2b/997d03406e7c2274b8781dacb2ae848d5bf77a.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2b/997d03406e7c2274b8781dacb2ae848d5bf77a.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2b/997d03406e7c2274b8781dacb2ae848d5bf77a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9c objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_anharmonic_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9c/e555f8d03a16582fb879a3731dbf6d5667aa4c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9c/e555f8d03a16582fb879a3731dbf6d5667aa4c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_anharmonic_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9c/e555f8d03a16582fb879a3731dbf6d5667aa4c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_anharmonic_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/93 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/93/ec8711e1b0c9efb3dd8822f8b37ca026100d1b.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/93/ec8711e1b0c9efb3dd8822f8b37ca026100d1b.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/93/ec8711e1b0c9efb3dd8822f8b37ca026100d1b.debug debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/61 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/61/966dff5b636ccb449a2c8281baa5a9c207c615.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/61/966dff5b636ccb449a2c8281baa5a9c207c615.debug @@ -49191,111 +49229,111 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/39/15d958cba3a4ce8351e64d74655e88874fd790.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/39/15d958cba3a4ce8351e64d74655e88874fd790.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a/79b311437e267324c528a31193ca22d642c23b.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a/79b311437e267324c528a31193ca22d642c23b.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a/79b311437e267324c528a31193ca22d642c23b.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/2ac0da1b518030c0efcc710425cd2e8a0a62db.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/2ac0da1b518030c0efcc710425cd2e8a0a62db.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/2ac0da1b518030c0efcc710425cd2e8a0a62db.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0f + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0f/c8d0601d5fe8ea781d2775d2316aa98bbaa459.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0f/c8d0601d5fe8ea781d2775d2316aa98bbaa459.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0f/c8d0601d5fe8ea781d2775d2316aa98bbaa459.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/55 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/55/97508a9377c18ec1e34b1efc3c9d00f517fcde.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/55/97508a9377c18ec1e34b1efc3c9d00f517fcde.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/55/97508a9377c18ec1e34b1efc3c9d00f517fcde.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a/79b311437e267324c528a31193ca22d642c23b.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a/79b311437e267324c528a31193ca22d642c23b.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a/79b311437e267324c528a31193ca22d642c23b.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04/778e2eec3c9ba4b81204e279ca09df88d7c0f1.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04/778e2eec3c9ba4b81204e279ca09df88d7c0f1.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04/778e2eec3c9ba4b81204e279ca09df88d7c0f1.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0f - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0f/c8d0601d5fe8ea781d2775d2316aa98bbaa459.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0f/c8d0601d5fe8ea781d2775d2316aa98bbaa459.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0f/c8d0601d5fe8ea781d2775d2316aa98bbaa459.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/97 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/97/2dd811d23e29c4440188bb932f0e2d713a2288.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/97/2dd811d23e29c4440188bb932f0e2d713a2288.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/97/2dd811d23e29c4440188bb932f0e2d713a2288.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/2ac0da1b518030c0efcc710425cd2e8a0a62db.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/2ac0da1b518030c0efcc710425cd2e8a0a62db.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/2ac0da1b518030c0efcc710425cd2e8a0a62db.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d6 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d6/9462da9cbf62ca02befbff66bbbaa2f8b2bbeb.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d6/9462da9cbf62ca02befbff66bbbaa2f8b2bbeb.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d6/9462da9cbf62ca02befbff66bbbaa2f8b2bbeb.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/53 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/53/aff7e84d75fed906519410e3318e52e66ed18b.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/53/aff7e84d75fed906519410e3318e52e66ed18b.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/53/aff7e84d75fed906519410e3318e52e66ed18b.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9a - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9a/15a71b5bc5b2417cd25cf06e592af1c8ad3255.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9a/15a71b5bc5b2417cd25cf06e592af1c8ad3255.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9a/15a71b5bc5b2417cd25cf06e592af1c8ad3255.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3a/289d010f84de541f5bd648f0c21a2daf993e46.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3a/289d010f84de541f5bd648f0c21a2daf993e46.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3a/289d010f84de541f5bd648f0c21a2daf993e46.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9a + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9a/15a71b5bc5b2417cd25cf06e592af1c8ad3255.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9a/15a71b5bc5b2417cd25cf06e592af1c8ad3255.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9a/15a71b5bc5b2417cd25cf06e592af1c8ad3255.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/53 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/53/aff7e84d75fed906519410e3318e52e66ed18b.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/53/aff7e84d75fed906519410e3318e52e66ed18b.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/53/aff7e84d75fed906519410e3318e52e66ed18b.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b4 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b4/c1e42b80c5398619861af1b32b68c7130287e8.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b4/c1e42b80c5398619861af1b32b68c7130287e8.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b4/c1e42b80c5398619861af1b32b68c7130287e8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-313-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/83 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/83/2415e85a52f30a69003207239c7ef49d9a74c7.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/83/2415e85a52f30a69003207239c7ef49d9a74c7.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-313-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/83/2415e85a52f30a69003207239c7ef49d9a74c7.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a3 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a3/dec82dab72a63f2b0a362d2e1d4935235a56ad.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a3/dec82dab72a63f2b0a362d2e1d4935235a56ad.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-313-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a3/dec82dab72a63f2b0a362d2e1d4935235a56ad.debug debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-313-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/83 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-313-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/83/2415e85a52f30a69003207239c7ef49d9a74c7.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/83/2415e85a52f30a69003207239c7ef49d9a74c7.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-313-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/83/2415e85a52f30a69003207239c7ef49d9a74c7.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-313-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9f objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.13/smtbx/refinement/constraints/tests/tst_special_position debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9f/441b68f475fd5b787d090e88da26ba49f50f3b.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9f/441b68f475fd5b787d090e88da26ba49f50f3b.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.13/smtbx/refinement/constraints/tests/tst_special_position objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9f/441b68f475fd5b787d090e88da26ba49f50f3b.debug debian/python3-cctbx/usr/lib/cctbx/python3.13/smtbx/refinement/constraints/tests/tst_special_position - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3c - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.13/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3c/f56549c5173ee3008b732967ec5f95e27ecde2.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3c/f56549c5173ee3008b732967ec5f95e27ecde2.debug - strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.13/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3c/f56549c5173ee3008b732967ec5f95e27ecde2.debug debian/python3-cctbx/usr/lib/cctbx/python3.13/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/43 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.13/smtbx/refinement/constraints/tests/tst_reparametrisation debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/43/673b4baf4572c75d110225f10c34d0ea030de5.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/43/673b4baf4572c75d110225f10c34d0ea030de5.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.13/smtbx/refinement/constraints/tests/tst_reparametrisation objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/43/673b4baf4572c75d110225f10c34d0ea030de5.debug debian/python3-cctbx/usr/lib/cctbx/python3.13/smtbx/refinement/constraints/tests/tst_reparametrisation + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3c + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.13/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3c/f56549c5173ee3008b732967ec5f95e27ecde2.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3c/f56549c5173ee3008b732967ec5f95e27ecde2.debug + strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.13/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3c/f56549c5173ee3008b732967ec5f95e27ecde2.debug debian/python3-cctbx/usr/lib/cctbx/python3.13/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/55 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/serialization/tst_base_256 debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/55/5b1d06d0a560d95075476833352ed6cab0a4aa.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/55/5b1d06d0a560d95075476833352ed6cab0a4aa.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/serialization/tst_base_256 objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/55/5b1d06d0a560d95075476833352ed6cab0a4aa.debug debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/serialization/tst_base_256 - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/81 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_cholesky debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/81/93bee3692487781a2d6343fdd490def550e716.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/81/93bee3692487781a2d6343fdd490def550e716.debug - strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_cholesky - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/81/93bee3692487781a2d6343fdd490def550e716.debug debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_cholesky install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/86 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_svd debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/86/0572b58bcc182f5cb198ceb5de68711886bc2d.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/86/0572b58bcc182f5cb198ceb5de68711886bc2d.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_svd objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/86/0572b58bcc182f5cb198ceb5de68711886bc2d.debug debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_svd - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ba - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_givens debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ba/f1d40144b6f47782c4ba27ac0442c78c4c88e5.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ba/f1d40144b6f47782c4ba27ac0442c78c4c88e5.debug - strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_givens - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ba/f1d40144b6f47782c4ba27ac0442c78c4c88e5.debug debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_givens + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/81 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_cholesky debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/81/93bee3692487781a2d6343fdd490def550e716.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/81/93bee3692487781a2d6343fdd490def550e716.debug + strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_cholesky + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/81/93bee3692487781a2d6343fdd490def550e716.debug debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_cholesky install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/15 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_householder debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/15/9afcd0e177d6bccf26b6ef37d628b146b467f0.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/15/9afcd0e177d6bccf26b6ef37d628b146b467f0.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_householder objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/15/9afcd0e177d6bccf26b6ef37d628b146b467f0.debug debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_householder + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ba + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_givens debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ba/f1d40144b6f47782c4ba27ac0442c78c4c88e5.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ba/f1d40144b6f47782c4ba27ac0442c78c4c88e5.debug + strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_givens + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ba/f1d40144b6f47782c4ba27ac0442c78c4c88e5.debug debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_givens install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/43 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/math/tests/tst debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/43/1af97b44eabaa5a31461d2153910e54a3515b9.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/43/1af97b44eabaa5a31461d2153910e54a3515b9.debug @@ -49311,11 +49349,6 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e/472f0826aed4f5a0462e90d782e1af40bee329.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/error/tst_error objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e/472f0826aed4f5a0462e90d782e1af40bee329.debug debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/error/tst_error - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ee - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_vec3 debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ee/9995bcc0d36a9a2c0fba0a4eb8720ccb1517df.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ee/9995bcc0d36a9a2c0fba0a4eb8720ccb1517df.debug - strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_vec3 - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ee/9995bcc0d36a9a2c0fba0a4eb8720ccb1517df.debug debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_vec3 install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_4 debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce/6e406074987c54726d8a1010806fb85d2bb75c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce/6e406074987c54726d8a1010806fb85d2bb75c.debug @@ -49326,11 +49359,11 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cb/5cd9db4240a708ef49329fed99c9771e6e94b0.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_sym_mat3 objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cb/5cd9db4240a708ef49329fed99c9771e6e94b0.debug debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_sym_mat3 - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bb - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_ref_matrix_facet debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bb/fde3953a6a98a688da152744889b435394b3a5.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bb/fde3953a6a98a688da152744889b435394b3a5.debug - strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_ref_matrix_facet - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bb/fde3953a6a98a688da152744889b435394b3a5.debug debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_ref_matrix_facet + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ee + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_vec3 debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ee/9995bcc0d36a9a2c0fba0a4eb8720ccb1517df.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ee/9995bcc0d36a9a2c0fba0a4eb8720ccb1517df.debug + strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_vec3 + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ee/9995bcc0d36a9a2c0fba0a4eb8720ccb1517df.debug debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_vec3 install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e3 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_unsigned_float_arithmetic debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e3/a6a3b3c4b3d71db11e04d5a8d3ceacb0349758.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e3/a6a3b3c4b3d71db11e04d5a8d3ceacb0349758.debug @@ -49341,26 +49374,31 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/40/9737585338438f0629dd8bfaf08cbd0c9a9e2c.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_rectangular_full_packed objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/40/9737585338438f0629dd8bfaf08cbd0c9a9e2c.debug debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_rectangular_full_packed - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fb - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_5 debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fb/ec79b7191308488ecefa6758f36831c61a48d2.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fb/ec79b7191308488ecefa6758f36831c61a48d2.debug - strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_5 - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fb/ec79b7191308488ecefa6758f36831c61a48d2.debug debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_5 + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bb + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_ref_matrix_facet debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bb/fde3953a6a98a688da152744889b435394b3a5.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bb/fde3953a6a98a688da152744889b435394b3a5.debug + strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_ref_matrix_facet + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bb/fde3953a6a98a688da152744889b435394b3a5.debug debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_ref_matrix_facet + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/06 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_mat3 debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/06/a4c12c976b60adfed234fa868662ec9e6b91b1.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/06/a4c12c976b60adfed234fa868662ec9e6b91b1.debug + strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_mat3 + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/06/a4c12c976b60adfed234fa868662ec9e6b91b1.debug debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_mat3 install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/18 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_optional_copy debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/18/2aeffc176d16c4c7a37e05bd0a092119b27b07.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/18/2aeffc176d16c4c7a37e05bd0a092119b27b07.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_optional_copy objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/18/2aeffc176d16c4c7a37e05bd0a092119b27b07.debug debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_optional_copy + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fb + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_5 debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fb/ec79b7191308488ecefa6758f36831c61a48d2.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fb/ec79b7191308488ecefa6758f36831c61a48d2.debug + strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_5 + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fb/ec79b7191308488ecefa6758f36831c61a48d2.debug debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_5 install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/14 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_3 debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/14/a8f666c328bdac945b1033c98ced306bf2dff9.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/14/a8f666c328bdac945b1033c98ced306bf2dff9.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_3 objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/14/a8f666c328bdac945b1033c98ced306bf2dff9.debug debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_3 - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/06 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_mat3 debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/06/a4c12c976b60adfed234fa868662ec9e6b91b1.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/06/a4c12c976b60adfed234fa868662ec9e6b91b1.debug - strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_mat3 - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/06/a4c12c976b60adfed234fa868662ec9e6b91b1.debug debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_mat3 install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/df objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_1 debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/df/c4df6ff9d9a6f60ed6d836b96816f371559aee.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/df/c4df6ff9d9a6f60ed6d836b96816f371559aee.debug @@ -49386,16 +49424,16 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a4/7ebba48c51ff013d5a991794b27b7f6d285634.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.13/boost_adaptbx/tests/tst_optional_copy objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a4/7ebba48c51ff013d5a991794b27b7f6d285634.debug debian/python3-cctbx/usr/lib/cctbx/python3.13/boost_adaptbx/tests/tst_optional_copy - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f0 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/bin/cctbx_blobs debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f0/648539bc2ef071516069d5484c62bf7794cb0f.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f0/648539bc2ef071516069d5484c62bf7794cb0f.debug - strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/bin/cctbx_blobs - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f0/648539bc2ef071516069d5484c62bf7794cb0f.debug debian/python3-cctbx/usr/bin/cctbx_blobs install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/60 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/bin/cctbx.find_distances debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/60/3cb9a87375bf9aeb1b4a7561e769c3a6a05736.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/60/3cb9a87375bf9aeb1b4a7561e769c3a6a05736.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/bin/cctbx.find_distances objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/60/3cb9a87375bf9aeb1b4a7561e769c3a6a05736.debug debian/python3-cctbx/usr/bin/cctbx.find_distances + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f0 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/bin/cctbx_blobs debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f0/648539bc2ef071516069d5484c62bf7794cb0f.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f0/648539bc2ef071516069d5484c62bf7794cb0f.debug + strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/bin/cctbx_blobs + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f0/648539bc2ef071516069d5484c62bf7794cb0f.debug debian/python3-cctbx/usr/bin/cctbx_blobs install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dc objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/bin/cctbx.sym_equiv_sites debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dc/1995c9b5fe6e4bd8a0ca0a749cfbad9f8406aa.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dc/1995c9b5fe6e4bd8a0ca0a749cfbad9f8406aa.debug @@ -49406,16 +49444,16 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/44/4748b7e3370b424ff983297acf5265f08c3fcd.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/bin/cctbx.lattice_symmetry objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/44/4748b7e3370b424ff983297acf5265f08c3fcd.debug debian/python3-cctbx/usr/bin/cctbx.lattice_symmetry - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/03 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/bin/cctbx.sys_abs_equiv_space_groups debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/03/ae32d24c9c79b7e8195518caa53bed8578f5ea.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/03/ae32d24c9c79b7e8195518caa53bed8578f5ea.debug - strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/bin/cctbx.sys_abs_equiv_space_groups - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/03/ae32d24c9c79b7e8195518caa53bed8578f5ea.debug debian/python3-cctbx/usr/bin/cctbx.sys_abs_equiv_space_groups install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/bin/cctbx.getting_started debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/d15b415f6bb80252f91251a78f3f5673080c9b.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/d15b415f6bb80252f91251a78f3f5673080c9b.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/bin/cctbx.getting_started objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/d15b415f6bb80252f91251a78f3f5673080c9b.debug debian/python3-cctbx/usr/bin/cctbx.getting_started + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/03 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/bin/cctbx.sys_abs_equiv_space_groups debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/03/ae32d24c9c79b7e8195518caa53bed8578f5ea.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/03/ae32d24c9c79b7e8195518caa53bed8578f5ea.debug + strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/bin/cctbx.sys_abs_equiv_space_groups + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/03/ae32d24c9c79b7e8195518caa53bed8578f5ea.debug debian/python3-cctbx/usr/bin/cctbx.sys_abs_equiv_space_groups install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/bin/cctbx.convert_ccp4_symop_lib debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/0e0fce002272ac41ef213e86730e2f4a69f166.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/0e0fce002272ac41ef213e86730e2f4a69f166.debug @@ -49461,362 +49499,362 @@ rm -f debian/python3-cctbx/DEBIAN/shlibs dh_shlibdeps -a -O--buildsystem=pybuild install -m0755 -d debian/libcctbx0/DEBIAN - dpkg-shlibdeps -Tdebian/libcctbx0.substvars debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcctbx.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libsmtbx_refinement_constraints.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_pdb.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libspotfinder.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcctbx_sgtbx_asu.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/librstbx.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libmmtbx_masks.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_slatec.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_minpack.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libasymmetric_map.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libomptbx.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libmmtbx_tls.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_mtz.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_xplor.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libdxtbxspotfinder.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcbf-private.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libann_adaptor.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libccp4io.so.0.0.1 + dpkg-shlibdeps -Tdebian/libcctbx0.substvars debian/libcctbx0/usr/lib/aarch64-linux-gnu/libsmtbx_refinement_constraints.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_pdb.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcctbx.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libspotfinder.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcctbx_sgtbx_asu.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/librstbx.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libmmtbx_masks.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_slatec.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_minpack.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libomptbx.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libasymmetric_map.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libmmtbx_tls.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_xplor.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_mtz.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libdxtbxspotfinder.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcbf-private.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libann_adaptor.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libccp4io.so.0.0.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged install -m0755 -d debian/python3-cctbx/DEBIAN - dpkg-shlibdeps -Tdebian/python3-cctbx.substvars debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_set_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_rigid_body_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_r3_utils_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_minpack_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgsb_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/omptbx_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rsr_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_masks_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_bruker_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_image_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_flumpy.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/determine_unit_cell_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_math_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_merging_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_tiny_pse_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_covalent_radii_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adptbx_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_anharmonic_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/cctbx/python3.13/smtbx/refinement/constraints/tests/tst_special_position debian/python3-cctbx/usr/lib/cctbx/python3.13/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens debian/python3-cctbx/usr/lib/cctbx/python3.13/smtbx/refinement/constraints/tests/tst_reparametrisation debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/serialization/tst_base_256 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_cholesky debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_svd debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_givens debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_householder debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/math/tests/tst debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/lbfgs/tst_lbfgs debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/error/tst_error debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_vec3 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_4 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_sym_mat3 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_ref_matrix_facet debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_unsigned_float_arithmetic debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_rectangular_full_packed debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_5 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_optional_copy debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_3 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_mat3 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_1 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_accessors debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_2 debian/python3-cctbx/usr/lib/cctbx/python3.13/iotbx/pdb/hybrid_36_fem debian/python3-cctbx/usr/lib/cctbx/python3.13/boost_adaptbx/tests/tst_optional_copy debian/python3-cctbx/usr/bin/cctbx_blobs debian/python3-cctbx/usr/bin/cctbx.find_distances debian/python3-cctbx/usr/bin/cctbx.sym_equiv_sites debian/python3-cctbx/usr/bin/cctbx.lattice_symmetry debian/python3-cctbx/usr/bin/cctbx.sys_abs_equiv_space_groups debian/python3-cctbx/usr/bin/cctbx.getting_started debian/python3-cctbx/usr/bin/cctbx.convert_ccp4_symop_lib debian/python3-cctbx/usr/bin/cbflib.tst_memory + dpkg-shlibdeps -Tdebian/python3-cctbx.substvars debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_set_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_rigid_body_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_r3_utils_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_minpack_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgsb_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/omptbx_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rsr_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_masks_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_bruker_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_image_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_flumpy.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/determine_unit_cell_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_merging_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_math_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_tiny_pse_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_covalent_radii_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adptbx_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_anharmonic_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-313-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/cctbx/python3.13/smtbx/refinement/constraints/tests/tst_special_position debian/python3-cctbx/usr/lib/cctbx/python3.13/smtbx/refinement/constraints/tests/tst_reparametrisation debian/python3-cctbx/usr/lib/cctbx/python3.13/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/serialization/tst_base_256 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_svd debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_cholesky debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_householder debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_givens debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/math/tests/tst debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/lbfgs/tst_lbfgs debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/error/tst_error debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_4 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_sym_mat3 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_vec3 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_unsigned_float_arithmetic debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_rectangular_full_packed debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_ref_matrix_facet debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_mat3 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_optional_copy debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_5 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_3 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_1 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_accessors debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_2 debian/python3-cctbx/usr/lib/cctbx/python3.13/iotbx/pdb/hybrid_36_fem debian/python3-cctbx/usr/lib/cctbx/python3.13/boost_adaptbx/tests/tst_optional_copy debian/python3-cctbx/usr/bin/cctbx.find_distances debian/python3-cctbx/usr/bin/cctbx_blobs debian/python3-cctbx/usr/bin/cctbx.sym_equiv_sites debian/python3-cctbx/usr/bin/cctbx.lattice_symmetry debian/python3-cctbx/usr/bin/cctbx.getting_started debian/python3-cctbx/usr/bin/cctbx.sys_abs_equiv_space_groups debian/python3-cctbx/usr/bin/cctbx.convert_ccp4_symop_lib debian/python3-cctbx/usr/bin/cbflib.tst_memory dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it's probably a plugin -dpkg-shlibdeps: warning: 23 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin -dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: symbol _Py_Dealloc used by debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries -dpkg-shlibdeps: warning: symbol PyObject_CallFunction used by debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries -dpkg-shlibdeps: warning: symbol PyImport_ImportModule used by debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_r3_utils_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin +dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) +dpkg-shlibdeps: warning: symbol PyExc_IndexError used by debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries dpkg-shlibdeps: warning: symbol PyObject_IsTrue used by debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries +dpkg-shlibdeps: warning: symbol _Py_NoneStruct used by debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries dpkg-shlibdeps: warning: symbol PyErr_SetString used by debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries +dpkg-shlibdeps: warning: symbol _Py_Dealloc used by debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries +dpkg-shlibdeps: warning: symbol PyImport_ImportModule used by debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries +dpkg-shlibdeps: warning: symbol PyObject_CallFunction used by debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries dpkg-shlibdeps: warning: symbol PyRange_Type used by debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries -dpkg-shlibdeps: warning: symbol _Py_NoneStruct used by debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries dpkg-shlibdeps: warning: symbol PyExc_RuntimeError used by debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries -dpkg-shlibdeps: warning: symbol PyExc_IndexError used by debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_image_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyList_Type: it's probably a plugin -dpkg-shlibdeps: warning: 23 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin -dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin -dpkg-shlibdeps: warning: 17 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it's probably a plugin -dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin +dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyType_IsSubtype: it's probably a plugin -dpkg-shlibdeps: warning: 51 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin -dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_AsLong: it's probably a plugin -dpkg-shlibdeps: warning: 16 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyRange_Type: it's probably a plugin -dpkg-shlibdeps: warning: 30 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyIter_Check: it's probably a plugin -dpkg-shlibdeps: warning: 27 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rsr_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin -dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_math_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin -dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin -dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin -dpkg-shlibdeps: warning: 28 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_GetIter: it's probably a plugin -dpkg-shlibdeps: warning: 21 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin -dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/omptbx_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it's probably a plugin +dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 15 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_tiny_pse_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgsb_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/determine_unit_cell_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyDict_Type: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin -dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyDict_Type: it's probably a plugin -dpkg-shlibdeps: warning: 21 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin -dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Occurred: it's probably a plugin -dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin -dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin -dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyIter_Next: it's probably a plugin -dpkg-shlibdeps: warning: 24 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin -dpkg-shlibdeps: warning: 23 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_r3_utils_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rsr_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it's probably a plugin +dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin +dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyCapsule_New: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin +dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 34 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyCapsule_GetPointer: it's probably a plugin +dpkg-shlibdeps: warning: 51 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin +dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_HasAttrString: it's probably a plugin +dpkg-shlibdeps: warning: 17 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin dpkg-shlibdeps: warning: 2 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin -dpkg-shlibdeps: warning: 25 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin -dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin -dpkg-shlibdeps: warning: 30 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_GetItem: it's probably a plugin -dpkg-shlibdeps: warning: 20 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it's probably a plugin dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin -dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin -dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin -dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin -dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin -dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin -dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin -dpkg-shlibdeps: warning: 16 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_rigid_body_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin -dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin -dpkg-shlibdeps: warning: 11 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_flumpy.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyThreadState_New: it's probably a plugin -dpkg-shlibdeps: warning: 131 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_minpack_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_FromStringAndSize: it's probably a plugin +dpkg-shlibdeps: warning: 20 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_minpack_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_IndexError: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 22 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Clear: it's probably a plugin +dpkg-shlibdeps: warning: 21 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin +dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin -dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_masks_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin -dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_merging_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin +dpkg-shlibdeps: warning: 34 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_IsInstance: it's probably a plugin +dpkg-shlibdeps: warning: 21 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: 27 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_covalent_radii_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin -dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_anharmonic_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyComplex_Type: it's probably a plugin -dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it's probably a plugin -dpkg-shlibdeps: warning: 11 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin -dpkg-shlibdeps: warning: 11 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_FromStringAndSize: it's probably a plugin -dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_ValueError: it's probably a plugin -dpkg-shlibdeps: warning: 32 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin +dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_IndexError: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin +dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_FromStringAndSize: it's probably a plugin +dpkg-shlibdeps: warning: 30 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_bruker_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyList_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_bruker_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin -dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin -dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adptbx_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin -dpkg-shlibdeps: warning: 19 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin -dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin -dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 16 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin -dpkg-shlibdeps: warning: 17 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_HasAttrString: it's probably a plugin -dpkg-shlibdeps: warning: 15 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: 23 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 19 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin -dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin -dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyIter_Check: it's probably a plugin -dpkg-shlibdeps: warning: 28 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin -dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyIter_Check: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin dpkg-shlibdeps: warning: 24 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin +dpkg-shlibdeps: warning: 20 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_FromStringAndSize: it's probably a plugin +dpkg-shlibdeps: warning: 17 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_IsInstance: it's probably a plugin +dpkg-shlibdeps: warning: 16 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_GetItem: it's probably a plugin +dpkg-shlibdeps: warning: 18 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_merging_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: 11 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_IsInstance: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin -dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it's probably a plugin +dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_FromStringAndSize: it's probably a plugin +dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 32 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin +dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Occurred: it's probably a plugin -dpkg-shlibdeps: warning: 17 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin +dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyImport_AddModule: it's probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyIter_Next: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_rigid_body_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyList_New: it's probably a plugin +dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it's probably a plugin dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/determine_unit_cell_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin -dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_IndexError: it's probably a plugin -dpkg-shlibdeps: warning: 29 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin -dpkg-shlibdeps: warning: 15 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin -dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_IsInstance: it's probably a plugin -dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyList_Type: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin -dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin -dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_FromStringAndSize: it's probably a plugin -dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyIter_Check: it's probably a plugin -dpkg-shlibdeps: warning: 18 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: 30 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: 20 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin +dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: 28 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Clear: it's probably a plugin +dpkg-shlibdeps: warning: 15 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_set_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyRange_Type: it's probably a plugin -dpkg-shlibdeps: warning: 16 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin -dpkg-shlibdeps: warning: 29 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin -dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin +dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyList_Type: it's probably a plugin -dpkg-shlibdeps: warning: 18 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_IsInstance: it's probably a plugin -dpkg-shlibdeps: warning: 20 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it's probably a plugin +dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PySlice_Type: it's probably a plugin +dpkg-shlibdeps: warning: 29 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin +dpkg-shlibdeps: warning: 23 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin dpkg-shlibdeps: warning: 25 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_FromStringAndSize: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_flumpy.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyCapsule_GetPointer: it's probably a plugin +dpkg-shlibdeps: warning: 131 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin dpkg-shlibdeps: warning: 20 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it's probably a plugin -dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgsb_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin -dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PySlice_Type: it's probably a plugin +dpkg-shlibdeps: warning: 24 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 17 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_anharmonic_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_image_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Occurred: it's probably a plugin +dpkg-shlibdeps: warning: 23 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_set_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 16 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin +dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyList_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin +dpkg-shlibdeps: warning: 25 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_IndexError: it's probably a plugin +dpkg-shlibdeps: warning: 28 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it's probably a plugin +dpkg-shlibdeps: warning: 29 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_HasAttrString: it's probably a plugin +dpkg-shlibdeps: warning: 16 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyList_Type: it's probably a plugin +dpkg-shlibdeps: warning: 16 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/omptbx_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_tiny_pse_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin +dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin +dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin +dpkg-shlibdeps: warning: 11 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it's probably a plugin +dpkg-shlibdeps: warning: 18 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin -dpkg-shlibdeps: warning: 20 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin -dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin -dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adptbx_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_IndexError: it's probably a plugin +dpkg-shlibdeps: warning: 19 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_HasAttrString: it's probably a plugin +dpkg-shlibdeps: warning: 19 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin +dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_covalent_radii_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_StopIteration: it's probably a plugin +dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin +dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_math_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyIter_Next: it's probably a plugin -dpkg-shlibdeps: warning: 22 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyList_Type: it's probably a plugin -dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyList_Type: it's probably a plugin +dpkg-shlibdeps: warning: 11 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it's probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin +dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_IndexError: it's probably a plugin +dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-313-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dh_installdeb -O--buildsystem=pybuild install -m0755 -d debian/libcctbx0/DEBIAN install -p -m0644 debian/.debhelper/generated/libcctbx0/triggers debian/libcctbx0/DEBIAN/triggers @@ -49848,19 +49886,19 @@ echo misc:Pre-Depends= >> debian/python3-cctbx.substvars install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/DEBIAN dpkg-gencontrol -ppython3-cctbx -ldebian/changelog -Tdebian/python3-cctbx.substvars -cdebian/control -Pdebian/.debhelper/python3-cctbx/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -UProtected -UBuilt-Using -UStatic-Built-Using -DPackage=python3-cctbx-dbgsym "-DDepends=python3-cctbx (= \${binary:Version})" "-DDescription=debug symbols for python3-cctbx" "-DBuild-Ids=0009b3532c07de5601c932e31549f37518f4b57d 03ae32d24c9c79b7e8195518caa53bed8578f5ea 04778e2eec3c9ba4b81204e279ca09df88d7c0f1 04c46ba6d395a316ff007569c511006184c57d46 04d296ba53361ea4b41730cf4480b42984a0448d 0690239da436922955c044f54d76483c56edb14e 06a4c12c976b60adfed234fa868662ec9e6b91b1 08c862d9654f43a32e0b192290ffcaf5c459455a 0939526e6cca9faad3dbf46db84a0fe54e62ec7c 098f44b6838b91465302a991445ea660a85910c1 0a6bd65a70079a6ba72ae9ad4a5c43349ed0fa2f 0ae2d8e5fee83a683b624f97dfaa0cc4876ff0e0 0e0399cf77d03563515149184522b65b313eb7c9 0fc8d0601d5fe8ea781d2775d2316aa98bbaa459 1113ec9ba537b8e8e6acb68788cc6759154ca6fe 1315ab3b914f9633f41e90df81335938b457aec1 14021c17e92b0b6c39777939e17f6c1b942198c1 14a8f666c328bdac945b1033c98ced306bf2dff9 159afcd0e177d6bccf26b6ef37d628b146b467f0 170e03d5523ad91858737c0f8e17b98829e1ef81 17225ea9dd664b59913aac1db4ad5f28a09722f4 17e7459ff498e517ebf1350c18d515e3ee09200b 182aeffc176d16c4c7a37e05bd0a092119b27b07 1857660266e52ae22153d02f13ffbd69cc3eb1af 1873a6a892cdab0e0ae175818e74ef4843f782d7 18a09a3fa18185bcdea0fd8acd12e889ccf38641 1e472f0826aed4f5a0462e90d782e1af40bee329 1ef2a076c90c35077fc66936cf72c9f5ff4733b4 2192d86a73fe2f5a6c509017938501191cea38df 232a7562e477f610a9ebc1bbe2f72e5d896424b1 23c1422f08ca4c0073a244f52fc7df1edf32c7e0 254791246799b5318fd9f8a59e507df71e1cc1ff 28c895d49c884406960841deb71f14723f98a6ef 2b997d03406e7c2274b8781dacb2ae848d5bf77a 2caf8659f2f3766f8972989ccbab78ca0d49eea0 2e7e1743b222e3d975e469954c5db160cbcfa7e1 30ae06b6afca1a0cff997a0a15bd93088758acd6 3596da2d13e39fb5fa75fe64471f5a5b3a500edc 372a14f72944575a34b7f452968a6faf6304a3cf 3915d958cba3a4ce8351e64d74655e88874fd790 3a289d010f84de541f5bd648f0c21a2daf993e46 3a98fcb681b35c81e11b72ce613e1d82f8130e38 3c176978f3ac83f0441d592cf38eb46c3a85d43a 3cf56549c5173ee3008b732967ec5f95e27ecde2 3d2e0f259bcd9aff666bcc398b42fb82f276cbcf 3efa7ff3ec5734f6984d845cf6de1a756811a92d 409737585338438f0629dd8bfaf08cbd0c9a9e2c 41d15b415f6bb80252f91251a78f3f5673080c9b 423d88e433f5c1c65015cbdb35acdefaf73bdbd7 431af97b44eabaa5a31461d2153910e54a3515b9 43673b4baf4572c75d110225f10c34d0ea030de5 43c290e9450dd51e11be4905f1ab26c6952898e5 444748b7e3370b424ff983297acf5265f08c3fcd 453ccde14d1831a543e6e6eb409b72f427a098ec 45427aaf5c26fc8a5be51e1dff310ba742d339b5 4612053ba125f191fc6373da09be34fe134ed616 47a6d9fe37d660c69f49b54457151e4f26ffa920 482ce2735bf73f7c77161301d1cd11b507034523 4c3450a75d09b7fc2b97ddce8b0d5e2883b86f72 4c3f6c15ca5a193732b3d3b7ca8cbd3b213a6e97 4f461057e9ceeae9300f0c00e90de754947eab46 4f9cf9a909f2479d636e355d0b8f301224e6fec4 5227d6e19eebd8a225109b9680eccdd0abeecd22 52c59e3f0dfbd6869f6588abcbb9aef807ccbf06 53aff7e84d75fed906519410e3318e52e66ed18b 545684d3debff85cee13166f1f384ae807c0809e 554490efad3a43195b2f31b20ffd51a9c99e188b 555b1d06d0a560d95075476833352ed6cab0a4aa 5597508a9377c18ec1e34b1efc3c9d00f517fcde 570d35d4c11138431b53ba9ea79c0db4a352ad37 59279ffb0c3e4348c917fdda1d4ad6c1d9b76eab 59d424c471e65cce392a8fcc0d23a9fb8ca09b51 5a04a4dedaba1d54ba8a4ab7d9a9ca491112648c 5a626be0c1df90508afa11fff58aa7e6765161e2 5b9f376dc467c5e50b096ba8f972bf62e79eb57e 5c82d85501dc2391cdc2afae7ce95f479d2a42c8 5edeb10b83246d6dde1e7f13a6f18f456fbdeaa4 603cb9a87375bf9aeb1b4a7561e769c3a6a05736 61966dff5b636ccb449a2c8281baa5a9c207c615 6600c6ea8840226509d74d5a7e7fb4764da14ee3 68ad680b2730ad7cfce3c71caf678c67baa8ca30 6a79b311437e267324c528a31193ca22d642c23b 6b409ebd1c391765fcb5740b6c8da9971e443394 6b5842e3b5296f0842bc4439a5ecdfe6d08a37f9 6b77690137d59d5c75a55c3d0dc97b435f8b98df 6ba0381f4b730eaed91ce82b7f43aea426238293 6f6310275a4974bf1cac2c6a9aac3a914ee0c2a6 6f69d0757f6b90f4dd7472028e73c3a6d3a50927 7045c3e55ff058ec3e5d64b35634bf06ab7aa4b9 704e552987b8ea403ee85ae74e28309284dc23d3 710e0fce002272ac41ef213e86730e2f4a69f166 712ac0da1b518030c0efcc710425cd2e8a0a62db 71d8edb10af360c0d865df34db59258473ebbc44 722cf783ceca6b8251ed0f27c315543410809416 74a2163f1336498dbf7d925da9828b5ca5904792 74c33a8963eba576d3b07fa3b182282979048844 7723580a073f7a8eb49d42b56fbe67153e93837d 7ae261895ccf639fe8e3510d06bb0b73ce30a611 7c41cb5246a356fab897f672967c37e2d0eaf08f 7cb15fdc66143966162baeacedfb84ab5f6a3612 8193bee3692487781a2d6343fdd490def550e716 8303f25720228c8925518500251301e40b568499 832415e85a52f30a69003207239c7ef49d9a74c7 837c3b50753f7cfb7921cd6daea76e5b957b95ac 860572b58bcc182f5cb198ceb5de68711886bc2d 889f4295de79fda273c150a6d287d37b81197e02 893d2614f2928d6feca02c1b981f90949e602787 8d0ac82f5aa8e1812a079bb59f988485c70e7da6 90a9d3a024809d47348929c4d455d33274504536 927e317dfee80f908e0e8e53960553a5556ff1c9 93ec8711e1b0c9efb3dd8822f8b37ca026100d1b 944c47938a4d20c122505ec3d5cf1adbd977b955 961819d90eb03deca5fdb20ccdc6773832a04c79 972dd811d23e29c4440188bb932f0e2d713a2288 989e2f1522c68f2f929e3ff697de102a76a568d6 98b75547acd6f2630f0bdd21bbe80ecf9f11fc51 994798b2388f2995cc212ed12ff11088058a6d1a 9a15a71b5bc5b2417cd25cf06e592af1c8ad3255 9a1b8b968005ef75b3e6f89396f120a1d1ea142d 9a6cfe86f7151cd1900394ceb3bc1e545ecb7332 9bafc78c6fb220bdbc52f4520eb3f396a954802e 9c4b39499486d9b252815e1898f4b9b2068923d0 9ce555f8d03a16582fb879a3731dbf6d5667aa4c 9dc7bbe7b4d5e554cb2a46ebf389e90d143b9339 9f0cba0bcf93964d7b9769c5f6337ee708b58fdd 9f441b68f475fd5b787d090e88da26ba49f50f3b a084d21c3ef949aa2647bbc0970d81a42c3470a1 a1f9190fb066b6ea3d8f9758268061b0999010e0 a3dec82dab72a63f2b0a362d2e1d4935235a56ad a47ebba48c51ff013d5a991794b27b7f6d285634 a4da91d7d422ae1723fe1178377eef4e53b4ba4b a7724ba98f2cf9b51c45bb9ca283f829572b1d58 a7bc3d12995040e65df20b9cfa8e16e19d2390c2 a99841ba6cee670267184b592d2d08586b4d3e34 ab7ffe35302c121d6d4e8056a5d0dd0210c4baec ac28897a06027c52910dad6962d3806ec80238f8 ae27fac6976757909b8f11ac4bac7dd3ca0d6585 b3597ec897ea5a9717538d8928558ecc64ea188f b35ac30e193838aefba04c0c327ad06cc5620be9 b4aad063bbd2f140cb94199e7452ec6607630d6b b4c1e42b80c5398619861af1b32b68c7130287e8 b527e4b0fe24479c30a3fa1943480fd5796ba288 b99125696f5f86563cb5b00d82643feef87f4153 baf1d40144b6f47782c4ba27ac0442c78c4c88e5 bbfde3953a6a98a688da152744889b435394b3a5 bd9fe4c7eb1e1de303a86bab52e47ce56b7635f1 be4ce968f7fc8fcef04ca987b110fcc0814a50a9 be594f1322cc2151c75801587b6ea73321296fbb bf00bc9619b4b102925fb66bdf5eb68456047a0e bf0a87474a8938b3dc60f7371b8192eb55fc3347 bfcbc17da1f9056026c065f863b28b99d2be9408 bffce3bfa7b368a6028781c50c00baae10019265 c093995070ae84db683ffb0ab7233f75c4324553 c10a4b4e35078f108a94b8140dda59ef46e84ac4 c29b0038a53be656b3dcf0a1bc5388d8dfe1273c c3d3a72c8014b0ec1f940db5eab8a9f62ddcb1dc c78f50df83730928c154200b2c31ce7b5c903912 c830f91360621a7f2ef9bd3a6aaf4283b0a75066 c864361e0209e2a4911e9f245487bf654d2ecec3 c9ca5aac3626260bfc7a5e0f4d33ccf654c71b10 cb5cd9db4240a708ef49329fed99c9771e6e94b0 cc129ee27ee3232e624b5e0b5885ae67f5aa0bf9 cd2e1d523407a5ea5cbedd404ba0caa960f4ba14 ce6e406074987c54726d8a1010806fb85d2bb75c ce9570ca56d54514bf6187036ce23f0c50497e64 cea3dfb0aef2024259dae883f66dd7d714bd7dbb cf41f74375ea08a5d6988b68c0053bd3ca95ef4e cf853f72ed9277812a8bcd2eea617b46559159fc d0389025d6ddf2a5e9571e641e113d7b4fbf2e29 d08e59acae064ac6777bd343a8a554c8282af044 d69462da9cbf62ca02befbff66bbbaa2f8b2bbeb d71d82c68a6558b8c60cc2c8533bf155e630c1fb d725cea31bda75ed0bf448f1e9042bd554b6c50c d830ad47c5b4da84648d4a1deafdb54c6da2cbd7 dc1995c9b5fe6e4bd8a0ca0a749cfbad9f8406aa dc36d13774da90c90448920bd3c128816b582034 dfc4df6ff9d9a6f60ed6d836b96816f371559aee e342cdcbe02b4c6b1e590da838b5fe43a0692ba6 e3a6a3b3c4b3d71db11e04d5a8d3ceacb0349758 e5e1753afc3b011ee29d1cddc193fc5d6d45d77f e89da4b903dbf1b171f0804539183ae256112586 e8fd33459a60217868f501836557d87ff2dd3a14 eb74d1e8173c46bd4aafd7b7f090146f7df76bac ed6cea462db6b759c4bbab7e2603bb1431f0ffc2 ed9b414636de1363f9b60d61dbf4da3823ede306 ee9995bcc0d36a9a2c0fba0a4eb8720ccb1517df ef9a0194a95f90dfc52d17908c9dc7334286dc36 f0648539bc2ef071516069d5484c62bf7794cb0f f11e0197670b3c77f838063f9916d2d07aa5008b f2c71f43e75b5b029426d8b8826f46e1c3b24473 f65bf991985ac24efe8c7074e1d27293b835202d f89d2889c430567a3f8199d9ffd1306c1446bc2a f8d4103baac8b7540823fa9c91e24c482388c869 f8d8137a6d6a982065f84c5c55c21e824c883cf9 f9109b3e052967708a63864db500ec68f04ef188 fa4f58ad803e9e51c15e4f6d74240951ddf4b9dc fbec79b7191308488ecefa6758f36831c61a48d2 fe5772d3ccda06bd816f8d694fce4a89579be83e fe982cd5d1188ca3f41c117fd12fbdb84713792a fea775a7583d1fb5dfa0d21c333570318e638666 ff18fc9d60d8143e87427abcec9411a7260f905c ffca660064ef791989ea4bd3b89c4a6c00849e69" -DSection=debug -UMulti-Arch -UReplaces -UBreaks - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/DEBIAN/control - dpkg-gencontrol -ppython3-cctbx -ldebian/changelog -Tdebian/python3-cctbx.substvars -cdebian/control -Pdebian/python3-cctbx - chmod 0644 -- debian/libcctbx-dev/DEBIAN/control chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/DEBIAN/control dpkg-gencontrol -plibcctbx0 -ldebian/changelog -Tdebian/libcctbx0.substvars -cdebian/control -Pdebian/libcctbx0 + chmod 0644 -- debian/libcctbx-dev/DEBIAN/control + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/DEBIAN/control + dpkg-gencontrol -ppython3-cctbx -ldebian/changelog -Tdebian/python3-cctbx.substvars -cdebian/control -Pdebian/python3-cctbx chmod 0644 -- debian/libcctbx0/DEBIAN/control chmod 0644 -- debian/python3-cctbx/DEBIAN/control dh_md5sums -O--buildsystem=pybuild install -m0755 -d debian/libcctbx0/DEBIAN - install -m0755 -d debian/libcctbx-dev/DEBIAN install -m0755 -d debian/python3-cctbx/DEBIAN - cd debian/libcctbx0 >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums + install -m0755 -d debian/libcctbx-dev/DEBIAN cd debian/libcctbx-dev >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums + cd debian/libcctbx0 >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums cd debian/python3-cctbx >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/libcctbx-dev/DEBIAN/md5sums chmod 0644 -- debian/libcctbx0/DEBIAN/md5sums @@ -49872,15 +49910,15 @@ cd debian/.debhelper/python3-cctbx/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/DEBIAN/md5sums dh_builddeb -O--buildsystem=pybuild - dpkg-deb --root-owner-group --build debian/libcctbx0 .. - dpkg-deb --root-owner-group --build debian/.debhelper/libcctbx0/dbgsym-root .. dpkg-deb --root-owner-group --build debian/libcctbx-dev .. + dpkg-deb --root-owner-group --build debian/.debhelper/libcctbx0/dbgsym-root .. + dpkg-deb --root-owner-group --build debian/libcctbx0 .. +dpkg-deb: building package 'libcctbx-dev' in '../libcctbx-dev_2024.10+ds2+~3.22.1+ds1-5_arm64.deb'. +dpkg-deb: building package 'libcctbx0-dbgsym' in '../libcctbx0-dbgsym_2024.10+ds2+~3.22.1+ds1-5_arm64.deb'. dpkg-deb --root-owner-group --build debian/python3-cctbx .. -dpkg-deb: building package 'python3-cctbx' in '../python3-cctbx_2024.10+ds2+~3.22.1+ds1-5_arm64.deb'. dpkg-deb: building package 'libcctbx0' in '../libcctbx0_2024.10+ds2+~3.22.1+ds1-5_arm64.deb'. +dpkg-deb: building package 'python3-cctbx' in '../python3-cctbx_2024.10+ds2+~3.22.1+ds1-5_arm64.deb'. dpkg-deb --root-owner-group --build debian/.debhelper/python3-cctbx/dbgsym-root .. -dpkg-deb: building package 'libcctbx0-dbgsym' in '../libcctbx0-dbgsym_2024.10+ds2+~3.22.1+ds1-5_arm64.deb'. -dpkg-deb: building package 'libcctbx-dev' in '../libcctbx-dev_2024.10+ds2+~3.22.1+ds1-5_arm64.deb'. dpkg-deb: building package 'python3-cctbx-dbgsym' in '../python3-cctbx-dbgsym_2024.10+ds2+~3.22.1+ds1-5_arm64.deb'. dpkg-genbuildinfo --build=binary -O../cctbx_2024.10+ds2+~3.22.1+ds1-5_arm64.buildinfo dpkg-genchanges --build=binary -O../cctbx_2024.10+ds2+~3.22.1+ds1-5_arm64.changes @@ -49889,12 +49927,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/3645850/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/3645850/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env -I: removing directory /srv/workspace/pbuilder/503896 and its subdirectories -I: Current time: Thu Aug 13 16:53:07 -12 2026 -I: pbuilder-time-stamp: 1786683187 +I: removing directory /srv/workspace/pbuilder/3645850 and its subdirectories +I: Current time: Sat Jul 12 12:13:07 +14 2025 +I: pbuilder-time-stamp: 1752271987