Diff of the two buildlogs: -- --- b1/build.log 2024-12-04 08:35:42.439504721 +0000 +++ b2/build.log 2024-12-04 05:40:41.930585416 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Tue Dec 3 17:42:31 -12 2024 -I: pbuilder-time-stamp: 1733290951 +I: Current time: Wed Dec 4 19:17:44 +14 2024 +I: pbuilder-time-stamp: 1733289464 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -28,52 +28,84 @@ dpkg-source: info: applying Makefile_config.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/13811/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/9215/tmp/hooks/D01_modify_environment starting +debug: Running on virt64z. +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 Dec 4 05:17 /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/9215/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/9215/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='armhf' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=3 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='armhf' + 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]="32" [3]="1" [4]="release" [5]="arm-unknown-linux-gnueabihf") + BASH_VERSION='5.2.32(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=armhf + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=4 ' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=arm + HOST_ARCH=armhf IFS=' ' - INVOCATION_ID='4e9a5c7e1a7043c8b53d77d3f44523c0' - 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='13811' - PS1='# ' - PS2='> ' + INVOCATION_ID=add80b3191024da5bd9f280b2ff326da + LANG=C + LANGUAGE=it_CH:it + LC_ALL=C + MACHTYPE=arm-unknown-linux-gnueabihf + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnueabihf + 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=9215 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.FdNM5th4/pbuilderrc_ocrJ --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.FdNM5th4/b1 --logfile b1/build.log qtltools_1.3.1+dfsg-4.dsc' - SUDO_GID='113' - SUDO_UID='107' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://10.0.0.15:3142/' + 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.FdNM5th4/pbuilderrc_i4BT --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.FdNM5th4/b2 --logfile b2/build.log qtltools_1.3.1+dfsg-4.dsc' + SUDO_GID=110 + SUDO_UID=103 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://10.0.0.15:3142/ I: uname -a - Linux cbxi4a 6.1.0-23-armmp #1 SMP Debian 6.1.99-1 (2024-07-15) armv7l GNU/Linux + Linux i-capture-the-hostname 6.1.0-28-arm64 #1 SMP Debian 6.1.119-1 (2024-11-22) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/13811/tmp/hooks/D02_print_environment finished +I: user script /srv/workspace/pbuilder/9215/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -233,7 +265,7 @@ Get: 104 http://deb.debian.org/debian trixie/main armhf liblzma-dev armhf 5.6.3-1+b1 [304 kB] Get: 105 http://deb.debian.org/debian trixie/main armhf libhts-dev armhf 1.20+ds-2 [1625 kB] Get: 106 http://deb.debian.org/debian trixie/main armhf r-mathlib armhf 4.4.2-1 [2551 kB] -Fetched 63.3 MB in 7s (9673 kB/s) +Fetched 63.3 MB in 1s (56.5 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package sensible-utils. (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 ... 19684 files and directories currently installed.) @@ -674,7 +706,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/qtltools-1.3.1+dfsg/ && 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 > ../qtltools_1.3.1+dfsg-4_source.changes +I: user script /srv/workspace/pbuilder/9215/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/9215/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/qtltools-1.3.1+dfsg/ && 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 > ../qtltools_1.3.1+dfsg-4_source.changes dpkg-buildpackage: info: source package qtltools dpkg-buildpackage: info: source version 1.3.1+dfsg-4 dpkg-buildpackage: info: source distribution unstable @@ -687,7 +723,7 @@ make[1]: Entering directory '/build/reproducible-path/qtltools-1.3.1+dfsg' rm -f debian/upstream.example/examples.tar.xz dh_auto_clean - make -j3 clean + make -j4 clean make[2]: Entering directory '/build/reproducible-path/qtltools-1.3.1+dfsg' rm -f obj/*.o bin/QTLtools make[2]: Leaving directory '/build/reproducible-path/qtltools-1.3.1+dfsg' @@ -703,15 +739,16 @@ mkdir -p /build/reproducible-path/qtltools-1.3.1+dfsg/obj/ mkdir -p /build/reproducible-path/qtltools-1.3.1+dfsg/bin/ dh_auto_build - make -j3 "INSTALL=install --strip-program=true" + make -j4 "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/qtltools-1.3.1+dfsg' g++ -std=c++0x -o obj/QTLtools.o -c src/QTLtools.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib g++ -std=c++0x -o obj/data.o -c src/common/data.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib g++ -std=c++0x -o obj/ase_main.o -c src/mode_ase/ase_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib +g++ -std=c++0x -o obj/ase_management.o -c src/mode_ase/ase_management.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_ase/../common/data.h:19, from src/mode_ase/ase_data.h:20, - from src/mode_ase/ase_main.cpp:16: + from src/mode_ase/ase_management.cpp:16: lib/OTools/interval_tree.h:76:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 76 | IntervalTree(void) | ^ @@ -725,9 +762,9 @@ | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' In file included from lib/OTools/otools.h:56, - from src/mode_cis/../common/data.h:19, - from src/mode_cis/cis_data.h:33, - from src/QTLtools.cpp:16: + from src/mode_ase/../common/data.h:19, + from src/mode_ase/ase_data.h:20, + from src/mode_ase/ase_main.cpp:16: lib/OTools/interval_tree.h:76:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 76 | IntervalTree(void) | ^ @@ -741,8 +778,9 @@ | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' In file included from lib/OTools/otools.h:56, - from src/common/data.h:19, - from src/common/data.cpp:16: + from src/mode_cis/../common/data.h:19, + from src/mode_cis/cis_data.h:33, + from src/QTLtools.cpp:16: lib/OTools/interval_tree.h:76:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 76 | IntervalTree(void) | ^ @@ -755,11 +793,9 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' -g++ -std=c++0x -o obj/ase_management.o -c src/mode_ase/ase_management.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, - from src/mode_ase/../common/data.h:19, - from src/mode_ase/ase_data.h:20, - from src/mode_ase/ase_management.cpp:16: + from src/common/data.h:19, + from src/common/data.cpp:16: lib/OTools/interval_tree.h:76:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 76 | IntervalTree(void) | ^ @@ -790,6 +826,7 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' +g++ -std=c++0x -o obj/ase_read_genotypes.o -c src/mode_ase/ase_read_genotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_ase/../common/data.h:19, from src/mode_ase/ase_data.h:20, @@ -806,7 +843,7 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' -g++ -std=c++0x -o obj/ase_read_genotypes.o -c src/mode_ase/ase_read_genotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib +g++ -std=c++0x -o obj/ase_read_gtf.o -c src/mode_ase/ase_read_gtf.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_ase/../common/data.h:19, from src/mode_ase/ase_data.h:20, @@ -823,8 +860,6 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' -g++ -std=c++0x -o obj/ase_read_gtf.o -c src/mode_ase/ase_read_gtf.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib -g++ -std=c++0x -o obj/ase_read_sequences.o -c src/mode_ase/ase_read_sequences.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_ase/../common/data.h:19, from src/mode_ase/ase_data.h:20, @@ -841,6 +876,8 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' +g++ -std=c++0x -o obj/ase_read_sequences.o -c src/mode_ase/ase_read_sequences.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib +g++ -std=c++0x -o obj/ase_run_analyses.o -c src/mode_ase/ase_run_analyses.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_ase/../common/data.h:19, from src/mode_ase/ase_data.h:20, @@ -857,8 +894,6 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' -g++ -std=c++0x -o obj/ase_run_analyses.o -c src/mode_ase/ase_run_analyses.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib -g++ -std=c++0x -o obj/bamstat_main.o -c src/mode_bamstat/bamstat_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_ase/../common/data.h:19, from src/mode_ase/ase_data.h:20, @@ -875,6 +910,7 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' +g++ -std=c++0x -o obj/bamstat_main.o -c src/mode_bamstat/bamstat_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib g++ -std=c++0x -o obj/bamstat_read_annotations.o -c src/mode_bamstat/bamstat_read_annotations.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_bamstat/../common/data.h:19, @@ -908,6 +944,7 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' +g++ -std=c++0x -o obj/bamstat_read_bam.o -c src/mode_bamstat/bamstat_read_bam.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from /usr/include/c++/14/set:62, from lib/OTools/otools.h:25: /usr/include/c++/14/bits/stl_tree.h: In function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple, std::allocator >&>, std::tuple<>}; _Key = std::__cxx11::basic_string; _Val = std::pair, bias_stats>; _KeyOfValue = std::_Select1st, bias_stats> >; _Compare = std::less >; _Alloc = std::allocator, bias_stats> >]': @@ -953,6 +990,22 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ +In file included from lib/OTools/otools.h:56, + from src/mode_bamstat/../common/data.h:19, + from src/mode_bamstat/bamstat_data.h:20, + from src/mode_bamstat/bamstat_read_bam.cpp:16: +lib/OTools/interval_tree.h:76:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] + 76 | IntervalTree(void) + | ^ +lib/OTools/interval_tree.h:76:22: note: remove the '< >' +lib/OTools/interval_tree.h:82:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] + 82 | IntervalTree(const intervalTree& other) { + | ^ +lib/OTools/interval_tree.h:82:22: note: remove the '< >' +lib/OTools/interval_tree.h:118:13: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] + 118 | intervalVector& ivals, + | ^~~~~~~~~~~~~~ +lib/OTools/interval_tree.h:118:13: note: remove the '< >' In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = std::__cxx11::basic_string; _Tp = bias_stats; _Compare = std::less >; _Alloc = std::allocator, bias_stats> >]', inlined from 'void ase_data::calculateRefToAltBias(std::string, std::string)' at src/mode_ase/ase_run_analyses.cpp:80:13: /usr/include/c++/14/bits/stl_map.h:513:44: note: parameter passing for argument of type 'std::_Rb_tree, std::pair, bias_stats>, std::_Select1st, bias_stats> >, std::less >, std::allocator, bias_stats> > >::const_iterator' changed in GCC 7.1 @@ -971,28 +1024,11 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ -g++ -std=c++0x -o obj/bamstat_read_bam.o -c src/mode_bamstat/bamstat_read_bam.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib g++ -std=c++0x -o obj/bamstat_write_output.o -c src/mode_bamstat/bamstat_write_output.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib g++ -std=c++0x -o obj/cis_chunking.o -c src/mode_cis/cis_chunking.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_bamstat/../common/data.h:19, from src/mode_bamstat/bamstat_data.h:20, - from src/mode_bamstat/bamstat_read_bam.cpp:16: -lib/OTools/interval_tree.h:76:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] - 76 | IntervalTree(void) - | ^ -lib/OTools/interval_tree.h:76:22: note: remove the '< >' -lib/OTools/interval_tree.h:82:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] - 82 | IntervalTree(const intervalTree& other) { - | ^ -lib/OTools/interval_tree.h:82:22: note: remove the '< >' -lib/OTools/interval_tree.h:118:13: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] - 118 | intervalVector& ivals, - | ^~~~~~~~~~~~~~ -lib/OTools/interval_tree.h:118:13: note: remove the '< >' -In file included from lib/OTools/otools.h:56, - from src/mode_bamstat/../common/data.h:19, - from src/mode_bamstat/bamstat_data.h:20, from src/mode_bamstat/bamstat_write_output.cpp:16: lib/OTools/interval_tree.h:76:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 76 | IntervalTree(void) @@ -1006,6 +1042,7 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' +g++ -std=c++0x -o obj/cis_collapse_phenotypes.o -c src/mode_cis/cis_collapse_phenotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_cis/../common/data.h:19, from src/mode_cis/cis_data.h:33, @@ -1022,8 +1059,6 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' -g++ -std=c++0x -o obj/cis_collapse_phenotypes.o -c src/mode_cis/cis_collapse_phenotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib -g++ -std=c++0x -o obj/cis_conditionnal_pass.o -c src/mode_cis/cis_conditionnal_pass.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_cis/../common/data.h:19, from src/mode_cis/cis_data.h:33, @@ -1040,7 +1075,7 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' -g++ -std=c++0x -o obj/cis_initilization.o -c src/mode_cis/cis_initilization.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib +g++ -std=c++0x -o obj/cis_conditionnal_pass.o -c src/mode_cis/cis_conditionnal_pass.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_cis/../common/data.h:19, from src/mode_cis/cis_data.h:33, @@ -1057,6 +1092,7 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' +g++ -std=c++0x -o obj/cis_initilization.o -c src/mode_cis/cis_initilization.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_cis/../common/data.h:19, from src/mode_cis/cis_data.h:33, @@ -1074,8 +1110,6 @@ | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' g++ -std=c++0x -o obj/cis_learn_beta.o -c src/mode_cis/cis_learn_beta.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib -g++ -std=c++0x -o obj/cis_learn_dof.o -c src/mode_cis/cis_learn_dof.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib -g++ -std=c++0x -o obj/cis_main.o -c src/mode_cis/cis_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_cis/../common/data.h:19, from src/mode_cis/cis_data.h:33, @@ -1092,6 +1126,7 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' +g++ -std=c++0x -o obj/cis_learn_dof.o -c src/mode_cis/cis_learn_dof.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_cis/../common/data.h:19, from src/mode_cis/cis_data.h:33, @@ -1108,6 +1143,7 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' +g++ -std=c++0x -o obj/cis_main.o -c src/mode_cis/cis_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_cis/../common/data.h:19, from src/mode_cis/cis_data.h:33, @@ -1176,6 +1212,7 @@ | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' g++ -std=c++0x -o obj/cis_read_covariates.o -c src/mode_cis/cis_read_covariates.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib +g++ -std=c++0x -o obj/cis_read_genotypes.o -c src/mode_cis/cis_read_genotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_cis/../common/data.h:19, from src/mode_cis/cis_data.h:33, @@ -1192,7 +1229,6 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' -g++ -std=c++0x -o obj/cis_read_genotypes.o -c src/mode_cis/cis_read_genotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_cis/../common/data.h:19, from src/mode_cis/cis_data.h:33, @@ -1244,6 +1280,7 @@ | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' g++ -std=c++0x -o obj/correct_main.o -c src/mode_correct/correct_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib +g++ -std=c++0x -o obj/correct_management.o -c src/mode_correct/correct_management.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_correct/../common/data.h:19, from src/mode_correct/correct_data.h:24, @@ -1260,7 +1297,6 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' -g++ -std=c++0x -o obj/correct_management.o -c src/mode_correct/correct_management.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_correct/../common/data.h:19, from src/mode_correct/correct_data.h:24, @@ -1312,6 +1348,11 @@ | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' g++ -std=c++0x -o obj/extract_main.o -c src/mode_extract/extract_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib +g++ -std=c++0x -o obj/extract_managment.o -c src/mode_extract/extract_managment.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib +src/mode_correct/correct_processing.cpp: In member function 'void correct_data::processVCF(std::string, std::string)': +src/mode_correct/correct_processing.cpp:127:22: warning: ignoring return value of 'int bcf_hdr_write(htsFile*, bcf_hdr_t*)' declared with attribute 'warn_unused_result' [-Wunused-result] + 127 | bcf_hdr_write(fp, hdr_new); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~ In file included from lib/OTools/otools.h:56, from src/mode_extract/../common/data.h:19, from src/mode_extract/extract_data.h:20, @@ -1328,11 +1369,6 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' -src/mode_correct/correct_processing.cpp: In member function 'void correct_data::processVCF(std::string, std::string)': -src/mode_correct/correct_processing.cpp:127:22: warning: ignoring return value of 'int bcf_hdr_write(htsFile*, bcf_hdr_t*)' declared with attribute 'warn_unused_result' [-Wunused-result] - 127 | bcf_hdr_write(fp, hdr_new); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~ -g++ -std=c++0x -o obj/extract_managment.o -c src/mode_extract/extract_managment.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_extract/../common/data.h:19, from src/mode_extract/extract_data.h:20, @@ -1384,6 +1420,7 @@ | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' g++ -std=c++0x -o obj/fdensity_main.o -c src/mode_fdensity/fdensity_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib +g++ -std=c++0x -o obj/fdensity_process.o -c src/mode_fdensity/fdensity_process.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_fdensity/../common/data.h:19, from src/mode_fdensity/fdensity_data.h:20, @@ -1400,8 +1437,6 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' -g++ -std=c++0x -o obj/fdensity_process.o -c src/mode_fdensity/fdensity_process.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib -g++ -std=c++0x -o obj/fdensity_read_annotation.o -c src/mode_fdensity/fdensity_read_annotation.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_fdensity/../common/data.h:19, from src/mode_fdensity/fdensity_data.h:20, @@ -1418,6 +1453,8 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' +g++ -std=c++0x -o obj/fdensity_read_annotation.o -c src/mode_fdensity/fdensity_read_annotation.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib +g++ -std=c++0x -o obj/fdensity_read_qtl.o -c src/mode_fdensity/fdensity_read_qtl.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_fdensity/../common/data.h:19, from src/mode_fdensity/fdensity_data.h:20, @@ -1434,7 +1471,6 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' -g++ -std=c++0x -o obj/fdensity_read_qtl.o -c src/mode_fdensity/fdensity_read_qtl.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_fdensity/../common/data.h:19, from src/mode_fdensity/fdensity_data.h:20, @@ -1486,6 +1522,7 @@ | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' g++ -std=c++0x -o obj/fenrich_process.o -c src/mode_fenrich/fenrich_process.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib +g++ -std=c++0x -o obj/fenrich_read_annotation.o -c src/mode_fenrich/fenrich_read_annotation.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_fenrich/../common/data.h:19, from src/mode_fenrich/fenrich_data.h:20, @@ -1502,7 +1539,6 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' -g++ -std=c++0x -o obj/fenrich_read_annotation.o -c src/mode_fenrich/fenrich_read_annotation.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_fenrich/../common/data.h:19, from src/mode_fenrich/fenrich_data.h:20, @@ -1554,6 +1590,7 @@ | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' g++ -std=c++0x -o obj/genrich_binning_process.o -c src/mode_genrich/genrich_binning_process.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib +g++ -std=c++0x -o obj/genrich_main.o -c src/mode_genrich/genrich_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_genrich/../common/data.h:19, from src/mode_genrich/genrich_data.h:22, @@ -1570,7 +1607,6 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' -g++ -std=c++0x -o obj/genrich_main.o -c src/mode_genrich/genrich_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_genrich/../common/data.h:19, from src/mode_genrich/genrich_data.h:22, @@ -1588,6 +1624,7 @@ | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' g++ -std=c++0x -o obj/genrich_process.o -c src/mode_genrich/genrich_process.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib +g++ -std=c++0x -o obj/genrich_read_auxillliary_data.o -c src/mode_genrich/genrich_read_auxillliary_data.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_genrich/../common/data.h:19, from src/mode_genrich/genrich_data.h:22, @@ -1604,7 +1641,6 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' -g++ -std=c++0x -o obj/genrich_read_auxillliary_data.o -c src/mode_genrich/genrich_read_auxillliary_data.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_genrich/../common/data.h:19, from src/mode_genrich/genrich_data.h:22, @@ -1639,7 +1675,6 @@ | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' g++ -std=c++0x -o obj/genrich_read_reference_genotypes.o -c src/mode_genrich/genrich_read_reference_genotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib -g++ -std=c++0x -o obj/genrich_routines.o -c src/mode_genrich/genrich_routines.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_genrich/../common/data.h:19, from src/mode_genrich/genrich_data.h:22, @@ -1656,6 +1691,8 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' +g++ -std=c++0x -o obj/genrich_routines.o -c src/mode_genrich/genrich_routines.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib +g++ -std=c++0x -o obj/gwas_analysis_pass.o -c src/mode_gwas/gwas_analysis_pass.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_genrich/../common/data.h:19, from src/mode_genrich/genrich_data.h:22, @@ -1672,7 +1709,6 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' -g++ -std=c++0x -o obj/gwas_analysis_pass.o -c src/mode_gwas/gwas_analysis_pass.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_gwas/../common/data.h:19, from src/mode_gwas/gwas_data.h:20, @@ -1690,7 +1726,6 @@ | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' g++ -std=c++0x -o obj/gwas_initilization.o -c src/mode_gwas/gwas_initilization.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib -g++ -std=c++0x -o obj/gwas_main.o -c src/mode_gwas/gwas_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_gwas/../common/data.h:19, from src/mode_gwas/gwas_data.h:20, @@ -1707,6 +1742,7 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' +g++ -std=c++0x -o obj/gwas_main.o -c src/mode_gwas/gwas_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_gwas/../common/data.h:19, from src/mode_gwas/gwas_data.h:20, @@ -1723,11 +1759,11 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' +g++ -std=c++0x -o obj/gwas_managment.o -c src/mode_gwas/gwas_managment.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib src/mode_gwas/gwas_analysis_pass.cpp: In member function 'void gwas_data::runGwasPassOnVCF(std::string, std::string)': src/mode_gwas/gwas_analysis_pass.cpp:28:28: warning: ignoring return value of 'int bcf_hdr_set_samples(bcf_hdr_t*, const char*, int)' declared with attribute 'warn_unused_result' [-Wunused-result] 28 | bcf_hdr_set_samples(hdr, concat_id.c_str(), 0); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -std=c++0x -o obj/gwas_managment.o -c src/mode_gwas/gwas_managment.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_gwas/../common/data.h:19, from src/mode_gwas/gwas_data.h:20, @@ -1745,7 +1781,6 @@ | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' g++ -std=c++0x -o obj/gwas_read_covariates.o -c src/mode_gwas/gwas_read_covariates.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib -g++ -std=c++0x -o obj/gwas_read_phenotypes.o -c src/mode_gwas/gwas_read_phenotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_gwas/../common/data.h:19, from src/mode_gwas/gwas_data.h:20, @@ -1762,6 +1797,7 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' +g++ -std=c++0x -o obj/gwas_read_phenotypes.o -c src/mode_gwas/gwas_read_phenotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_gwas/../common/data.h:19, from src/mode_gwas/gwas_data.h:20, @@ -1779,7 +1815,6 @@ | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' g++ -std=c++0x -o obj/match_main.o -c src/mode_match/match_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib -g++ -std=c++0x -o obj/match_managment.o -c src/mode_match/match_managment.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_match/../common/data.h:19, from src/mode_match/match_data.h:20, @@ -1796,7 +1831,7 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' -g++ -std=c++0x -o obj/match_process.o -c src/mode_match/match_process.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib +g++ -std=c++0x -o obj/match_managment.o -c src/mode_match/match_managment.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_match/../common/data.h:19, from src/mode_match/match_data.h:20, @@ -1813,6 +1848,8 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' +g++ -std=c++0x -o obj/match_process.o -c src/mode_match/match_process.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib +g++ -std=c++0x -o obj/match_read_genotypes.o -c src/mode_match/match_read_genotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_match/../common/data.h:19, from src/mode_match/match_data.h:20, @@ -1829,8 +1866,6 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' -g++ -std=c++0x -o obj/match_read_genotypes.o -c src/mode_match/match_read_genotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib -g++ -std=c++0x -o obj/match_read_sequences.o -c src/mode_match/match_read_sequences.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_match/../common/data.h:19, from src/mode_match/match_data.h:20, @@ -1847,6 +1882,7 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' +g++ -std=c++0x -o obj/match_read_sequences.o -c src/mode_match/match_read_sequences.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_match/../common/data.h:19, from src/mode_match/match_data.h:20, @@ -1898,6 +1934,7 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' +g++ -std=c++0x -o obj/pca_read_data.o -c src/mode_pca/pca_read_data.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_pca/../common/data.h:19, from src/mode_pca/pca_pca.h:22, @@ -1914,7 +1951,6 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' -g++ -std=c++0x -o obj/pca_read_data.o -c src/mode_pca/pca_read_data.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_pca/../common/data.h:19, from src/mode_pca/pca_data.h:22, @@ -1999,6 +2035,8 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' +g++ -std=c++0x -o obj/quan_xxhash.o -c src/mode_quan/quan_xxhash.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib +g++ -std=c++0x -o obj/rep_initilization.o -c src/mode_rep/rep_initilization.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from /usr/include/c++/14/queue:64, from lib/OTools/otools.h:22: /usr/include/c++/14/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = my_exon; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': @@ -2068,7 +2106,6 @@ /usr/include/c++/14/bits/stl_algo.h:1822:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1822 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -std=c++0x -o obj/quan_xxhash.o -c src/mode_quan/quan_xxhash.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from /usr/include/c++/14/vector:65, from lib/OTools/otools.h:20: /usr/include/c++/14/bits/stl_uninitialized.h: In function '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = my_exon*]': @@ -2146,31 +2183,10 @@ /usr/include/c++/14/bits/stl_algo.h:1890:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1890 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]', - inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' at /usr/include/c++/14/bits/stl_algo.h:4771:18, - inlined from 'void quan2_data::readGTF(std::string)' at src/mode_quan/quan_readGTF.cpp:59:9: -/usr/include/c++/14/bits/stl_algo.h:1905:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 - 1905 | std::__introsort_loop(__first, __last, - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ - 1906 | std::__lg(__last - __first) * 2, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 1907 | __comp); - | ~~~~~~~ -In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]', - inlined from 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/14/bits/stl_algo.h:1908:31, - inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' at /usr/include/c++/14/bits/stl_algo.h:4771:18, - inlined from 'void quan2_data::readGTF(std::string)' at src/mode_quan/quan_readGTF.cpp:59:9: -/usr/include/c++/14/bits/stl_algo.h:1817:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 - 1817 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/14/bits/stl_algo.h:1822:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 - 1822 | std::__insertion_sort(__first, __last, __comp); - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -std=c++0x -o obj/rep_initilization.o -c src/mode_rep/rep_initilization.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, - from src/mode_quan/../common/data.h:19, - from src/mode_quan/quan_data.h:21, - from src/mode_quan/quan_xxhash.cpp:109: + from src/mode_rep/../common/data.h:19, + from src/mode_rep/rep_data.h:31, + from src/mode_rep/rep_initilization.cpp:16: lib/OTools/interval_tree.h:76:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 76 | IntervalTree(void) | ^ @@ -2184,9 +2200,9 @@ | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' In file included from lib/OTools/otools.h:56, - from src/mode_rep/../common/data.h:19, - from src/mode_rep/rep_data.h:31, - from src/mode_rep/rep_initilization.cpp:16: + from src/mode_quan/../common/data.h:19, + from src/mode_quan/quan_data.h:21, + from src/mode_quan/quan_xxhash.cpp:109: lib/OTools/interval_tree.h:76:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 76 | IntervalTree(void) | ^ @@ -2199,7 +2215,28 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' +In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]', + inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' at /usr/include/c++/14/bits/stl_algo.h:4771:18, + inlined from 'void quan2_data::readGTF(std::string)' at src/mode_quan/quan_readGTF.cpp:59:9: +/usr/include/c++/14/bits/stl_algo.h:1905:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 + 1905 | std::__introsort_loop(__first, __last, + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ + 1906 | std::__lg(__last - __first) * 2, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 1907 | __comp); + | ~~~~~~~ +In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]', + inlined from 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/14/bits/stl_algo.h:1908:31, + inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' at /usr/include/c++/14/bits/stl_algo.h:4771:18, + inlined from 'void quan2_data::readGTF(std::string)' at src/mode_quan/quan_readGTF.cpp:59:9: +/usr/include/c++/14/bits/stl_algo.h:1817:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 + 1817 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/14/bits/stl_algo.h:1822:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 + 1822 | std::__insertion_sort(__first, __last, __comp); + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ g++ -std=c++0x -o obj/rep_main.o -c src/mode_rep/rep_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib +g++ -std=c++0x -o obj/rep_management.o -c src/mode_rep/rep_management.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_rep/../common/data.h:19, from src/mode_rep/rep_data.h:31, @@ -2216,7 +2253,6 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' -g++ -std=c++0x -o obj/rep_management.o -c src/mode_rep/rep_management.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_rep/../common/data.h:19, from src/mode_rep/rep_data.h:31, @@ -2251,6 +2287,8 @@ | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' g++ -std=c++0x -o obj/rep_read_covariates.o -c src/mode_rep/rep_read_covariates.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib +g++ -std=c++0x -o obj/rep_read_genotypes.o -c src/mode_rep/rep_read_genotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib +g++ -std=c++0x -o obj/rep_read_phenotypes.o -c src/mode_rep/rep_read_phenotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_rep/../common/data.h:19, from src/mode_rep/rep_data.h:31, @@ -2267,7 +2305,6 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' -g++ -std=c++0x -o obj/rep_read_genotypes.o -c src/mode_rep/rep_read_genotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_rep/../common/data.h:19, from src/mode_rep/rep_data.h:31, @@ -2284,7 +2321,6 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' -g++ -std=c++0x -o obj/rep_read_phenotypes.o -c src/mode_rep/rep_read_phenotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_rep/../common/data.h:19, from src/mode_rep/rep_data.h:31, @@ -2319,6 +2355,8 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' +g++ -std=c++0x -o obj/rtc_collapse_phenotypes.o -c src/mode_rtc/rtc_collapse_phenotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib +g++ -std=c++0x -o obj/rtc_common.o -c src/mode_rtc/rtc_common.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_rtc/../common/data.h:19, from src/mode_rtc/rtc_data.h:36, @@ -2335,7 +2373,6 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' -g++ -std=c++0x -o obj/rtc_collapse_phenotypes.o -c src/mode_rtc/rtc_collapse_phenotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_rtc/../common/data.h:19, from src/mode_rtc/rtc_data.h:36, @@ -2352,8 +2389,6 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' -g++ -std=c++0x -o obj/rtc_common.o -c src/mode_rtc/rtc_common.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib -g++ -std=c++0x -o obj/rtc_gwas_cis.o -c src/mode_rtc/rtc_gwas_cis.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_rtc/../common/data.h:19, from src/mode_rtc/rtc_data.h:36, @@ -2370,6 +2405,8 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' +g++ -std=c++0x -o obj/rtc_gwas_cis.o -c src/mode_rtc/rtc_gwas_cis.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib +g++ -std=c++0x -o obj/rtc_gwas_trans.o -c src/mode_rtc/rtc_gwas_trans.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_rtc/../common/data.h:19, from src/mode_rtc/rtc_data.h:36, @@ -2386,7 +2423,22 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' -g++ -std=c++0x -o obj/rtc_gwas_trans.o -c src/mode_rtc/rtc_gwas_trans.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib +In file included from lib/OTools/otools.h:56, + from src/mode_rtc/../common/data.h:19, + from src/mode_rtc/rtc_data.h:36, + from src/mode_rtc/rtc_gwas_trans.cpp:16: +lib/OTools/interval_tree.h:76:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] + 76 | IntervalTree(void) + | ^ +lib/OTools/interval_tree.h:76:22: note: remove the '< >' +lib/OTools/interval_tree.h:82:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] + 82 | IntervalTree(const intervalTree& other) { + | ^ +lib/OTools/interval_tree.h:82:22: note: remove the '< >' +lib/OTools/interval_tree.h:118:13: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] + 118 | intervalVector& ivals, + | ^~~~~~~~~~~~~~ +lib/OTools/interval_tree.h:118:13: note: remove the '< >' In file included from /usr/include/c++/14/queue:64, from lib/OTools/otools.h:22: /usr/include/c++/14/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': @@ -2408,39 +2460,7 @@ /usr/include/c++/14/bits/stl_algo.h:1890:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1890 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from lib/OTools/otools.h:56, - from src/mode_rtc/../common/data.h:19, - from src/mode_rtc/rtc_data.h:36, - from src/mode_rtc/rtc_gwas_trans.cpp:16: -lib/OTools/interval_tree.h:76:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] - 76 | IntervalTree(void) - | ^ -lib/OTools/interval_tree.h:76:22: note: remove the '< >' -lib/OTools/interval_tree.h:82:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] - 82 | IntervalTree(const intervalTree& other) { - | ^ -lib/OTools/interval_tree.h:82:22: note: remove the '< >' -lib/OTools/interval_tree.h:118:13: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] - 118 | intervalVector& ivals, - | ^~~~~~~~~~~~~~ -lib/OTools/interval_tree.h:118:13: note: remove the '< >' g++ -std=c++0x -o obj/rtc_initilization.o -c src/mode_rtc/rtc_initilization.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib -In file included from lib/OTools/otools.h:56, - from src/mode_rtc/../common/data.h:19, - from src/mode_rtc/rtc_data.h:36, - from src/mode_rtc/rtc_initilization.cpp:16: -lib/OTools/interval_tree.h:76:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] - 76 | IntervalTree(void) - | ^ -lib/OTools/interval_tree.h:76:22: note: remove the '< >' -lib/OTools/interval_tree.h:82:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] - 82 | IntervalTree(const intervalTree& other) { - | ^ -lib/OTools/interval_tree.h:82:22: note: remove the '< >' -lib/OTools/interval_tree.h:118:13: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] - 118 | intervalVector& ivals, - | ^~~~~~~~~~~~~~ -lib/OTools/interval_tree.h:118:13: note: remove the '< >' In function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]', inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' at /usr/include/c++/14/bits/stl_algo.h:4771:18, inlined from 'void rtc_data::calculateRTC(std::string)' at src/mode_rtc/rtc_common.cpp:356:10: @@ -2461,6 +2481,22 @@ /usr/include/c++/14/bits/stl_algo.h:1822:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1822 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from lib/OTools/otools.h:56, + from src/mode_rtc/../common/data.h:19, + from src/mode_rtc/rtc_data.h:36, + from src/mode_rtc/rtc_initilization.cpp:16: +lib/OTools/interval_tree.h:76:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] + 76 | IntervalTree(void) + | ^ +lib/OTools/interval_tree.h:76:22: note: remove the '< >' +lib/OTools/interval_tree.h:82:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] + 82 | IntervalTree(const intervalTree& other) { + | ^ +lib/OTools/interval_tree.h:82:22: note: remove the '< >' +lib/OTools/interval_tree.h:118:13: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] + 118 | intervalVector& ivals, + | ^~~~~~~~~~~~~~ +lib/OTools/interval_tree.h:118:13: note: remove the '< >' g++ -std=c++0x -o obj/rtc_main.o -c src/mode_rtc/rtc_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_rtc/../common/data.h:19, @@ -2479,6 +2515,7 @@ | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' g++ -std=c++0x -o obj/rtc_management.o -c src/mode_rtc/rtc_management.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib +g++ -std=c++0x -o obj/rtc_mergeQTL_cis.o -c src/mode_rtc/rtc_mergeQTL_cis.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_rtc/../common/data.h:19, from src/mode_rtc/rtc_data.h:36, @@ -2495,7 +2532,6 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' -g++ -std=c++0x -o obj/rtc_mergeQTL_cis.o -c src/mode_rtc/rtc_mergeQTL_cis.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_rtc/../common/data.h:19, from src/mode_rtc/rtc_data.h:36, @@ -2615,7 +2651,6 @@ | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' g++ -std=c++0x -o obj/trans_adjust.o -c src/mode_trans/trans_adjust.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib -g++ -std=c++0x -o obj/trans_analysis_pass.o -c src/mode_trans/trans_analysis_pass.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_trans/../common/data.h:19, from src/mode_trans/trans_data.h:26, @@ -2632,6 +2667,7 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' +g++ -std=c++0x -o obj/trans_analysis_pass.o -c src/mode_trans/trans_analysis_pass.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_trans/../common/data.h:19, from src/mode_trans/trans_data.h:26, @@ -2648,6 +2684,7 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' +g++ -std=c++0x -o obj/trans_chunking.o -c src/mode_trans/trans_chunking.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from /usr/include/c++/14/queue:64, from lib/OTools/otools.h:22: /usr/include/c++/14/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': @@ -2685,6 +2722,22 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ +In file included from lib/OTools/otools.h:56, + from src/mode_trans/../common/data.h:19, + from src/mode_trans/trans_data.h:26, + from src/mode_trans/trans_chunking.cpp:16: +lib/OTools/interval_tree.h:76:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] + 76 | IntervalTree(void) + | ^ +lib/OTools/interval_tree.h:76:22: note: remove the '< >' +lib/OTools/interval_tree.h:82:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] + 82 | IntervalTree(const intervalTree& other) { + | ^ +lib/OTools/interval_tree.h:82:22: note: remove the '< >' +lib/OTools/interval_tree.h:118:13: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] + 118 | intervalVector& ivals, + | ^~~~~~~~~~~~~~ +lib/OTools/interval_tree.h:118:13: note: remove the '< >' In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = int; _Tp = double; _Compare = std::less; _Alloc = std::allocator >]', inlined from 'rtc_sample_results rtc_data::sampleRTC(std::vector&, std::vector&, int, double, int)' at src/mode_rtc/rtc_sampling.cpp:103:57: /usr/include/c++/14/bits/stl_map.h:513:44: note: parameter passing for argument of type 'std::_Rb_tree, std::_Select1st >, std::less, std::allocator > >::const_iterator' changed in GCC 7.1 @@ -2806,23 +2859,6 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 | std::tuple<>()); | ~~~~~~~~~~~~~~~ -g++ -std=c++0x -o obj/trans_chunking.o -c src/mode_trans/trans_chunking.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib -In file included from lib/OTools/otools.h:56, - from src/mode_trans/../common/data.h:19, - from src/mode_trans/trans_data.h:26, - from src/mode_trans/trans_chunking.cpp:16: -lib/OTools/interval_tree.h:76:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] - 76 | IntervalTree(void) - | ^ -lib/OTools/interval_tree.h:76:22: note: remove the '< >' -lib/OTools/interval_tree.h:82:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] - 82 | IntervalTree(const intervalTree& other) { - | ^ -lib/OTools/interval_tree.h:82:22: note: remove the '< >' -lib/OTools/interval_tree.h:118:13: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] - 118 | intervalVector& ivals, - | ^~~~~~~~~~~~~~ -lib/OTools/interval_tree.h:118:13: note: remove the '< >' g++ -std=c++0x -o obj/trans_initilization.o -c src/mode_trans/trans_initilization.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib g++ -std=c++0x -o obj/trans_learn_beta.o -c src/mode_trans/trans_learn_beta.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, @@ -2875,7 +2911,6 @@ | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' g++ -std=c++0x -o obj/trans_managment.o -c src/mode_trans/trans_managment.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib -g++ -std=c++0x -o obj/trans_read_covariates.o -c src/mode_trans/trans_read_covariates.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_trans/../common/data.h:19, from src/mode_trans/trans_data.h:26, @@ -2892,6 +2927,8 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' +g++ -std=c++0x -o obj/trans_read_covariates.o -c src/mode_trans/trans_read_covariates.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib +g++ -std=c++0x -o obj/trans_read_phenotypes.o -c src/mode_trans/trans_read_phenotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_trans/../common/data.h:19, from src/mode_trans/trans_data.h:26, @@ -2908,7 +2945,6 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' -g++ -std=c++0x -o obj/trans_read_phenotypes.o -c src/mode_trans/trans_read_phenotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_trans/../common/data.h:19, from src/mode_trans/trans_data.h:26, @@ -2943,6 +2979,7 @@ | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' g++ -std=c++0x -o obj/union_initilization.o -c src/mode_union/union_initilization.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib +g++ -std=c++0x -o obj/union_main.o -c src/mode_union/union_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_union/../common/data.h:19, from src/mode_union/union_data.h:20, @@ -2959,7 +2996,6 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' -g++ -std=c++0x -o obj/union_main.o -c src/mode_union/union_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_union/../common/data.h:19, from src/mode_union/union_data.h:20, @@ -2994,7 +3030,6 @@ | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' g++ -std=c++0x -o obj/union_read_covariates.o -c src/mode_union/union_read_covariates.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib -g++ -std=c++0x -o obj/union_read_genotypes.o -c src/mode_union/union_read_genotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_union/../common/data.h:19, from src/mode_union/union_data.h:20, @@ -3011,6 +3046,7 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' +g++ -std=c++0x -o obj/union_read_genotypes.o -c src/mode_union/union_read_genotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_union/../common/data.h:19, from src/mode_union/union_data.h:20, @@ -3028,6 +3064,7 @@ | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' g++ -std=c++0x -o obj/union_read_get_hotspots.o -c src/mode_union/union_read_get_hotspots.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib +g++ -std=c++0x -o obj/union_read_phenotypes.o -c src/mode_union/union_read_phenotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_union/../common/data.h:19, from src/mode_union/union_data.h:20, @@ -3044,8 +3081,6 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' -g++ -std=c++0x -o obj/union_read_phenotypes.o -c src/mode_union/union_read_phenotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib -g++ -std=c++0x -o obj/union_union.o -c src/mode_union/union_union.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_union/../common/data.h:19, from src/mode_union/union_data.h:20, @@ -3062,6 +3097,7 @@ 118 | intervalVector& ivals, | ^~~~~~~~~~~~~~ lib/OTools/interval_tree.h:118:13: note: remove the '< >' +g++ -std=c++0x -o obj/union_union.o -c src/mode_union/union_union.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -ffile-prefix-map=/build/reproducible-path/qtltools-1.3.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g0 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from lib/OTools/otools.h:56, from src/mode_union/../common/data.h:19, from src/mode_union/union_data.h:20, @@ -3085,14 +3121,14 @@ create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install - make -j3 install DESTDIR=/build/reproducible-path/qtltools-1.3.1\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" + make -j4 install DESTDIR=/build/reproducible-path/qtltools-1.3.1\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/qtltools-1.3.1+dfsg' mkdir -p -m 755 /build/reproducible-path/qtltools-1.3.1+dfsg/debian/tmp/usr/local/bin /build/reproducible-path/qtltools-1.3.1+dfsg/debian/tmp/usr/local/share/man/man1 /build/reproducible-path/qtltools-1.3.1+dfsg/debian/tmp/etc/bash_completion.d install --strip-program=true bin/QTLtools /build/reproducible-path/qtltools-1.3.1+dfsg/debian/tmp/usr/local/bin install: WARNING: ignoring --strip-program option as -s option was not specified -install --strip-program=true -m 755 scripts/qtltools_runFDR_atrans.R scripts/qtltools_runFDR_ftrans.R scripts/qtltools_plotTrans.R scripts/qtltools_runFDR_cis.R /build/reproducible-path/qtltools-1.3.1+dfsg/debian/tmp/usr/local/bin +install --strip-program=true -m 755 scripts/qtltools_runFDR_atrans.R scripts/qtltools_runFDR_cis.R scripts/qtltools_plotTrans.R scripts/qtltools_runFDR_ftrans.R /build/reproducible-path/qtltools-1.3.1+dfsg/debian/tmp/usr/local/bin install: WARNING: ignoring --strip-program option as -s option was not specified -install --strip-program=true -m 644 doc/QTLtools-mbv.1 doc/QTLtools-extract.1 doc/QTLtools-fdensity.1 doc/QTLtools-pca.1 doc/QTLtools-correct.1 doc/QTLtools-cis.1 doc/QTLtools-bamstat.1 doc/QTLtools-rtc.1 doc/QTLtools-trans.1 doc/QTLtools.1 doc/QTLtools-ase.1 doc/QTLtools-rep.1 doc/QTLtools-quan.1 doc/QTLtools-gwas.1 doc/QTLtools-rtc-union.1 doc/QTLtools-fenrich.1 /build/reproducible-path/qtltools-1.3.1+dfsg/debian/tmp/usr/local/share/man/man1 +install --strip-program=true -m 644 doc/QTLtools-extract.1 doc/QTLtools-ase.1 doc/QTLtools-cis.1 doc/QTLtools-trans.1 doc/QTLtools-quan.1 doc/QTLtools-rep.1 doc/QTLtools-rtc.1 doc/QTLtools-bamstat.1 doc/QTLtools-rtc-union.1 doc/QTLtools-correct.1 doc/QTLtools-pca.1 doc/QTLtools-gwas.1 doc/QTLtools-fenrich.1 doc/QTLtools-fdensity.1 doc/QTLtools.1 doc/QTLtools-mbv.1 /build/reproducible-path/qtltools-1.3.1+dfsg/debian/tmp/usr/local/share/man/man1 install: WARNING: ignoring --strip-program option as -s option was not specified install --strip-program=true -m 644 doc/QTLtools_bash_autocomplete.bash /build/reproducible-path/qtltools-1.3.1+dfsg/debian/tmp/etc/bash_completion.d install: WARNING: ignoring --strip-program option as -s option was not specified @@ -3134,9 +3170,9 @@ dh_gencontrol dh_md5sums dh_builddeb +dpkg-deb: building package 'qtltools' in '../qtltools_1.3.1+dfsg-4_armhf.deb'. dpkg-deb: building package 'qtltools-dbgsym' in '../qtltools-dbgsym_1.3.1+dfsg-4_armhf.deb'. dpkg-deb: building package 'qtltools-example' in '../qtltools-example_1.3.1+dfsg-4_all.deb'. -dpkg-deb: building package 'qtltools' in '../qtltools_1.3.1+dfsg-4_armhf.deb'. dpkg-genbuildinfo --build=binary -O../qtltools_1.3.1+dfsg-4_armhf.buildinfo dpkg-genchanges --build=binary -O../qtltools_1.3.1+dfsg-4_armhf.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -3144,12 +3180,14 @@ 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/9215/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/9215/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/13811 and its subdirectories -I: Current time: Tue Dec 3 20:35:37 -12 2024 -I: pbuilder-time-stamp: 1733301337 +I: removing directory /srv/workspace/pbuilder/9215 and its subdirectories +I: Current time: Wed Dec 4 19:40:36 +14 2024 +I: pbuilder-time-stamp: 1733290836