Diff of the two buildlogs: -- --- b1/build.log 2025-08-28 12:10:11.971689989 +0000 +++ b2/build.log 2025-08-28 12:15:59.440113592 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Thu Aug 28 00:01:43 -12 2025 -I: pbuilder-time-stamp: 1756382503 +I: Current time: Thu Oct 1 08:33:39 +14 2026 +I: pbuilder-time-stamp: 1790793219 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -26,53 +26,85 @@ dpkg-source: info: applying tao-pegtl-3.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/2154517/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/1102448/tmp/hooks/D01_modify_environment starting +debug: Running on codethink03-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 Sep 30 18:33 /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/1102448/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/1102448/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='04cf035a178946ff855dec7f577a9e66' - 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='2154517' - PS1='# ' - PS2='> ' + INVOCATION_ID=4514ccc24c764ed883080b63c979268d + 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=1102448 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.v8dx9BVG/pbuilderrc_UcLx --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.v8dx9BVG/b1 --logfile b1/build.log gemmi_0.7.1+ds-1.dsc' - SUDO_GID='109' - SUDO_HOME='/var/lib/jenkins' - 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.v8dx9BVG/pbuilderrc_ZLuK --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.v8dx9BVG/b2 --logfile b2/build.log gemmi_0.7.1+ds-1.dsc' + SUDO_GID=109 + SUDO_HOME=/var/lib/jenkins + 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 codethink04-arm64 6.12.41+deb13-cloud-arm64 #1 SMP Debian 6.12.41-1 (2025-08-12) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.12.41+deb13-cloud-arm64 #1 SMP Debian 6.12.41-1 (2025-08-12) aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/2154517/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/1102448/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -247,7 +279,7 @@ Get: 111 http://deb.debian.org/debian unstable/main arm64 python3-pygments all 2.18.0+dfsg-2 [836 kB] Get: 112 http://deb.debian.org/debian unstable/main arm64 python3-pytest all 8.4.1-1 [266 kB] Get: 113 http://deb.debian.org/debian unstable/main arm64 tao-pegtl-dev all 3.2.7-1 [69.4 kB] -Fetched 54.4 MB in 0s (146 MB/s) +Fetched 54.4 MB in 0s (185 MB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1: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 ... 20011 files and directories currently installed.) @@ -621,8 +653,8 @@ Setting up tzdata (2025b-5) ... Current default time zone: 'Etc/UTC' -Local time is now: Thu Aug 28 12:02:06 UTC 2025. -Universal Time is now: Thu Aug 28 12:02:06 UTC 2025. +Local time is now: Wed Sep 30 18:34:01 UTC 2026. +Universal Time is now: Wed Sep 30 18:34:01 UTC 2026. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20240727.1) ... @@ -728,7 +760,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/gemmi-0.7.1+ds/ && 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 > ../gemmi_0.7.1+ds-1_source.changes +I: user script /srv/workspace/pbuilder/1102448/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/1102448/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/gemmi-0.7.1+ds/ && 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 > ../gemmi_0.7.1+ds-1_source.changes dpkg-buildpackage: info: source package gemmi dpkg-buildpackage: info: source version 0.7.1+ds-1 dpkg-buildpackage: info: source distribution unstable @@ -767,7 +803,7 @@ -- The python module will be built. -- Found Python: /usr/bin/python3 (found version "3.13.7") found components: Interpreter Development.Module -- Found nanobind 2.5.0: /usr/share/nanobind --- Configuring done (2.4s) +-- Configuring done (2.0s) -- Generating done (0.1s) CMake Warning: Manually-specified variables were not used by the project: @@ -788,46 +824,48 @@ make[2]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' make -f CMakeFiles/gemmi_cpp.dir/build.make CMakeFiles/gemmi_cpp.dir/depend make -f CMakeFiles/options.dir/build.make CMakeFiles/options.dir/depend -make[3]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' -cd /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_cpp.dir/DependInfo.cmake "--color=" make -f CMakeFiles/nanobind-static.dir/build.make CMakeFiles/nanobind-static.dir/depend make[3]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' -cd /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/options.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' +cd /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_cpp.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/options.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/nanobind-static.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' make -f CMakeFiles/gemmi_cpp.dir/build.make CMakeFiles/gemmi_cpp.dir/build make[3]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' +[ 1%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/align.cpp.o make[3]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' -make -f CMakeFiles/nanobind-static.dir/build.make CMakeFiles/nanobind-static.dir/build +[ 1%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/assembly.cpp.o +[ 3%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/calculate.cpp.o +make -f CMakeFiles/options.dir/build.make CMakeFiles/options.dir/build +/usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/align.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/align.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/align.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/src/align.cpp make[3]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' -[ 0%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/assembly.cpp.o -/usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/assembly.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/assembly.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/assembly.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/src/assembly.cpp -[ 1%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/calculate.cpp.o -/usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.7.1+ds/third_party 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-I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/assembly.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/assembly.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/assembly.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/src/assembly.cpp +make -f CMakeFiles/nanobind-static.dir/build.make CMakeFiles/nanobind-static.dir/build +[ 5%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/ddl.cpp.o +[ 5%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/fprime.cpp.o make[3]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' -[ 5%] Building CXX object CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/nb_static_property.cpp.o +/usr/bin/c++ 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function 'std::pair gemmi::calculate_b_iso_range(const T&) [with T = Atom]': /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:86:80: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 @@ -837,12 +875,14 @@ /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:91:76: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 91 | inline std::pair calculate_b_aniso_range(const Model& model) { | ^ -[ 15%] Building CXX object CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/nb_ft.cpp.o -/usr/bin/c++ -I/usr/include/python3.13 -I/usr/share/nanobind/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden 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Building CXX object CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/common.cpp.o -/usr/bin/c++ -I/usr/include/python3.13 -I/usr/share/nanobind/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -fno-strict-aliasing -MD -MT CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/common.cpp.o -MF CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/common.cpp.o.d -o CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/common.cpp.o -c /usr/share/nanobind/src/common.cpp +[ 15%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/mmcif.cpp.o +/usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 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CMakeFiles/gemmi_cpp.dir/src/monlib.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/monlib.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/src/monlib.cpp -[ 28%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/mtz.cpp.o -/usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/mtz.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/mtz.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/mtz.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/src/mtz.cpp -[ 28%] Linking CXX static library libnanobind-static.a -/usr/bin/cmake -P CMakeFiles/nanobind-static.dir/cmake_clean_target.cmake -/usr/bin/cmake -E 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CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/nb_static_property.cpp.o +/usr/bin/c++ -I/usr/include/python3.13 -I/usr/share/nanobind/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -fno-strict-aliasing -MD -MT CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/nb_static_property.cpp.o -MF CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/nb_static_property.cpp.o.d -o CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/nb_static_property.cpp.o -c /usr/share/nanobind/src/nb_static_property.cpp +[ 28%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/riding_h.cpp.o /usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/riding_h.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/riding_h.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/riding_h.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/src/riding_h.cpp +[ 30%] Building CXX object CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/nb_ft.cpp.o +/usr/bin/c++ -I/usr/include/python3.13 -I/usr/share/nanobind/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -fno-strict-aliasing -MD -MT CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/nb_ft.cpp.o -MF CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/nb_ft.cpp.o.d -o CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/nb_ft.cpp.o -c /usr/share/nanobind/src/nb_ft.cpp +[ 30%] Building CXX object CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/common.cpp.o +/usr/bin/c++ -I/usr/include/python3.13 -I/usr/share/nanobind/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -fno-strict-aliasing -MD -MT CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/common.cpp.o -MF CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/common.cpp.o.d -o CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/common.cpp.o -c /usr/share/nanobind/src/common.cpp +[ 32%] Building CXX object CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/error.cpp.o +/usr/bin/c++ -I/usr/include/python3.13 -I/usr/share/nanobind/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -fno-strict-aliasing -MD -MT CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/error.cpp.o -MF CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/error.cpp.o.d -o CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/error.cpp.o -c /usr/share/nanobind/src/error.cpp In file included from /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/topo.hpp:14, from /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/riding_h.hpp:9, from /build/reproducible-path/gemmi-0.7.1+ds/src/riding_h.cpp:3: @@ -919,15 +944,26 @@ /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:91:76: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 91 | inline std::pair calculate_b_aniso_range(const Model& model) { | ^ -[ 33%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/select.cpp.o +[ 32%] Building CXX object CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/trampoline.cpp.o +/usr/bin/c++ -I/usr/include/python3.13 -I/usr/share/nanobind/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -fno-strict-aliasing -MD -MT CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/trampoline.cpp.o -MF CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/trampoline.cpp.o.d -o CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/trampoline.cpp.o -c /usr/share/nanobind/src/trampoline.cpp +[ 32%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/select.cpp.o /usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/select.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/select.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/select.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/src/select.cpp +[ 33%] Building CXX object CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/implicit.cpp.o +/usr/bin/c++ -I/usr/include/python3.13 -I/usr/share/nanobind/include -g -O2 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-D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/sprintf.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/sprintf.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/sprintf.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/src/sprintf.cpp +[ 35%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/symmetry.cpp.o +/usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/symmetry.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/symmetry.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/symmetry.cpp.o -c 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It may not work.' 30 | # pragma message("Using system stb_sprintf.h, not the bundled one. It may not work.") | ^ -[ 35%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/symmetry.cpp.o -/usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/symmetry.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/symmetry.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/symmetry.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/src/symmetry.cpp +[ 35%] Linking CXX static library libnanobind-static.a +/usr/bin/cmake -P CMakeFiles/nanobind-static.dir/cmake_clean_target.cmake +/usr/bin/cmake -E cmake_link_script CMakeFiles/nanobind-static.dir/link.txt --verbose=1 +/usr/bin/ar qc libnanobind-static.a "CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/nb_internals.cpp.o" "CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/nb_func.cpp.o" "CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/nb_type.cpp.o" "CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/nb_enum.cpp.o" "CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/nb_ndarray.cpp.o" "CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/nb_static_property.cpp.o" "CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/nb_ft.cpp.o" "CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/common.cpp.o" "CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/error.cpp.o" "CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/trampoline.cpp.o" "CMakeFiles/nanobind-static.dir/usr/share/nanobind/src/implicit.cpp.o" +/usr/bin/ranlib libnanobind-static.a +make[3]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' +[ 35%] Built target nanobind-static [ 37%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/to_json.cpp.o /usr/bin/c++ -DGEMMI_BUILD -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_cpp.dir/src/to_json.cpp.o -MF CMakeFiles/gemmi_cpp.dir/src/to_json.cpp.o.d -o CMakeFiles/gemmi_cpp.dir/src/to_json.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/src/to_json.cpp [ 37%] Building CXX object CMakeFiles/gemmi_cpp.dir/src/to_mmcif.cpp.o @@ -963,35 +999,35 @@ cd /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds 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CMakeFiles/gemmi_prog.dir/prog/blobs.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/blobs.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/blobs.cpp -[ 50%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/cif2json.cpp.o -[ 52%] Building CXX object CMakeFiles/gemmi_py.dir/python/ccp4.cpp.o -[ 52%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/convert.cpp.o -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/convert.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/convert.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/convert.cpp.o -c 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[with T = Atom]': /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:86:80: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 86 | template<> inline std::pair calculate_b_iso_range(const Atom& atom) { @@ -1000,7 +1036,13 @@ /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:91:76: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 91 | inline std::pair calculate_b_aniso_range(const Model& model) { | ^ -In file included from /build/reproducible-path/gemmi-0.7.1+ds/prog/blobs.cpp:13: +[ 54%] Building CXX object CMakeFiles/gemmi_py.dir/python/elem.cpp.o +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/usr/include/python3.13 -I/usr/share/nanobind/include -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat 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CMakeFiles/gemmi_py.dir/python/hkl.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/python/hkl.cpp +[ 60%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/crd.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/crd.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/crd.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/crd.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/crd.cpp +[ 60%] Building CXX object CMakeFiles/gemmi_py.dir/python/meta.cpp.o +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/usr/include/python3.13 -I/usr/share/nanobind/include 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-std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/ecalc.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/ecalc.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/ecalc.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/ecalc.cpp +[ 62%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/fprime.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/fprime.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/fprime.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/fprime.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/fprime.cpp +[ 62%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/grep.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/grep.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/grep.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/grep.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/grep.cpp +[ 64%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/h.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong 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-I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/ecalc.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/ecalc.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/ecalc.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/ecalc.cpp -[ 56%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/fprime.cpp.o -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard 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CMakeFiles/gemmi_prog.dir/prog/map2sf.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/map2sf.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/map2sf.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/map2sf.cpp In file included from /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/topo.hpp:14, from /build/reproducible-path/gemmi-0.7.1+ds/prog/h.cpp:12: /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp: In function 'std::pair gemmi::calculate_b_iso_range(const T&) [with T = Atom]': @@ -1059,49 +1099,17 @@ /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:91:76: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 91 | inline std::pair calculate_b_aniso_range(const Model& model) { | ^ -[ 66%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/mapcoef.cpp.o +[ 66%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/main.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 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-I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -Wno-psabi -MD -MT CMakeFiles/gemmi_prog.dir/prog/mtz.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/mtz.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/mtz.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/mtz.cpp -[ 73%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/mtz2cif.cpp.o -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/mtz2cif.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/mtz2cif.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/mtz2cif.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/mtz2cif.cpp -[ 73%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/reindex.cpp.o -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/reindex.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/reindex.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/reindex.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/reindex.cpp -[ 75%] Building CXX object CMakeFiles/gemmi_py.dir/python/hkl.cpp.o -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/usr/include/python3.13 -I/usr/share/nanobind/include -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -Wno-psabi -MD -MT CMakeFiles/gemmi_py.dir/python/hkl.cpp.o -MF CMakeFiles/gemmi_py.dir/python/hkl.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/hkl.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/python/hkl.cpp -[ 77%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/residues.cpp.o -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/residues.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/residues.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/residues.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/residues.cpp -[ 77%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/rmsz.cpp.o -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden 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-/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:91:76: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 - 91 | inline std::pair calculate_b_aniso_range(const Model& model) { - | ^ -[ 79%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/set.cpp.o -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/set.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/set.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/set.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/set.cpp -[ 79%] Building CXX object CMakeFiles/gemmi_py.dir/python/meta.cpp.o -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/usr/include/python3.13 -I/usr/share/nanobind/include -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_py.dir/python/meta.cpp.o -MF CMakeFiles/gemmi_py.dir/python/meta.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/meta.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/python/meta.cpp -[ 81%] Building CXX object CMakeFiles/gemmi_py.dir/python/mol.cpp.o +[ 71%] Building CXX object CMakeFiles/gemmi_py.dir/python/mol.cpp.o /usr/bin/c++ -Dgemmi_py_EXPORTS -I/usr/include/python3.13 -I/usr/share/nanobind/include -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_py.dir/python/mol.cpp.o -MF CMakeFiles/gemmi_py.dir/python/mol.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/mol.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/python/mol.cpp In file included from /build/reproducible-path/gemmi-0.7.1+ds/python/mol.cpp:4: /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp: In function 'std::pair gemmi::calculate_b_iso_range(const T&) [with T = Atom]': @@ -1112,8 +1120,6 @@ /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:91:76: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 91 | inline std::pair calculate_b_aniso_range(const Model& model) { | ^ -[ 81%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/sf2map.cpp.o -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/sf2map.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/sf2map.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/sf2map.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/sf2map.cpp /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp: In instantiation of 'std::pair gemmi::calculate_b_iso_range(const T&) [with T = Model]': /build/reproducible-path/gemmi-0.7.1+ds/python/mol.cpp:283:9: required from here 224 | pyModel @@ -1239,15 +1245,6 @@ /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:77:42: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 77 | template std::pair calculate_b_iso_range(const T& obj) { | ^~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/gemmi-0.7.1+ds/prog/sf2map.cpp:8: -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp: In function 'std::pair gemmi::calculate_b_iso_range(const T&) [with T = Atom]': -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:86:80: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 - 86 | template<> inline std::pair calculate_b_iso_range(const Atom& atom) { - | ^ -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp: In function 'std::pair gemmi::calculate_b_aniso_range(const Model&)': -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:91:76: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 - 91 | inline std::pair calculate_b_aniso_range(const Model& model) { - | ^ In file included from /usr/include/c++/14/bits/stl_algobase.h:64, from /usr/include/c++/14/algorithm:60, from /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/model.hpp:8, @@ -1262,6 +1259,8 @@ /usr/include/c++/14/bits/stl_pair.h:1132:5: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1132 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ +[ 71%] Building CXX object CMakeFiles/gemmi_py.dir/python/monlib.cpp.o +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/usr/include/python3.13 -I/usr/share/nanobind/include -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_py.dir/python/monlib.cpp.o -MF CMakeFiles/gemmi_py.dir/python/monlib.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/monlib.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/python/monlib.cpp /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp: In instantiation of 'std::pair gemmi::calculate_b_iso_range(const T&) [with T = Chain]': /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:80:35: required from 'std::pair gemmi::calculate_b_iso_range(const T&) [with T = Model]' 80 | auto r = calculate_b_iso_range(child); @@ -1390,106 +1389,8 @@ /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:77:42: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 77 | template std::pair calculate_b_iso_range(const T& obj) { | ^~~~~~~~~~~~~~~~~~~~~ -[ 83%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/sfcalc.cpp.o -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/sfcalc.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/sfcalc.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/sfcalc.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/sfcalc.cpp -[ 83%] Building CXX object CMakeFiles/gemmi_py.dir/python/monlib.cpp.o -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/usr/include/python3.13 -I/usr/share/nanobind/include -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_py.dir/python/monlib.cpp.o -MF CMakeFiles/gemmi_py.dir/python/monlib.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/monlib.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/python/monlib.cpp -In file included from /build/reproducible-path/gemmi-0.7.1+ds/prog/sfcalc.cpp:8: -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp: In function 'std::pair gemmi::calculate_b_iso_range(const T&) [with T = Atom]': -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:86:80: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 - 86 | template<> inline std::pair calculate_b_iso_range(const Atom& atom) { - | ^ -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp: In function 'std::pair gemmi::calculate_b_aniso_range(const Model&)': -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:91:76: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 - 91 | inline std::pair calculate_b_aniso_range(const Model& model) { - | ^ -[ 84%] Building CXX object CMakeFiles/gemmi_py.dir/python/mtz.cpp.o +[ 73%] Building CXX object CMakeFiles/gemmi_py.dir/python/mtz.cpp.o /usr/bin/c++ -Dgemmi_py_EXPORTS -I/usr/include/python3.13 -I/usr/share/nanobind/include -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -Wno-psabi -MD -MT CMakeFiles/gemmi_py.dir/python/mtz.cpp.o -MF CMakeFiles/gemmi_py.dir/python/mtz.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/mtz.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/python/mtz.cpp -[ 84%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/sg.cpp.o -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/sg.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/sg.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/sg.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/sg.cpp -[ 84%] Building CXX object CMakeFiles/gemmi_py.dir/python/read.cpp.o -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/usr/include/python3.13 -I/usr/share/nanobind/include -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_py.dir/python/read.cpp.o -MF CMakeFiles/gemmi_py.dir/python/read.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/read.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/python/read.cpp -In file included from /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/it92.hpp:16, - from /build/reproducible-path/gemmi-0.7.1+ds/prog/sfcalc.cpp:14: -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/formfact.hpp: In instantiation of 'std::pair gemmi::ExpSum::calculate_with_derivative(float) const [with int N = 5]': -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:20:54: required from 'Real gemmi::determine_cutoff_radius(Real, const ExpSum&, Real) [with int N = 5; Real = float]' - 20 | std::tie(y1, dy) = precal.calculate_with_derivative(x1); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:122:35: required from 'gemmi::DensityCalculator::CReal gemmi::DensityCalculator::estimate_radius(const gemmi::ExpSum&, CReal) const [with int N = 5; Table = gemmi::IT92; GReal = float; CReal = float; typename Table::Coef::coef_type = float; typename Table::Coef = gemmi::GaussianCoef<4, 1, float>]' - 122 | return determine_cutoff_radius(x1, precal, (CReal)cutoff); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:135:37: required from 'void gemmi::DensityCalculator::do_add_atom_density_to_grid(const gemmi::Atom&, const Coef&, float) [with Coef = gemmi::GaussianCoef<4, 1, float>; Table = gemmi::IT92; GReal = float]' - 135 | CReal radius = estimate_radius(precal, b); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~ -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:108:32: required from 'void gemmi::DensityCalculator::add_atom_density_to_grid(const gemmi::Atom&) [with Table = gemmi::IT92; GReal = float]' - 108 | do_add_atom_density_to_grid(atom, Table::get(el, atom.charge), addends.get(el)); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:182:11: required from 'void gemmi::DensityCalculator::add_model_density_to_grid(const gemmi::Model&) [with Table = gemmi::IT92; GReal = float]' - 182 | add_atom_density_to_grid(atom); - | ^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:187:5: required from 'void gemmi::DensityCalculator::put_model_density_on_grid(const gemmi::Model&) [with Table = gemmi::IT92; GReal = float]' - 187 | add_model_density_to_grid(model); - | ^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/gemmi-0.7.1+ds/prog/sfcalc.cpp:252:36: required from 'void {anonymous}::process_with_fft(const gemmi::Structure&, gemmi::DensityCalculator&, bool, const gemmi::AsuData >*, gemmi::Scaling&, bool, const RefFile&, const gemmi::AsuData >&, const char*) [with Table = gemmi::IT92; Real = float]' - 252 | dencalc.put_model_density_on_grid(st.models[0]); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/gemmi-0.7.1+ds/prog/sfcalc.cpp:736:23: required from 'void {anonymous}::process_with_table(bool, gemmi::Structure&, const gemmi::SmallStructure&, double, bool, const OptParser&) [with Table = gemmi::IT92]' - 736 | process_with_fft(st, dencalc, mott_bethe, mask_data_ptr, scaling, - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 737 | p.options[Verbose], file, scale_to, map_file); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/gemmi-0.7.1+ds/prog/sfcalc.cpp:857:43: required from here - 857 | process_with_table>(use_st, st, small, wavelength, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 858 | table == 'm', p); - | ~~~~~~~~~~~~~~~~ -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/formfact.hpp:74:26: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 - 74 | std::pair calculate_with_derivative(float r) const { - | ^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/formfact.hpp: In instantiation of 'std::pair<_ForwardIterator, _ForwardIterator> gemmi::ExpSum::calculate_with_derivative(Real) const [with int N = 1; Real = double]': -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:20:54: required from 'Real gemmi::determine_cutoff_radius(Real, const ExpSum&, Real) [with int N = 1; Real = double]' - 20 | std::tie(y1, dy) = precal.calculate_with_derivative(x1); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:122:35: required from 'gemmi::DensityCalculator::CReal gemmi::DensityCalculator::estimate_radius(const gemmi::ExpSum&, CReal) const [with int N = 1; Table = gemmi::Neutron92; GReal = float; CReal = double; typename Table::Coef::coef_type = double; typename Table::Coef = gemmi::GaussianCoef<0, 1, double>]' - 122 | return determine_cutoff_radius(x1, precal, (CReal)cutoff); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:135:37: required from 'void gemmi::DensityCalculator::do_add_atom_density_to_grid(const gemmi::Atom&, const Coef&, float) [with Coef = gemmi::GaussianCoef<0, 1, double>; Table = gemmi::Neutron92; GReal = float]' - 135 | CReal radius = estimate_radius(precal, b); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~ -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:108:32: required from 'void gemmi::DensityCalculator::add_atom_density_to_grid(const gemmi::Atom&) [with Table = gemmi::Neutron92; GReal = float]' - 108 | do_add_atom_density_to_grid(atom, Table::get(el, atom.charge), addends.get(el)); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:182:11: required from 'void gemmi::DensityCalculator::add_model_density_to_grid(const gemmi::Model&) [with Table = gemmi::Neutron92; GReal = float]' - 182 | add_atom_density_to_grid(atom); - | ^~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:187:5: required from 'void gemmi::DensityCalculator::put_model_density_on_grid(const gemmi::Model&) [with Table = gemmi::Neutron92; GReal = float]' - 187 | add_model_density_to_grid(model); - | ^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/gemmi-0.7.1+ds/prog/sfcalc.cpp:252:36: required from 'void {anonymous}::process_with_fft(const gemmi::Structure&, gemmi::DensityCalculator&, bool, const gemmi::AsuData >*, gemmi::Scaling&, bool, const RefFile&, const gemmi::AsuData >&, const char*) [with Table = gemmi::Neutron92; Real = float]' - 252 | dencalc.put_model_density_on_grid(st.models[0]); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/gemmi-0.7.1+ds/prog/sfcalc.cpp:736:23: required from 'void {anonymous}::process_with_table(bool, gemmi::Structure&, const gemmi::SmallStructure&, double, bool, const OptParser&) [with Table = gemmi::Neutron92]' - 736 | process_with_fft(st, dencalc, mott_bethe, mask_data_ptr, scaling, - | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 737 | p.options[Verbose], file, scale_to, map_file); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/gemmi-0.7.1+ds/prog/sfcalc.cpp:862:49: required from here - 862 | process_with_table>(use_st, st, small, 0., false, p); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/formfact.hpp:49:24: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 - 49 | std::pair calculate_with_derivative(Real r) const { - | ^~~~~~~~~~~~~~~~~~~~~~~~~ -[ 86%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/tags.cpp.o -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/tags.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/tags.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/tags.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/tags.cpp -In file included from /build/reproducible-path/gemmi-0.7.1+ds/prog/sfcalc.cpp:19: -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp: In function 'Real gemmi::determine_cutoff_radius(Real, const ExpSum&, Real) [with int N = 5; Real = float]': -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:20:54: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 - 20 | std::tie(y1, dy) = precal.calculate_with_derivative(x1); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ -/build/reproducible-path/gemmi-0.7.1+ds/prog/sfcalc.cpp: In function 'void {anonymous}::process_with_table(bool, gemmi::Structure&, const gemmi::SmallStructure&, double, bool, const OptParser&) [with Table = gemmi::C4322]': -/build/reproducible-path/gemmi-0.7.1+ds/prog/sfcalc.cpp:663:56: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 - 663 | double b_min = gemmi::calculate_b_aniso_range(st.models[0]).first; - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:91:34: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 91 | inline std::pair calculate_b_aniso_range(const Model& model) { | ^~~~~~~~~~~~~~~~~~~~~~~ @@ -1504,21 +1405,37 @@ /usr/share/nanobind/include/nanobind/nb_func.h:275:29: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 275 | cap->func((in.template get()) | ~~~~~^~~~ -[ 88%] Building CXX object CMakeFiles/gemmi_py.dir/python/recgrid.cpp.o -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/usr/include/python3.13 -I/usr/share/nanobind/include -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -Wno-psabi -MD -MT CMakeFiles/gemmi_py.dir/python/recgrid.cpp.o -MF CMakeFiles/gemmi_py.dir/python/recgrid.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/recgrid.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/python/recgrid.cpp -[ 88%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/validate.cpp.o -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/validate.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/validate.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/validate.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/validate.cpp +[ 73%] Building CXX object CMakeFiles/gemmi_py.dir/python/read.cpp.o +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/usr/include/python3.13 -I/usr/share/nanobind/include -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_py.dir/python/read.cpp.o -MF CMakeFiles/gemmi_py.dir/python/read.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/read.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/python/read.cpp +[ 75%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/merge.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/merge.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/merge.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/merge.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/merge.cpp /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp: In function 'std::pair gemmi::calculate_b_iso_range(const T&) [with T = Residue]': /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:80:35: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 80 | auto r = calculate_b_iso_range(child); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~ -[ 88%] Building CXX object CMakeFiles/gemmi_py.dir/python/scaling.cpp.o +[ 77%] Building CXX object CMakeFiles/gemmi_py.dir/python/recgrid.cpp.o +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/usr/include/python3.13 -I/usr/share/nanobind/include -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -Wno-psabi -MD -MT CMakeFiles/gemmi_py.dir/python/recgrid.cpp.o -MF CMakeFiles/gemmi_py.dir/python/recgrid.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/recgrid.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/python/recgrid.cpp +[ 77%] Building CXX object CMakeFiles/gemmi_py.dir/python/scaling.cpp.o /usr/bin/c++ -Dgemmi_py_EXPORTS -I/usr/include/python3.13 -I/usr/share/nanobind/include -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_py.dir/python/scaling.cpp.o -MF CMakeFiles/gemmi_py.dir/python/scaling.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/scaling.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/python/scaling.cpp -[ 90%] Building CXX object CMakeFiles/gemmi_py.dir/python/search.cpp.o +[ 77%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/mondiff.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/mondiff.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/mondiff.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/mondiff.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/mondiff.cpp +[ 79%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/monlib_opt.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/monlib_opt.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/monlib_opt.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/monlib_opt.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/monlib_opt.cpp +/usr/share/nanobind/include/nanobind/nb_func.h: In static member function 'static constexpr PyObject* nanobind::detail::func_create (*&)(const gemmi::Model&), std::pair, const gemmi::Model&, 0, nanobind::scope, nanobind::name, nanobind::is_method>(std::pair (*&)(const gemmi::Model&), std::pair (*)(const gemmi::Model&), std::index_sequence<0>, const nanobind::scope&, const nanobind::name&, const nanobind::is_method&)::::_FUN(void*, PyObject**, uint8_t*, nanobind::rv_policy, nanobind::detail::cleanup_list*)': +/usr/share/nanobind/include/nanobind/nb_func.h:219:14: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 + 219 | f.impl = [](void *p, PyObject **args, uint8_t *args_flags, rv_policy policy, + | ^ +/usr/share/nanobind/include/nanobind/nb_func.h: In static member function 'static constexpr PyObject* nanobind::detail::func_create (*&)(const gemmi::Model&), std::pair, const gemmi::Model&, 0, nanobind::scope, nanobind::name, nanobind::is_method>(std::pair (*&)(const gemmi::Model&), std::pair (*)(const gemmi::Model&), std::index_sequence<0>, const nanobind::scope&, const nanobind::name&, const nanobind::is_method&)::::_FUN(void*, PyObject**, uint8_t*, nanobind::rv_policy, nanobind::detail::cleanup_list*)': +/usr/share/nanobind/include/nanobind/nb_func.h:219:14: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 +[ 81%] Building CXX object CMakeFiles/gemmi_py.dir/python/search.cpp.o /usr/bin/c++ -Dgemmi_py_EXPORTS -I/usr/include/python3.13 -I/usr/share/nanobind/include -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_py.dir/python/search.cpp.o -MF CMakeFiles/gemmi_py.dir/python/search.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/search.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/python/search.cpp -[ 90%] Building CXX object CMakeFiles/gemmi_py.dir/python/sf.cpp.o +[ 81%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/mtz.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -Wno-psabi -MD -MT CMakeFiles/gemmi_prog.dir/prog/mtz.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/mtz.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/mtz.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/mtz.cpp +[ 83%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/mtz2cif.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/mtz2cif.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/mtz2cif.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/mtz2cif.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/mtz2cif.cpp +[ 83%] Building CXX object CMakeFiles/gemmi_py.dir/python/sf.cpp.o /usr/bin/c++ -Dgemmi_py_EXPORTS -I/usr/include/python3.13 -I/usr/share/nanobind/include -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_py.dir/python/sf.cpp.o -MF CMakeFiles/gemmi_py.dir/python/sf.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/sf.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/python/sf.cpp -[ 92%] Building CXX object CMakeFiles/gemmi_py.dir/python/sym.cpp.o +[ 84%] Building CXX object CMakeFiles/gemmi_py.dir/python/sym.cpp.o /usr/bin/c++ -Dgemmi_py_EXPORTS -I/usr/include/python3.13 -I/usr/share/nanobind/include -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_py.dir/python/sym.cpp.o -MF CMakeFiles/gemmi_py.dir/python/sym.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/sym.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/python/sym.cpp In file included from /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:13, from /build/reproducible-path/gemmi-0.7.1+ds/python/sf.cpp:10: @@ -1530,12 +1447,6 @@ /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:91:76: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 91 | inline std::pair calculate_b_aniso_range(const Model& model) { | ^ -/usr/share/nanobind/include/nanobind/nb_func.h: In static member function 'static constexpr PyObject* nanobind::detail::func_create (*&)(const gemmi::Model&), std::pair, const gemmi::Model&, 0, nanobind::scope, nanobind::name, nanobind::is_method>(std::pair (*&)(const gemmi::Model&), std::pair (*)(const gemmi::Model&), std::index_sequence<0>, const nanobind::scope&, const nanobind::name&, const nanobind::is_method&)::::_FUN(void*, PyObject**, uint8_t*, nanobind::rv_policy, nanobind::detail::cleanup_list*)': -/usr/share/nanobind/include/nanobind/nb_func.h:219:14: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 - 219 | f.impl = [](void *p, PyObject **args, uint8_t *args_flags, rv_policy policy, - | ^ -/usr/share/nanobind/include/nanobind/nb_func.h: In static member function 'static constexpr PyObject* nanobind::detail::func_create (*&)(const gemmi::Model&), std::pair, const gemmi::Model&, 0, nanobind::scope, nanobind::name, nanobind::is_method>(std::pair (*&)(const gemmi::Model&), std::pair (*)(const gemmi::Model&), std::index_sequence<0>, const nanobind::scope&, const nanobind::name&, const nanobind::is_method&)::::_FUN(void*, PyObject**, uint8_t*, nanobind::rv_policy, nanobind::detail::cleanup_list*)': -/usr/share/nanobind/include/nanobind/nb_func.h:219:14: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 In file included from /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/it92.hpp:16, from /build/reproducible-path/gemmi-0.7.1+ds/python/sf.cpp:6: /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/formfact.hpp: In instantiation of 'std::pair gemmi::ExpSum::calculate_with_derivative(float) const [with int N = 5]': @@ -1554,6 +1465,12 @@ /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/formfact.hpp:74:26: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 74 | std::pair calculate_with_derivative(float r) const { | ^~~~~~~~~~~~~~~~~~~~~~~~~ +[ 84%] Building CXX object CMakeFiles/gemmi_py.dir/python/topo.cpp.o +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/usr/include/python3.13 -I/usr/share/nanobind/include -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_py.dir/python/topo.cpp.o -MF CMakeFiles/gemmi_py.dir/python/topo.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/topo.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/python/topo.cpp +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp: In function 'std::pair gemmi::calculate_b_aniso_range(const Model&)': +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:91:34: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 + 91 | inline std::pair calculate_b_aniso_range(const Model& model) { + | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/formfact.hpp: In instantiation of 'std::pair<_ForwardIterator, _ForwardIterator> gemmi::ExpSum::calculate_with_derivative(Real) const [with int N = 1; Real = double]': /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:20:54: required from 'Real gemmi::determine_cutoff_radius(Real, const ExpSum&, Real) [with int N = 1; Real = double]' 20 | std::tie(y1, dy) = precal.calculate_with_derivative(x1); @@ -1592,8 +1509,8 @@ /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/formfact.hpp:74:26: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 74 | std::pair calculate_with_derivative(float r) const { | ^~~~~~~~~~~~~~~~~~~~~~~~~ -[ 92%] Building CXX object CMakeFiles/gemmi_py.dir/python/topo.cpp.o -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/usr/include/python3.13 -I/usr/share/nanobind/include -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_py.dir/python/topo.cpp.o -MF CMakeFiles/gemmi_py.dir/python/topo.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/topo.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/python/topo.cpp +[ 84%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/reindex.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/reindex.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/reindex.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/reindex.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/reindex.cpp /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp: In member function 'void gemmi::DensityCalculator::set_refmac_compatible_blur(const gemmi::Model&, bool) [with Table = gemmi::IT92; GReal = float]': /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:99:43: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 99 | double b_min = calculate_b_aniso_range(model).first; @@ -1608,18 +1525,60 @@ /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:91:76: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 91 | inline std::pair calculate_b_aniso_range(const Model& model) { | ^ +[ 86%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/residues.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/residues.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/residues.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/residues.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/residues.cpp +[ 88%] Building CXX object CMakeFiles/gemmi_py.dir/python/unitcell.cpp.o +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/usr/include/python3.13 -I/usr/share/nanobind/include -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_py.dir/python/unitcell.cpp.o -MF CMakeFiles/gemmi_py.dir/python/unitcell.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/unitcell.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/python/unitcell.cpp +[ 88%] Building CXX object CMakeFiles/gemmi_py.dir/python/write.cpp.o +/usr/bin/c++ -Dgemmi_py_EXPORTS -I/usr/include/python3.13 -I/usr/share/nanobind/include -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_py.dir/python/write.cpp.o -MF CMakeFiles/gemmi_py.dir/python/write.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/write.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/python/write.cpp +[ 88%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/rmsz.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/rmsz.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/rmsz.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/rmsz.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/rmsz.cpp +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp: In function 'std::pair gemmi::calculate_b_iso_range(const T&) [with T = Chain]': +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:80:35: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 + 80 | auto r = calculate_b_iso_range(child); + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~ +In file included from /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/topo.hpp:14, + from /build/reproducible-path/gemmi-0.7.1+ds/prog/rmsz.cpp:8: +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp: In function 'std::pair gemmi::calculate_b_iso_range(const T&) [with T = Atom]': +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:86:80: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 + 86 | template<> inline std::pair calculate_b_iso_range(const Atom& atom) { + | ^ /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp: In function 'std::pair gemmi::calculate_b_aniso_range(const Model&)': -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:91:34: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:91:76: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 91 | inline std::pair calculate_b_aniso_range(const Model& model) { - | ^~~~~~~~~~~~~~~~~~~~~~~ -[ 94%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/validate_mon.cpp.o + | ^ +[ 90%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/set.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/set.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/set.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/set.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/set.cpp +[ 90%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/sf2map.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/sf2map.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/sf2map.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/sf2map.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/sf2map.cpp +In file included from /build/reproducible-path/gemmi-0.7.1+ds/prog/sf2map.cpp:8: +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp: In function 'std::pair gemmi::calculate_b_iso_range(const T&) [with T = Atom]': +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:86:80: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 + 86 | template<> inline std::pair calculate_b_iso_range(const Atom& atom) { + | ^ +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp: In function 'std::pair gemmi::calculate_b_aniso_range(const Model&)': +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:91:76: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 + 91 | inline std::pair calculate_b_aniso_range(const Model& model) { + | ^ +[ 92%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/sfcalc.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/sfcalc.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/sfcalc.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/sfcalc.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/sfcalc.cpp +[ 92%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/sg.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/sg.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/sg.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/sg.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/sg.cpp +[ 94%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/tags.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/tags.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/tags.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/tags.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/tags.cpp +In file included from /build/reproducible-path/gemmi-0.7.1+ds/prog/sfcalc.cpp:8: +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp: In function 'std::pair gemmi::calculate_b_iso_range(const T&) [with T = Atom]': +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:86:80: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 + 86 | template<> inline std::pair calculate_b_iso_range(const Atom& atom) { + | ^ +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp: In function 'std::pair gemmi::calculate_b_aniso_range(const Model&)': +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:91:76: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 + 91 | inline std::pair calculate_b_aniso_range(const Model& model) { + | ^ +[ 94%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/validate.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/validate.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/validate.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/validate.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/validate.cpp +[ 96%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/validate_mon.cpp.o /usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/validate_mon.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/validate_mon.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/validate_mon.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/validate_mon.cpp -[ 96%] Building CXX object CMakeFiles/gemmi_py.dir/python/unitcell.cpp.o -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/usr/include/python3.13 -I/usr/share/nanobind/include -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_py.dir/python/unitcell.cpp.o -MF CMakeFiles/gemmi_py.dir/python/unitcell.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/unitcell.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/python/unitcell.cpp -[ 96%] Building CXX object CMakeFiles/gemmi_py.dir/python/write.cpp.o -/usr/bin/c++ -Dgemmi_py_EXPORTS -I/usr/include/python3.13 -I/usr/share/nanobind/include -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fPIC -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_py.dir/python/write.cpp.o -MF CMakeFiles/gemmi_py.dir/python/write.cpp.o.d -o CMakeFiles/gemmi_py.dir/python/write.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/python/write.cpp -[ 96%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/wcn.cpp.o -/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/wcn.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/wcn.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/wcn.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/wcn.cpp In file included from /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/topo.hpp:14, from /build/reproducible-path/gemmi-0.7.1+ds/prog/validate_mon.cpp:10: /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp: In function 'std::pair gemmi::calculate_b_iso_range(const T&) [with T = Atom]': @@ -1630,18 +1589,93 @@ /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:91:76: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 91 | inline std::pair calculate_b_aniso_range(const Model& model) { | ^ +In file included from /build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/it92.hpp:16, + from /build/reproducible-path/gemmi-0.7.1+ds/prog/sfcalc.cpp:14: +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/formfact.hpp: In instantiation of 'std::pair gemmi::ExpSum::calculate_with_derivative(float) const [with int N = 5]': +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:20:54: required from 'Real gemmi::determine_cutoff_radius(Real, const ExpSum&, Real) [with int N = 5; Real = float]' + 20 | std::tie(y1, dy) = precal.calculate_with_derivative(x1); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:122:35: required from 'gemmi::DensityCalculator::CReal gemmi::DensityCalculator::estimate_radius(const gemmi::ExpSum&, CReal) const [with int N = 5; Table = gemmi::IT92; GReal = float; CReal = float; typename Table::Coef::coef_type = float; typename Table::Coef = gemmi::GaussianCoef<4, 1, float>]' + 122 | return determine_cutoff_radius(x1, precal, (CReal)cutoff); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:135:37: required from 'void gemmi::DensityCalculator::do_add_atom_density_to_grid(const gemmi::Atom&, const Coef&, float) [with Coef = gemmi::GaussianCoef<4, 1, float>; Table = gemmi::IT92; GReal = float]' + 135 | CReal radius = estimate_radius(precal, b); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:108:32: required from 'void gemmi::DensityCalculator::add_atom_density_to_grid(const gemmi::Atom&) [with Table = gemmi::IT92; GReal = float]' + 108 | do_add_atom_density_to_grid(atom, Table::get(el, atom.charge), addends.get(el)); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:182:11: required from 'void gemmi::DensityCalculator::add_model_density_to_grid(const gemmi::Model&) [with Table = gemmi::IT92; GReal = float]' + 182 | add_atom_density_to_grid(atom); + | ^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:187:5: required from 'void gemmi::DensityCalculator::put_model_density_on_grid(const gemmi::Model&) [with Table = gemmi::IT92; GReal = float]' + 187 | add_model_density_to_grid(model); + | ^~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/gemmi-0.7.1+ds/prog/sfcalc.cpp:252:36: required from 'void {anonymous}::process_with_fft(const gemmi::Structure&, gemmi::DensityCalculator&, bool, const gemmi::AsuData >*, gemmi::Scaling&, bool, const RefFile&, const gemmi::AsuData >&, const char*) [with Table = gemmi::IT92; Real = float]' + 252 | dencalc.put_model_density_on_grid(st.models[0]); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/gemmi-0.7.1+ds/prog/sfcalc.cpp:736:23: required from 'void {anonymous}::process_with_table(bool, gemmi::Structure&, const gemmi::SmallStructure&, double, bool, const OptParser&) [with Table = gemmi::IT92]' + 736 | process_with_fft(st, dencalc, mott_bethe, mask_data_ptr, scaling, + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 737 | p.options[Verbose], file, scale_to, map_file); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/gemmi-0.7.1+ds/prog/sfcalc.cpp:857:43: required from here + 857 | process_with_table>(use_st, st, small, wavelength, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 858 | table == 'm', p); + | ~~~~~~~~~~~~~~~~ +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/formfact.hpp:74:26: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 + 74 | std::pair calculate_with_derivative(float r) const { + | ^~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/formfact.hpp: In instantiation of 'std::pair<_ForwardIterator, _ForwardIterator> gemmi::ExpSum::calculate_with_derivative(Real) const [with int N = 1; Real = double]': +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:20:54: required from 'Real gemmi::determine_cutoff_radius(Real, const ExpSum&, Real) [with int N = 1; Real = double]' + 20 | std::tie(y1, dy) = precal.calculate_with_derivative(x1); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:122:35: required from 'gemmi::DensityCalculator::CReal gemmi::DensityCalculator::estimate_radius(const gemmi::ExpSum&, CReal) const [with int N = 1; Table = gemmi::Neutron92; GReal = float; CReal = double; typename Table::Coef::coef_type = double; typename Table::Coef = gemmi::GaussianCoef<0, 1, double>]' + 122 | return determine_cutoff_radius(x1, precal, (CReal)cutoff); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:135:37: required from 'void gemmi::DensityCalculator::do_add_atom_density_to_grid(const gemmi::Atom&, const Coef&, float) [with Coef = gemmi::GaussianCoef<0, 1, double>; Table = gemmi::Neutron92; GReal = float]' + 135 | CReal radius = estimate_radius(precal, b); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:108:32: required from 'void gemmi::DensityCalculator::add_atom_density_to_grid(const gemmi::Atom&) [with Table = gemmi::Neutron92; GReal = float]' + 108 | do_add_atom_density_to_grid(atom, Table::get(el, atom.charge), addends.get(el)); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:182:11: required from 'void gemmi::DensityCalculator::add_model_density_to_grid(const gemmi::Model&) [with Table = gemmi::Neutron92; GReal = float]' + 182 | add_atom_density_to_grid(atom); + | ^~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:187:5: required from 'void gemmi::DensityCalculator::put_model_density_on_grid(const gemmi::Model&) [with Table = gemmi::Neutron92; GReal = float]' + 187 | add_model_density_to_grid(model); + | ^~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/gemmi-0.7.1+ds/prog/sfcalc.cpp:252:36: required from 'void {anonymous}::process_with_fft(const gemmi::Structure&, gemmi::DensityCalculator&, bool, const gemmi::AsuData >*, gemmi::Scaling&, bool, const RefFile&, const gemmi::AsuData >&, const char*) [with Table = gemmi::Neutron92; Real = float]' + 252 | dencalc.put_model_density_on_grid(st.models[0]); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/gemmi-0.7.1+ds/prog/sfcalc.cpp:736:23: required from 'void {anonymous}::process_with_table(bool, gemmi::Structure&, const gemmi::SmallStructure&, double, bool, const OptParser&) [with Table = gemmi::Neutron92]' + 736 | process_with_fft(st, dencalc, mott_bethe, mask_data_ptr, scaling, + | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 737 | p.options[Verbose], file, scale_to, map_file); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/gemmi-0.7.1+ds/prog/sfcalc.cpp:862:49: required from here + 862 | process_with_table>(use_st, st, small, 0., false, p); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/formfact.hpp:49:24: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 + 49 | std::pair calculate_with_derivative(Real r) const { + | ^~~~~~~~~~~~~~~~~~~~~~~~~ +[ 96%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/wcn.cpp.o +/usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/wcn.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/wcn.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/wcn.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/wcn.cpp +In file included from /build/reproducible-path/gemmi-0.7.1+ds/prog/sfcalc.cpp:19: +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp: In function 'Real gemmi::determine_cutoff_radius(Real, const ExpSum&, Real) [with int N = 5; Real = float]': +/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/dencalc.hpp:20:54: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 + 20 | std::tie(y1, dy) = precal.calculate_with_derivative(x1); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ +/build/reproducible-path/gemmi-0.7.1+ds/prog/sfcalc.cpp: In function 'void {anonymous}::process_with_table(bool, gemmi::Structure&, const gemmi::SmallStructure&, double, bool, const OptParser&) [with Table = gemmi::C4322]': +/build/reproducible-path/gemmi-0.7.1+ds/prog/sfcalc.cpp:663:56: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 + 663 | double b_min = gemmi::calculate_b_aniso_range(st.models[0]).first; + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ [ 98%] Building CXX object CMakeFiles/gemmi_prog.dir/prog/xds2mtz.cpp.o /usr/bin/c++ -DGEMMI_ALL_IN_ONE=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/gemmi_prog.dir/prog/xds2mtz.cpp.o -MF CMakeFiles/gemmi_prog.dir/prog/xds2mtz.cpp.o.d -o CMakeFiles/gemmi_prog.dir/prog/xds2mtz.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/prog/xds2mtz.cpp -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp: In function 'std::pair gemmi::calculate_b_iso_range(const T&) [with T = Chain]': -/build/reproducible-path/gemmi-0.7.1+ds/include/gemmi/calculate.hpp:80:35: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 - 80 | auto r = calculate_b_iso_range(child); - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~ [100%] Linking CXX shared module py/gemmi/gemmi_ext.cpython-313-aarch64-linux-gnu.so Copying gemmi/__init__.py /usr/bin/cmake -E copy /build/reproducible-path/gemmi-0.7.1+ds/python/gemmi/__init__.py py/gemmi/__init__.py /usr/bin/cmake -E cmake_link_script CMakeFiles/gemmi_py.dir/link.txt --verbose=1 -[100%] Linking CXX executable gemmi -/usr/bin/cmake -E cmake_link_script CMakeFiles/gemmi_prog.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,--dependency-file=CMakeFiles/gemmi_py.dir/link.d -Wl,-z,relro -shared -o py/gemmi/gemmi_ext.cpython-313-aarch64-linux-gnu.so CMakeFiles/gemmi_py.dir/python/gemmi.cpp.o CMakeFiles/gemmi_py.dir/python/align.cpp.o CMakeFiles/gemmi_py.dir/python/ccp4.cpp.o CMakeFiles/gemmi_py.dir/python/chemcomp.cpp.o CMakeFiles/gemmi_py.dir/python/cif.cpp.o CMakeFiles/gemmi_py.dir/python/custom.cpp.o CMakeFiles/gemmi_py.dir/python/elem.cpp.o CMakeFiles/gemmi_py.dir/python/grid.cpp.o CMakeFiles/gemmi_py.dir/python/hkl.cpp.o CMakeFiles/gemmi_py.dir/python/meta.cpp.o CMakeFiles/gemmi_py.dir/python/mol.cpp.o CMakeFiles/gemmi_py.dir/python/monlib.cpp.o CMakeFiles/gemmi_py.dir/python/mtz.cpp.o CMakeFiles/gemmi_py.dir/python/read.cpp.o CMakeFiles/gemmi_py.dir/python/recgrid.cpp.o CMakeFiles/gemmi_py.dir/python/scaling.cpp.o CMakeFiles/gemmi_py.dir/python/search.cpp.o CMakeFiles/gemmi_py.dir/python/sf.cpp.o CMakeFiles/gemmi_py.dir/python/sym.cpp.o CMakeFiles/gemmi_py.dir/python/topo.cpp.o CMakeFiles/gemmi_py.dir/python/unitcell.cpp.o CMakeFiles/gemmi_py.dir/python/write.cpp.o CMakeFiles/gemmi_cpp.dir/src/align.cpp.o CMakeFiles/gemmi_cpp.dir/src/assembly.cpp.o CMakeFiles/gemmi_cpp.dir/src/calculate.cpp.o CMakeFiles/gemmi_cpp.dir/src/ccp4.cpp.o CMakeFiles/gemmi_cpp.dir/src/crd.cpp.o CMakeFiles/gemmi_cpp.dir/src/ddl.cpp.o CMakeFiles/gemmi_cpp.dir/src/eig3.cpp.o CMakeFiles/gemmi_cpp.dir/src/fprime.cpp.o CMakeFiles/gemmi_cpp.dir/src/gz.cpp.o CMakeFiles/gemmi_cpp.dir/src/intensit.cpp.o CMakeFiles/gemmi_cpp.dir/src/json.cpp.o CMakeFiles/gemmi_cpp.dir/src/mmcif.cpp.o CMakeFiles/gemmi_cpp.dir/src/mmread_gz.cpp.o CMakeFiles/gemmi_cpp.dir/src/monlib.cpp.o CMakeFiles/gemmi_cpp.dir/src/mtz.cpp.o CMakeFiles/gemmi_cpp.dir/src/mtz2cif.cpp.o CMakeFiles/gemmi_cpp.dir/src/pdb.cpp.o CMakeFiles/gemmi_cpp.dir/src/polyheur.cpp.o CMakeFiles/gemmi_cpp.dir/src/read_cif.cpp.o CMakeFiles/gemmi_cpp.dir/src/resinfo.cpp.o CMakeFiles/gemmi_cpp.dir/src/riding_h.cpp.o CMakeFiles/gemmi_cpp.dir/src/select.cpp.o CMakeFiles/gemmi_cpp.dir/src/sprintf.cpp.o CMakeFiles/gemmi_cpp.dir/src/symmetry.cpp.o CMakeFiles/gemmi_cpp.dir/src/to_json.cpp.o CMakeFiles/gemmi_cpp.dir/src/to_mmcif.cpp.o CMakeFiles/gemmi_cpp.dir/src/to_pdb.cpp.o CMakeFiles/gemmi_cpp.dir/src/topo.cpp.o CMakeFiles/gemmi_cpp.dir/src/xds_ascii.cpp.o libnanobind-static.a /usr/lib/aarch64-linux-gnu/libz.so make[3]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' [100%] Built target gemmi_py @@ -1652,22 +1686,24 @@ make[3]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' cd /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_cif_stub.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' -make -f CMakeFiles/gemmi_cif_stub.dir/build.make CMakeFiles/gemmi_cif_stub.dir/build -make[3]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' make -f CMakeFiles/gemmi_stub.dir/build.make CMakeFiles/gemmi_stub.dir/build make[3]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' +make -f CMakeFiles/gemmi_cif_stub.dir/build.make CMakeFiles/gemmi_cif_stub.dir/build +make[3]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' [100%] Generating py/gemmi/py.typed, py/gemmi/__init__.pyi -/usr/bin/python3 /usr/share/nanobind/stubgen.py -q -i py -p /build/reproducible-path/gemmi-0.7.1+ds/python/stubs.pat -M py/gemmi/py.typed -m gemmi -o py/gemmi/__init__.pyi [100%] Generating py/gemmi/cif.pyi /usr/bin/python3 /usr/share/nanobind/stubgen.py -q -i py -m gemmi.cif -o py/gemmi/cif.pyi +/usr/bin/python3 /usr/share/nanobind/stubgen.py -q -i py -p /build/reproducible-path/gemmi-0.7.1+ds/python/stubs.pat -M py/gemmi/py.typed -m gemmi -o py/gemmi/__init__.pyi make[3]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' [100%] Built target gemmi_cif_stub +make[3]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' +[100%] Built target gemmi_stub +[100%] Linking CXX executable gemmi +/usr/bin/cmake -E cmake_link_script CMakeFiles/gemmi_prog.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,--dependency-file=CMakeFiles/gemmi_prog.dir/link.d CMakeFiles/gemmi_prog.dir/prog/align.cpp.o CMakeFiles/gemmi_prog.dir/prog/blobs.cpp.o CMakeFiles/gemmi_prog.dir/prog/cif2mtz.cpp.o CMakeFiles/gemmi_prog.dir/prog/cif2json.cpp.o CMakeFiles/gemmi_prog.dir/prog/cifdiff.cpp.o CMakeFiles/gemmi_prog.dir/prog/contact.cpp.o CMakeFiles/gemmi_prog.dir/prog/contents.cpp.o CMakeFiles/gemmi_prog.dir/prog/convert.cpp.o CMakeFiles/gemmi_prog.dir/prog/crd.cpp.o CMakeFiles/gemmi_prog.dir/prog/ecalc.cpp.o CMakeFiles/gemmi_prog.dir/prog/fprime.cpp.o CMakeFiles/gemmi_prog.dir/prog/grep.cpp.o CMakeFiles/gemmi_prog.dir/prog/h.cpp.o CMakeFiles/gemmi_prog.dir/prog/json2cif.cpp.o CMakeFiles/gemmi_prog.dir/prog/main.cpp.o CMakeFiles/gemmi_prog.dir/prog/map.cpp.o CMakeFiles/gemmi_prog.dir/prog/map2sf.cpp.o CMakeFiles/gemmi_prog.dir/prog/mapcoef.cpp.o CMakeFiles/gemmi_prog.dir/prog/mask.cpp.o CMakeFiles/gemmi_prog.dir/prog/merge.cpp.o CMakeFiles/gemmi_prog.dir/prog/mondiff.cpp.o CMakeFiles/gemmi_prog.dir/prog/monlib_opt.cpp.o CMakeFiles/gemmi_prog.dir/prog/mtz.cpp.o CMakeFiles/gemmi_prog.dir/prog/mtz2cif.cpp.o CMakeFiles/gemmi_prog.dir/prog/reindex.cpp.o CMakeFiles/gemmi_prog.dir/prog/residues.cpp.o CMakeFiles/gemmi_prog.dir/prog/rmsz.cpp.o CMakeFiles/gemmi_prog.dir/prog/set.cpp.o CMakeFiles/gemmi_prog.dir/prog/sf2map.cpp.o CMakeFiles/gemmi_prog.dir/prog/sfcalc.cpp.o CMakeFiles/gemmi_prog.dir/prog/sg.cpp.o CMakeFiles/gemmi_prog.dir/prog/tags.cpp.o CMakeFiles/gemmi_prog.dir/prog/validate.cpp.o CMakeFiles/gemmi_prog.dir/prog/validate_mon.cpp.o CMakeFiles/gemmi_prog.dir/prog/wcn.cpp.o CMakeFiles/gemmi_prog.dir/prog/xds2mtz.cpp.o CMakeFiles/options.dir/prog/options.cpp.o -o gemmi libgemmi_cpp.a /usr/lib/aarch64-linux-gnu/libz.so make[3]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' [100%] Built target gemmi_prog -make[3]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' -[100%] Built target gemmi_stub make[2]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' @@ -1684,25 +1720,31 @@ make -f CMakeFiles/Makefile2 CMakeFiles/check.dir/all make[4]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' make -f CMakeFiles/options.dir/build.make CMakeFiles/options.dir/depend -make[5]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' make -f CMakeFiles/gemmi_cpp.dir/build.make CMakeFiles/gemmi_cpp.dir/depend make -f CMakeFiles/hello.dir/build.make CMakeFiles/hello.dir/depend make -f CMakeFiles/doc_example2.dir/build.make CMakeFiles/doc_example2.dir/depend make[5]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' +cd /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/options.dir/DependInfo.cmake "--color=" make[5]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' cd /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/hello.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/options.dir/DependInfo.cmake "--color=" make[5]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' cd /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/doc_example2.dir/DependInfo.cmake "--color=" +make[5]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' cd /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_cpp.dir/DependInfo.cmake "--color=" +Dependencies file "CMakeFiles/options.dir/prog/options.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/options.dir/compiler_depend.internal". make[5]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' make -f CMakeFiles/hello.dir/build.make CMakeFiles/hello.dir/build make[5]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' -Dependencies file "CMakeFiles/gemmi_cpp.dir/src/align.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". -Dependencies file 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than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_cpp.dir/src/assembly.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_cpp.dir/src/calculate.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_cpp.dir/src/ccp4.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". @@ -1715,33 +1757,27 @@ Dependencies file "CMakeFiles/gemmi_cpp.dir/src/json.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_cpp.dir/src/mmcif.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_cpp.dir/src/mmread_gz.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target options +[ 2%] Building CXX object CMakeFiles/doc_example2.dir/docs/code/cif_cc.cpp.o Dependencies file "CMakeFiles/gemmi_cpp.dir/src/monlib.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". +/usr/bin/c++ -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/doc_example2.dir/docs/code/cif_cc.cpp.o -MF CMakeFiles/doc_example2.dir/docs/code/cif_cc.cpp.o.d -o CMakeFiles/doc_example2.dir/docs/code/cif_cc.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/docs/code/cif_cc.cpp Dependencies file "CMakeFiles/gemmi_cpp.dir/src/mtz.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_cpp.dir/src/mtz2cif.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_cpp.dir/src/pdb.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_cpp.dir/src/polyheur.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". +[ 4%] Building CXX object CMakeFiles/hello.dir/examples/hello.cpp.o Dependencies file "CMakeFiles/gemmi_cpp.dir/src/read_cif.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_cpp.dir/src/resinfo.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_cpp.dir/src/riding_h.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_cpp.dir/src/select.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". +/usr/bin/c++ -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/hello.dir/examples/hello.cpp.o -MF CMakeFiles/hello.dir/examples/hello.cpp.o.d -o CMakeFiles/hello.dir/examples/hello.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/examples/hello.cpp Dependencies file "CMakeFiles/gemmi_cpp.dir/src/sprintf.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_cpp.dir/src/symmetry.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_cpp.dir/src/to_json.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". +[ 6%] Built target options Dependencies file "CMakeFiles/gemmi_cpp.dir/src/to_mmcif.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". -make[5]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' -make -f CMakeFiles/options.dir/build.make CMakeFiles/options.dir/build Dependencies file "CMakeFiles/gemmi_cpp.dir/src/to_pdb.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_cpp.dir/src/topo.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_cpp.dir/src/xds_ascii.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_cpp.dir/compiler_depend.internal". -[ 2%] Building CXX object CMakeFiles/hello.dir/examples/hello.cpp.o -make[5]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' -make[5]: Nothing to be done for 'CMakeFiles/options.dir/build'. -make[5]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' -[ 4%] Building CXX object CMakeFiles/doc_example2.dir/docs/code/cif_cc.cpp.o -/usr/bin/c++ -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/doc_example2.dir/docs/code/cif_cc.cpp.o -MF CMakeFiles/doc_example2.dir/docs/code/cif_cc.cpp.o.d -o CMakeFiles/doc_example2.dir/docs/code/cif_cc.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/docs/code/cif_cc.cpp -/usr/bin/c++ -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/hello.dir/examples/hello.cpp.o -MF CMakeFiles/hello.dir/examples/hello.cpp.o.d -o CMakeFiles/hello.dir/examples/hello.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/examples/hello.cpp -[ 6%] Built target options Consolidate compiler generated dependencies of target gemmi_cpp make[5]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' make -f CMakeFiles/gemmi_cpp.dir/build.make CMakeFiles/gemmi_cpp.dir/build @@ -1750,28 +1786,46 @@ make[5]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' [ 39%] Built target gemmi_cpp make -f CMakeFiles/gemmi_prog.dir/build.make CMakeFiles/gemmi_prog.dir/depend -make[5]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' -cd /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/DependInfo.cmake "--color=" make -f CMakeFiles/cpptest.dir/build.make CMakeFiles/cpptest.dir/depend make -f CMakeFiles/doc_example.dir/build.make CMakeFiles/doc_example.dir/depend +make -f CMakeFiles/doc_newmtz.dir/build.make CMakeFiles/doc_newmtz.dir/depend +make -f CMakeFiles/test_disulf.dir/build.make CMakeFiles/test_disulf.dir/depend +make -f CMakeFiles/check_conn.dir/build.make CMakeFiles/check_conn.dir/depend make[5]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' cd /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/cpptest.dir/DependInfo.cmake "--color=" make[5]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' -make -f CMakeFiles/doc_newmtz.dir/build.make CMakeFiles/doc_newmtz.dir/depend -cd /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/doc_example.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/test_disulf.dir/DependInfo.cmake "--color=" make[5]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' cd /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/doc_newmtz.dir/DependInfo.cmake "--color=" -make -f CMakeFiles/test_disulf.dir/build.make CMakeFiles/test_disulf.dir/depend make[5]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' -cd /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/test_disulf.dir/DependInfo.cmake "--color=" -make -f CMakeFiles/check_conn.dir/build.make CMakeFiles/check_conn.dir/depend +make[5]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' +cd /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/check_conn.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/doc_example.dir/DependInfo.cmake "--color=" +make[5]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' +cd /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/DependInfo.cmake "--color=" +make[5]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' +make -f CMakeFiles/test_disulf.dir/build.make CMakeFiles/test_disulf.dir/build +make[5]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' +make[5]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' +make -f CMakeFiles/doc_newmtz.dir/build.make CMakeFiles/doc_newmtz.dir/build +make[5]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' +make[5]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' +make -f CMakeFiles/doc_example.dir/build.make CMakeFiles/doc_example.dir/build +make[5]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' +[ 43%] Building CXX object CMakeFiles/test_disulf.dir/tests/disulf.cpp.o +[ 43%] Building CXX object CMakeFiles/doc_newmtz.dir/docs/code/newmtz.cpp.o +/usr/bin/c++ -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/doc_newmtz.dir/docs/code/newmtz.cpp.o -MF CMakeFiles/doc_newmtz.dir/docs/code/newmtz.cpp.o.d -o CMakeFiles/doc_newmtz.dir/docs/code/newmtz.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/docs/code/newmtz.cpp +/usr/bin/c++ -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -MD -MT CMakeFiles/test_disulf.dir/tests/disulf.cpp.o -MF CMakeFiles/test_disulf.dir/tests/disulf.cpp.o.d -o CMakeFiles/test_disulf.dir/tests/disulf.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/tests/disulf.cpp +make[5]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' +make -f CMakeFiles/cpptest.dir/build.make CMakeFiles/cpptest.dir/build +make[5]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' Dependencies file 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Dependencies file "CMakeFiles/gemmi_prog.dir/prog/blobs.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/cif2json.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/cif2mtz.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". -Dependencies file "CMakeFiles/gemmi_prog.dir/prog/cifdiff.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". +make -f CMakeFiles/check_conn.dir/build.make CMakeFiles/check_conn.dir/build make[5]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' -cd /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/check_conn.dir/DependInfo.cmake "--color=" +Dependencies file "CMakeFiles/gemmi_prog.dir/prog/cifdiff.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/contact.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/contents.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/convert.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". @@ -1779,88 +1833,70 @@ Dependencies file "CMakeFiles/gemmi_prog.dir/prog/ecalc.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/fprime.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/grep.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". -make[5]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' -make -f CMakeFiles/doc_newmtz.dir/build.make CMakeFiles/doc_newmtz.dir/build -make[5]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' -make[5]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' Dependencies file "CMakeFiles/gemmi_prog.dir/prog/h.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/json2cif.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". -make -f CMakeFiles/cpptest.dir/build.make CMakeFiles/cpptest.dir/build Dependencies file "CMakeFiles/gemmi_prog.dir/prog/main.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/map.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/map2sf.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". +make[5]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' Dependencies file "CMakeFiles/gemmi_prog.dir/prog/mapcoef.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/mask.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/merge.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/mondiff.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". -make[5]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' Dependencies file "CMakeFiles/gemmi_prog.dir/prog/monlib_opt.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/mtz.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/mtz2cif.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/reindex.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/residues.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". +[ 45%] Building CXX object CMakeFiles/doc_example.dir/docs/code/elem.cpp.o Dependencies file "CMakeFiles/gemmi_prog.dir/prog/rmsz.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/set.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". +/usr/bin/c++ -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -UNDEBUG -MD -MT CMakeFiles/doc_example.dir/docs/code/elem.cpp.o -MF CMakeFiles/doc_example.dir/docs/code/elem.cpp.o.d -o CMakeFiles/doc_example.dir/docs/code/elem.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/docs/code/elem.cpp Dependencies file "CMakeFiles/gemmi_prog.dir/prog/sf2map.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/sfcalc.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/sg.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/tags.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". -make[5]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' -make -f CMakeFiles/doc_example.dir/build.make CMakeFiles/doc_example.dir/build Dependencies file "CMakeFiles/gemmi_prog.dir/prog/validate.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/prog/validate_mon.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". +[ 45%] Building CXX object CMakeFiles/doc_example.dir/docs/code/sym.cpp.o Dependencies file "CMakeFiles/gemmi_prog.dir/prog/wcn.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". -make[5]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' Dependencies file "CMakeFiles/gemmi_prog.dir/prog/xds2mtz.cpp.o.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". Dependencies file "CMakeFiles/gemmi_prog.dir/link.d" is newer than depends file "/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu/CMakeFiles/gemmi_prog.dir/compiler_depend.internal". -[ 41%] Building CXX object CMakeFiles/doc_newmtz.dir/docs/code/newmtz.cpp.o -make[5]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' -make -f CMakeFiles/test_disulf.dir/build.make CMakeFiles/test_disulf.dir/build -make[5]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' -make[5]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' -make -f CMakeFiles/check_conn.dir/build.make CMakeFiles/check_conn.dir/build -make[5]: Entering directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' -/usr/bin/c++ -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat 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CXX object CMakeFiles/cpptest.dir/tests/main.cpp.o +/usr/bin/c++ -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -UNDEBUG -MD -MT CMakeFiles/doc_example.dir/docs/code/mutate.cpp.o -MF CMakeFiles/doc_example.dir/docs/code/mutate.cpp.o.d -o CMakeFiles/doc_example.dir/docs/code/mutate.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/docs/code/mutate.cpp +/usr/bin/c++ -DUSE_STD_SNPRINTF=1 -I/build/reproducible-path/gemmi-0.7.1+ds/third_party -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast 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CMakeFiles/doc_example.dir/docs/code/cell.cpp.o.d -o CMakeFiles/doc_example.dir/docs/code/cell.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/docs/code/cell.cpp -[ 91%] Built target gemmi_prog +/usr/bin/c++ -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 -ffile-prefix-map=/build/reproducible-path/gemmi-0.7.1+ds=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fexcess-precision=fast -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fvisibility=hidden -fvisibility-inlines-hidden -UNDEBUG -MD -MT CMakeFiles/doc_example.dir/docs/code/resinfo.cpp.o -MF CMakeFiles/doc_example.dir/docs/code/resinfo.cpp.o.d -o CMakeFiles/doc_example.dir/docs/code/resinfo.cpp.o -c /build/reproducible-path/gemmi-0.7.1+ds/docs/code/resinfo.cpp +[ 89%] Built target gemmi_prog +[ 91%] Building CXX object CMakeFiles/doc_example.dir/src/resinfo.cpp.o +/usr/bin/c++ -I/build/reproducible-path/gemmi-0.7.1+ds/include -g -O2 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CMakeFiles/doc_example.dir/docs/code/sym.cpp.o CMakeFiles/doc_example.dir/docs/code/elem.cpp.o CMakeFiles/doc_example.dir/docs/code/resinfo.cpp.o CMakeFiles/doc_example.dir/docs/code/cell.cpp.o CMakeFiles/doc_example.dir/docs/code/mutate.cpp.o CMakeFiles/doc_example.dir/src/resinfo.cpp.o -o doc_example libgemmi_cpp.a /usr/lib/aarch64-linux-gnu/libz.so @@ -1906,11 +1942,11 @@ Test project /build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu Connected to MAKE jobserver Start 1: cpptest -1/1 Test #1: cpptest .......................... Passed 0.01 sec +1/1 Test #1: cpptest .......................... Passed 0.00 sec 100% tests passed, 0 tests failed out of 1 -Total Test time (real) = 0.04 sec +Total Test time (real) = 0.02 sec make[5]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' [100%] Built target check make[4]: Leaving directory '/build/reproducible-path/gemmi-0.7.1+ds/obj-aarch64-linux-gnu' @@ -1945,7 +1981,7 @@ 1: [doctest] test cases: 14 | 14 passed | 0 failed | 0 skipped 1: [doctest] assertions: 129 | 129 passed | 0 failed | 1: [doctest] Status: SUCCESS! -1/1 Test #1: cpptest .......................... Passed 0.01 sec +1/1 Test #1: cpptest .......................... Passed 0.00 sec 100% tests passed, 0 tests failed out of 1 @@ -2146,11 +2182,11 @@ dpkg-gencontrol: warning: Provides field of package python3-gemmi: substitution variable ${python3:Provides} used, but is not defined dh_md5sums -O--buildsystem=cmake dh_builddeb -O--buildsystem=cmake -dpkg-deb: building package 'python3-gemmi-dbgsym' in '../python3-gemmi-dbgsym_0.7.1+ds-1_arm64.deb'. +dpkg-deb: building package 'python3-gemmi' in '../python3-gemmi_0.7.1+ds-1_arm64.deb'. dpkg-deb: building package 'gemmi-dbgsym' in '../gemmi-dbgsym_0.7.1+ds-1_arm64.deb'. -dpkg-deb: building package 'gemmi-dev' in '../gemmi-dev_0.7.1+ds-1_arm64.deb'. dpkg-deb: building package 'gemmi' in '../gemmi_0.7.1+ds-1_arm64.deb'. -dpkg-deb: building package 'python3-gemmi' in '../python3-gemmi_0.7.1+ds-1_arm64.deb'. +dpkg-deb: building package 'gemmi-dev' in '../gemmi-dev_0.7.1+ds-1_arm64.deb'. +dpkg-deb: building package 'python3-gemmi-dbgsym' in '../python3-gemmi-dbgsym_0.7.1+ds-1_arm64.deb'. dpkg-genbuildinfo --build=binary -O../gemmi_0.7.1+ds-1_arm64.buildinfo dpkg-genchanges --build=binary -O../gemmi_0.7.1+ds-1_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -2158,12 +2194,14 @@ 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/1102448/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/1102448/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/2154517 and its subdirectories -I: Current time: Thu Aug 28 00:10:11 -12 2025 -I: pbuilder-time-stamp: 1756383011 +I: removing directory /srv/workspace/pbuilder/1102448 and its subdirectories +I: Current time: Thu Oct 1 08:38:58 +14 2026 +I: pbuilder-time-stamp: 1790793538