Diff of the two buildlogs: -- --- b1/build.log 2025-08-30 20:43:38.819882036 +0000 +++ b2/build.log 2025-08-30 20:45:23.080008600 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Fri Oct 2 15:04:39 -12 2026 -I: pbuilder-time-stamp: 1790996679 +I: Current time: Sun Aug 31 10:43:43 +14 2025 +I: pbuilder-time-stamp: 1756586623 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-reproducible-base.tgz] I: copying local configuration @@ -25,53 +25,85 @@ dpkg-source: info: applying spelling I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/3142553/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/35419/tmp/hooks/D01_modify_environment starting +debug: Running on ionos1-amd64. +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 Aug 30 20:43 /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/35419/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/35419/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='amd64' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' - DISTRIBUTION='forky' - HOME='/root' - HOST_ARCH='amd64' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="37" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.2.37(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=40 ' + DIRSTACK=() + DISTRIBUTION=forky + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='d1f6888cf7e142c38937e8d732249d92' - 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='3142553' - PS1='# ' - PS2='> ' + INVOCATION_ID=a07a292f7648417c854121d1cbf3ecdb + LANG=C + LANGUAGE=et_EE:et + LC_ALL=C + MACHTYPE=x86_64-pc-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=35419 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.pWqtIsgg/pbuilderrc_BNRw --distribution forky --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.pWqtIsgg/b1 --logfile b1/build.log libbpp-popgen_2.4.1-11.dsc' - SUDO_GID='110' - SUDO_HOME='/var/lib/jenkins' - SUDO_UID='105' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://213.165.73.152:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.pWqtIsgg/pbuilderrc_RUar --distribution forky --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.pWqtIsgg/b2 --logfile b2/build.log libbpp-popgen_2.4.1-11.dsc' + SUDO_GID=110 + SUDO_HOME=/var/lib/jenkins + SUDO_UID=105 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://46.16.76.132:3128 I: uname -a - Linux ionos5-amd64 6.12.41+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.41-1 (2025-08-12) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.12.41+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.41-1 (2025-08-12) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/3142553/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/35419/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -179,7 +211,7 @@ Get: 62 http://deb.debian.org/debian forky/main amd64 libbpp-core-dev amd64 2.4.1-13+b1 [967 kB] Get: 63 http://deb.debian.org/debian forky/main amd64 libbpp-seq12t64 amd64 2.4.1-13 [510 kB] Get: 64 http://deb.debian.org/debian forky/main amd64 libbpp-seq-dev amd64 2.4.1-13 [745 kB] -Fetched 34.2 MB in 11s (3241 kB/s) +Fetched 34.2 MB in 5s (7382 kB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1:amd64. (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 ... 19897 files and directories currently installed.) @@ -450,7 +482,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/libbpp-popgen-2.4.1/ && 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 > ../libbpp-popgen_2.4.1-11_source.changes +I: user script /srv/workspace/pbuilder/35419/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for forky +I: user script /srv/workspace/pbuilder/35419/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/libbpp-popgen-2.4.1/ && 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 > ../libbpp-popgen_2.4.1-11_source.changes dpkg-buildpackage: info: source package libbpp-popgen dpkg-buildpackage: info: source version 2.4.1-11 dpkg-buildpackage: info: source distribution unstable @@ -490,7 +526,7 @@ -- shared lib: /usr/lib/x86_64-linux-gnu/libbpp-seq.so.12.0.0 -- includes: /usr/include -- Could NOT find Doxygen (missing: DOXYGEN_EXECUTABLE) --- Configuring done (0.9s) +-- Configuring done (0.3s) -- Generating done (0.0s) CMake Warning: Manually-specified variables were not used by the project: @@ -502,7 +538,7 @@ -- Build files have been written to: /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu dh_auto_build - cd obj-x86_64-linux-gnu && make -j42 "INSTALL=install --strip-program=true" VERBOSE=1 + cd obj-x86_64-linux-gnu && make -j40 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/libbpp-popgen-2.4.1 -B/build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu//CMakeFiles/progress.marks @@ -515,97 +551,97 @@ make[3]: Entering directory '/build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu' cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libbpp-popgen-2.4.1 /build/reproducible-path/libbpp-popgen-2.4.1/src /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src/CMakeFiles/bpp-popgen-shared.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu' -make -f src/CMakeFiles/bpp-popgen-shared.dir/build.make src/CMakeFiles/bpp-popgen-shared.dir/build make[3]: Leaving directory '/build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu' +make -f src/CMakeFiles/bpp-popgen-shared.dir/build.make src/CMakeFiles/bpp-popgen-shared.dir/build make -f src/CMakeFiles/bpp-popgen-static.dir/build.make src/CMakeFiles/bpp-popgen-static.dir/build make[3]: Entering directory '/build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu' -[ 6%] Building CXX object src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/DataSet/AnalyzedLoci.cpp.o -[ 6%] Building CXX object src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/DataSet/AnalyzedLoci.cpp.o -[ 6%] Building CXX object src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/BiAlleleMonolocusGenotype.cpp.o -cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/DataSet/AnalyzedLoci.cpp.o -MF CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/DataSet/AnalyzedLoci.cpp.o.d -o CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/DataSet/AnalyzedLoci.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/AnalyzedLoci.cpp -cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/BiAlleleMonolocusGenotype.cpp.o -MF CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/BiAlleleMonolocusGenotype.cpp.o.d -o CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/BiAlleleMonolocusGenotype.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/BiAlleleMonolocusGenotype.cpp -cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_popgen_shared_EXPORTS -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/DataSet/AnalyzedLoci.cpp.o -MF CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/DataSet/AnalyzedLoci.cpp.o.d -o CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/DataSet/AnalyzedLoci.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/AnalyzedLoci.cpp [ 6%] Building CXX object src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/BasicAlleleInfo.cpp.o -[ 11%] Building CXX object src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/DataSet/Date.cpp.o +[ 6%] Building CXX object src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/DataSet/AnalyzedSequences.cpp.o +[ 6%] Building CXX object src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/BiAlleleMonolocusGenotype.cpp.o +[ 9%] Building CXX object src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/DataSet/Group.cpp.o +[ 6%] Building CXX object src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/BiAlleleMonolocusGenotype.cpp.o [ 11%] Building CXX object src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/DataSet/DataSetTools.cpp.o -[ 14%] Building CXX object src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/DataSet/DataSet.cpp.o -[ 16%] Building CXX object src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/DataSet/Io/AbstractIDataSet.cpp.o -[ 17%] Building CXX object src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/DataSet/Group.cpp.o -[ 24%] Building CXX object src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/DataSet/Io/AbstractIDataSet.cpp.o -[ 27%] Building CXX object src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/BasicAlleleInfo.cpp.o -[ 27%] Building CXX object src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/BiAlleleMonolocusGenotype.cpp.o -[ 29%] Building CXX object src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/DataSet/AnalyzedSequences.cpp.o -[ 29%] Building CXX object src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/DataSet/AnalyzedSequences.cpp.o -[ 29%] Building CXX object src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/DataSet/DataSetTools.cpp.o -cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/DataSet/DataSet.cpp.o -MF CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/DataSet/DataSet.cpp.o.d -o CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/DataSet/DataSet.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/DataSet.cpp -cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_popgen_shared_EXPORTS -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/BasicAlleleInfo.cpp.o -MF CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/BasicAlleleInfo.cpp.o.d -o CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/BasicAlleleInfo.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/BasicAlleleInfo.cpp -cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/DataSet/Io/AbstractIDataSet.cpp.o -MF CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/DataSet/Io/AbstractIDataSet.cpp.o.d -o CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/DataSet/Io/AbstractIDataSet.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/AbstractIDataSet.cpp -cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_popgen_shared_EXPORTS -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. 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src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/BasicAlleleInfo.cpp.o -MF CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/BasicAlleleInfo.cpp.o.d -o CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/BasicAlleleInfo.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/BasicAlleleInfo.cpp -[ 29%] Building CXX object src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/DataSet/Io/AbstractODataSet.cpp.o -cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_popgen_shared_EXPORTS -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/DataSet/AnalyzedSequences.cpp.o -MF CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/DataSet/AnalyzedSequences.cpp.o.d 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-I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/DataSet/Io/PopgenlibIO.cpp.o -MF CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/DataSet/Io/PopgenlibIO.cpp.o.d -o CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/DataSet/Io/PopgenlibIO.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/PopgenlibIO.cpp +[ 66%] Building CXX object src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/MonolocusGenotypeTools.cpp.o +cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_popgen_shared_EXPORTS -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/MonolocusGenotypeTools.cpp.o -MF CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/MonolocusGenotypeTools.cpp.o.d -o CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/MonolocusGenotypeTools.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/MonolocusGenotypeTools.cpp +[ 67%] Building CXX object src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/LocusInfo.cpp.o cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion 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CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/MultiAlleleMonolocusGenotype.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/MultiAlleleMonolocusGenotype.cpp +[ 69%] Building CXX object src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MonoAlleleMonolocusGenotype.cpp.o +cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MonoAlleleMonolocusGenotype.cpp.o -MF CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MonoAlleleMonolocusGenotype.cpp.o.d -o CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MonoAlleleMonolocusGenotype.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/MonoAlleleMonolocusGenotype.cpp In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/MultiSeqIndividual.h:58, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/MultiSeqIndividual.cpp:40: /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:73:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] @@ -634,12 +670,6 @@ 90 | virtual ~Locality() {} | ^ /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:90:11: note: remove the '< >' -[ 70%] Building CXX object src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MonoAlleleMonolocusGenotype.cpp.o -cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong 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-MD -MT src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MonolocusGenotypeTools.cpp.o -MF CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MonolocusGenotypeTools.cpp.o.d -o CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MonolocusGenotypeTools.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/MonolocusGenotypeTools.cpp -[ 74%] Building CXX object src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MultiAlleleMonolocusGenotype.cpp.o -cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MultiAlleleMonolocusGenotype.cpp.o -MF CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MultiAlleleMonolocusGenotype.cpp.o.d -o CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MultiAlleleMonolocusGenotype.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/MultiAlleleMonolocusGenotype.cpp In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Individual.h:58, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Individual.cpp:40: /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:73:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] @@ -654,8 +684,10 @@ 90 | virtual ~Locality() {} | ^ /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:90:11: note: remove the '< >' -[ 75%] Building CXX object src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MultilocusGenotype.cpp.o -cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MultilocusGenotype.cpp.o -MF CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MultilocusGenotype.cpp.o.d -o CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MultilocusGenotype.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/MultilocusGenotype.cpp +[ 70%] Building CXX object src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MonolocusGenotypeTools.cpp.o +cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat 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src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/MultiAlleleMonolocusGenotype.cpp.o -MF CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/MultiAlleleMonolocusGenotype.cpp.o.d -o CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/MultiAlleleMonolocusGenotype.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/MultiAlleleMonolocusGenotype.cpp In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Individual.h:58, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Individual.cpp:40: /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:73:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] @@ -670,16 +702,32 @@ 90 | virtual ~Locality() {} | ^ /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:90:11: note: remove the '< >' -[ 77%] Building CXX object src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/MultilocusGenotype.cpp.o +[ 74%] Building CXX 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-Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismMultiGContainer.cpp.o -MF CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismMultiGContainer.cpp.o.d -o CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismMultiGContainer.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/PolymorphismMultiGContainer.cpp -[ 83%] Building CXX object src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismMultiGContainer.cpp.o -cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_popgen_shared_EXPORTS -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismMultiGContainer.cpp.o -MF CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismMultiGContainer.cpp.o.d -o CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismMultiGContainer.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/PolymorphismMultiGContainer.cpp +[ 77%] Building CXX object src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MultilocusGenotype.cpp.o +cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MultilocusGenotype.cpp.o -MF CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MultilocusGenotype.cpp.o.d -o CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MultilocusGenotype.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/MultilocusGenotype.cpp +In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Individual.h:58, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Group.h:57, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../DataSet.h:53, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../IODataSet.h:43, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../IDataSet.h:43, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../AbstractIDataSet.h:44, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/Genepop.h:49, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/Genepop.cpp:40: +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Locality.h:73:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] + 73 | Locality(const std::string name, const T x = 0, const T y = 0) : + | ^ +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Locality.h:73:14: note: remove the '< >' +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Locality.h:83:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] + 83 | Locality(const std::string name, const bpp::Point2D &coord) : + | ^ +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Locality.h:83:14: note: remove the '< >' +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Locality.h:90:11: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] + 90 | virtual ~Locality() {} + | ^ +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Locality.h:90:11: note: remove the '< >' In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../Individual.h:58, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../Group.h:57, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../DataSet.h:53, @@ -703,6 +751,37 @@ In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Individual.h:58, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Group.h:57, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/DataSet.h:53, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/DataSet.cpp:41: +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:73:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] + 73 | Locality(const std::string name, const T x = 0, const T y = 0) : + | ^ +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:73:14: note: remove the '< >' +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:83:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] + 83 | Locality(const std::string name, const bpp::Point2D &coord) : + | ^ +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:83:14: note: remove the '< >' +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:90:11: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] + 90 | virtual ~Locality() {} + | ^ +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:90:11: note: remove the '< >' +In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Individual.h:58, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Group.h:57, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Group.cpp:41: +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:73:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] + 73 | Locality(const std::string name, const T x = 0, const T y = 0) : + | ^ +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:73:14: note: remove the '< >' +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:83:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] + 83 | Locality(const std::string name, const bpp::Point2D &coord) : + | ^ +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:83:14: note: remove the '< >' +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:90:11: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] + 90 | virtual ~Locality() {} + | ^ +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:90:11: note: remove the '< >' +In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Individual.h:58, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Group.h:57, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/DataSet.h:53, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/DataSetTools.h:54, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/DataSetTools.cpp:40: /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:73:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] @@ -717,8 +796,6 @@ 90 | virtual ~Locality() {} | ^ /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:90:11: note: remove the '< >' -[ 85%] Building CXX object src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismMultiGContainerTools.cpp.o -cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismMultiGContainerTools.cpp.o -MF CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismMultiGContainerTools.cpp.o.d -o CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismMultiGContainerTools.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/PolymorphismMultiGContainerTools.cpp In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../Individual.h:58, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../Group.h:57, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../DataSet.h:53, @@ -739,6 +816,28 @@ 90 | virtual ~Locality() {} | ^ /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../Locality.h:90:11: note: remove the '< >' +[ 79%] Building CXX object src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/MultilocusGenotypeStatistics.cpp.o +cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_popgen_shared_EXPORTS -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/MultilocusGenotypeStatistics.cpp.o -MF CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/MultilocusGenotypeStatistics.cpp.o.d -o CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/MultilocusGenotypeStatistics.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/MultilocusGenotypeStatistics.cpp +In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/../../Individual.h:58, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/../../Group.h:57, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/../../DataSet.h:53, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/../IODataSet.h:43, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/../IDataSet.h:43, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/../AbstractIDataSet.h:44, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/GeneMapperCsvExport.h:50, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/GeneMapperCsvExport.cpp:40: +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/../../Locality.h:73:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] + 73 | Locality(const std::string name, const T x = 0, const T y = 0) : + | ^ +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/../../Locality.h:73:14: note: remove the '< >' +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/../../Locality.h:83:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] + 83 | Locality(const std::string name, const bpp::Point2D &coord) : + | ^ +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/../../Locality.h:83:14: note: remove the '< >' +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/../../Locality.h:90:11: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] + 90 | virtual ~Locality() {} + | ^ +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/../../Locality.h:90:11: note: remove the '< >' In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Individual.h:58, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Group.h:57, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../DataSet.h:53, @@ -758,26 +857,6 @@ 90 | virtual ~Locality() {} | ^ /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:90:11: note: remove the '< >' -In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Individual.h:58, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Group.h:57, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../DataSet.h:53, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../IODataSet.h:43, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../IDataSet.h:43, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../AbstractIDataSet.h:44, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/Genepop.h:49, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/Genepop.cpp:40: -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Locality.h:73:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] - 73 | Locality(const std::string name, const T x = 0, const T y = 0) : - | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Locality.h:73:14: note: remove the '< >' -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Locality.h:83:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] - 83 | Locality(const std::string name, const bpp::Point2D &coord) : - | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Locality.h:83:14: note: remove the '< >' -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Locality.h:90:11: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] - 90 | virtual ~Locality() {} - | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Locality.h:90:11: note: remove the '< >' In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Individual.h:58, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Group.h:57, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Group.cpp:41: @@ -793,33 +872,40 @@ 90 | virtual ~Locality() {} | ^ /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:90:11: note: remove the '< >' -In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Individual.h:58, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Group.h:57, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../DataSet.h:53, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../IODataSet.h:43, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../IDataSet.h:43, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../AbstractIDataSet.h:44, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/Genetix.h:50, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/Genetix.cpp:41: -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Locality.h:73:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] +In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../Individual.h:58, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../Group.h:57, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../DataSet.h:53, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../IODataSet.h:43, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../ODataSet.h:43, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../AbstractODataSet.h:44, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/DarwinVarSingle.h:49, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/DarwinVarSingle.cpp:40: +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../Locality.h:73:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 73 | Locality(const std::string name, const T x = 0, const T y = 0) : | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Locality.h:73:14: note: remove the '< >' -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Locality.h:83:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../Locality.h:73:14: note: remove the '< >' +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../Locality.h:83:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 83 | Locality(const std::string name, const bpp::Point2D &coord) : | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Locality.h:83:14: note: remove the '< >' -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Locality.h:90:11: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../Locality.h:83:14: note: remove the '< >' +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../Locality.h:90:11: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 90 | virtual ~Locality() {} | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Locality.h:90:11: note: remove the '< >' +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../Locality.h:90:11: note: remove the '< >' +[ 80%] Building CXX object src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismMultiGContainer.cpp.o +cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_popgen_shared_EXPORTS -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismMultiGContainer.cpp.o -MF CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismMultiGContainer.cpp.o.d -o CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismMultiGContainer.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/PolymorphismMultiGContainer.cpp +[ 82%] Building CXX object src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismMultiGContainerTools.cpp.o +cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_popgen_shared_EXPORTS -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismMultiGContainerTools.cpp.o -MF CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismMultiGContainerTools.cpp.o.d -o CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismMultiGContainerTools.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/PolymorphismMultiGContainerTools.cpp +[ 85%] Building CXX object src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MultilocusGenotypeStatistics.cpp.o +[ 85%] Building CXX object src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismSequenceContainer.cpp.o In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Individual.h:58, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Group.h:57, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../DataSet.h:53, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/IODataSet.h:43, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/ODataSet.h:43, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/AbstractODataSet.h:44, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/AbstractODataSet.cpp:41: + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/IDataSet.h:43, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/AbstractIDataSet.h:44, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/PopgenlibIO.h:52, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/PopgenlibIO.cpp:40: /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:73:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 73 | Locality(const std::string name, const T x = 0, const T y = 0) : | ^ @@ -832,48 +918,27 @@ 90 | virtual ~Locality() {} | ^ /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:90:11: note: remove the '< >' -In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../Individual.h:58, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../Group.h:57, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../DataSet.h:53, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../IODataSet.h:43, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../ODataSet.h:43, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../AbstractODataSet.h:44, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/DarwinVarSingle.h:49, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/DarwinVarSingle.cpp:40: -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../Locality.h:73:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] - 73 | Locality(const std::string name, const T x = 0, const T y = 0) : - | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../Locality.h:73:14: note: remove the '< >' -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../Locality.h:83:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] - 83 | Locality(const std::string name, const bpp::Point2D &coord) : - | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../Locality.h:83:14: note: remove the '< >' -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../Locality.h:90:11: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] - 90 | virtual ~Locality() {} - | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../Locality.h:90:11: note: remove the '< >' -[ 87%] Building CXX object src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismMultiGContainerTools.cpp.o -In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Individual.h:58, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Group.h:57, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../DataSet.h:53, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../IODataSet.h:43, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../IDataSet.h:43, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../AbstractIDataSet.h:44, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/Genepop.h:49, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/Genepop.cpp:40: -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Locality.h:73:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] +cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MultilocusGenotypeStatistics.cpp.o -MF CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MultilocusGenotypeStatistics.cpp.o.d -o CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MultilocusGenotypeStatistics.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/MultilocusGenotypeStatistics.cpp +cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_popgen_shared_EXPORTS -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismSequenceContainer.cpp.o -MF CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismSequenceContainer.cpp.o.d -o CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismSequenceContainer.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/PolymorphismSequenceContainer.cpp +In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Individual.h:58, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Group.h:57, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../DataSet.h:53, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/IODataSet.h:43, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/ODataSet.h:43, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/AbstractODataSet.h:44, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/AbstractODataSet.cpp:41: +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:73:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 73 | Locality(const std::string name, const T x = 0, const T y = 0) : | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Locality.h:73:14: note: remove the '< >' -cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_popgen_shared_EXPORTS -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismMultiGContainerTools.cpp.o -MF CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismMultiGContainerTools.cpp.o.d -o CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismMultiGContainerTools.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/PolymorphismMultiGContainerTools.cpp -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Locality.h:83:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:73:14: note: remove the '< >' +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:83:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 83 | Locality(const std::string name, const bpp::Point2D &coord) : | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Locality.h:83:14: note: remove the '< >' -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Locality.h:90:11: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:83:14: note: remove the '< >' +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:90:11: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 90 | virtual ~Locality() {} | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Locality.h:90:11: note: remove the '< >' +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:90:11: note: remove the '< >' In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Individual.h:58, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Group.h:57, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/DataSet.h:53, @@ -911,29 +976,26 @@ 90 | virtual ~Locality() {} | ^ /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/../../Locality.h:90:11: note: remove the '< >' -In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Individual.h:58, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Group.h:57, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../DataSet.h:53, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/IODataSet.h:43, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/ODataSet.h:43, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/AbstractODataSet.h:44, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/AbstractODataSet.cpp:41: -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:73:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] +In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Individual.h:58, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Group.h:57, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../DataSet.h:53, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../IODataSet.h:43, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../IDataSet.h:43, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../AbstractIDataSet.h:44, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/Genepop.h:49, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/Genepop.cpp:40: +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Locality.h:73:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 73 | Locality(const std::string name, const T x = 0, const T y = 0) : | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:73:14: note: remove the '< >' -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:83:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Locality.h:73:14: note: remove the '< >' +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Locality.h:83:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 83 | Locality(const std::string name, const bpp::Point2D &coord) : | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:83:14: note: remove the '< >' -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:90:11: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Locality.h:83:14: note: remove the '< >' +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Locality.h:90:11: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 90 | virtual ~Locality() {} | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:90:11: note: remove the '< >' -[ 88%] Building CXX object src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismSequenceContainer.cpp.o -cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismSequenceContainer.cpp.o -MF CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismSequenceContainer.cpp.o.d -o CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismSequenceContainer.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/PolymorphismSequenceContainer.cpp -[ 90%] Building CXX object src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismSequenceContainer.cpp.o -cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_popgen_shared_EXPORTS -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismSequenceContainer.cpp.o -MF CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismSequenceContainer.cpp.o.d -o CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismSequenceContainer.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/PolymorphismSequenceContainer.cpp +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genepop/../../Locality.h:90:11: note: remove the '< >' In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../Individual.h:58, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../Group.h:57, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../DataSet.h:53, @@ -954,14 +1016,53 @@ 90 | virtual ~Locality() {} | ^ /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Darwin/../../Locality.h:90:11: note: remove the '< >' +In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Individual.h:58, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Group.h:57, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../DataSet.h:53, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../IODataSet.h:43, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../IDataSet.h:43, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../AbstractIDataSet.h:44, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/Genetix.h:50, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/Genetix.cpp:41: +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Locality.h:73:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] + 73 | Locality(const std::string name, const T x = 0, const T y = 0) : + | ^ +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Locality.h:73:14: note: remove the '< >' +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Locality.h:83:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] + 83 | Locality(const std::string name, const bpp::Point2D &coord) : + | ^ +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Locality.h:83:14: note: remove the '< >' +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Locality.h:90:11: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] + 90 | virtual ~Locality() {} + | ^ +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Locality.h:90:11: note: remove the '< >' +In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Individual.h:58, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Group.h:57, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../DataSet.h:53, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../IODataSet.h:43, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../IDataSet.h:43, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../AbstractIDataSet.h:44, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/Genetix.h:50, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/Genetix.cpp:41: +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Locality.h:73:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] + 73 | Locality(const std::string name, const T x = 0, const T y = 0) : + | ^ +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Locality.h:73:14: note: remove the '< >' +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Locality.h:83:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] + 83 | Locality(const std::string name, const bpp::Point2D &coord) : + | ^ +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Locality.h:83:14: note: remove the '< >' +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Locality.h:90:11: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] + 90 | virtual ~Locality() {} + | ^ +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Locality.h:90:11: note: remove the '< >' In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Individual.h:58, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Group.h:57, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../DataSet.h:53, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/IODataSet.h:43, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/IDataSet.h:43, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/AbstractIDataSet.h:44, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/PopgenlibIO.h:52, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/PopgenlibIO.cpp:40: + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/ODataSet.h:43, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/AbstractODataSet.h:44, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/AbstractODataSet.cpp:41: /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:73:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 73 | Locality(const std::string name, const T x = 0, const T y = 0) : | ^ @@ -974,15 +1075,14 @@ 90 | virtual ~Locality() {} | ^ /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:90:11: note: remove the '< >' -[ 91%] Building CXX object src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismSequenceContainerTools.cpp.o -cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismSequenceContainerTools.cpp.o -MF CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismSequenceContainerTools.cpp.o.d -o CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismSequenceContainerTools.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/PolymorphismSequenceContainerTools.cpp In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Individual.h:58, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Group.h:57, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../DataSet.h:53, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/IODataSet.h:43, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/IDataSet.h:43, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/AbstractIDataSet.h:44, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/AbstractIDataSet.cpp:41: + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/PopgenlibIO.h:52, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/PopgenlibIO.cpp:40: /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:73:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 73 | Locality(const std::string name, const T x = 0, const T y = 0) : | ^ @@ -995,46 +1095,27 @@ 90 | virtual ~Locality() {} | ^ /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:90:11: note: remove the '< >' -[ 93%] Building CXX object src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/SequenceStatistics.cpp.o -cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/SequenceStatistics.cpp.o -MF CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/SequenceStatistics.cpp.o.d -o CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/SequenceStatistics.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/SequenceStatistics.cpp -[ 95%] Building CXX object src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismSequenceContainerTools.cpp.o +[ 87%] Building CXX object src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismSequenceContainerTools.cpp.o cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_popgen_shared_EXPORTS -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismSequenceContainerTools.cpp.o -MF CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismSequenceContainerTools.cpp.o.d -o CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/PolymorphismSequenceContainerTools.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/PolymorphismSequenceContainerTools.cpp -In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Individual.h:58, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Group.h:57, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../DataSet.h:53, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../IODataSet.h:43, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../IDataSet.h:43, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../AbstractIDataSet.h:44, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/Genetix.h:50, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/Genetix.cpp:41: -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Locality.h:73:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] - 73 | Locality(const std::string name, const T x = 0, const T y = 0) : - | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Locality.h:73:14: note: remove the '< >' -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Locality.h:83:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] - 83 | Locality(const std::string name, const bpp::Point2D &coord) : - | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Locality.h:83:14: note: remove the '< >' -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Locality.h:90:11: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] - 90 | virtual ~Locality() {} - | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/Genetix/../../Locality.h:90:11: note: remove the '< >' -In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Individual.h:58, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Group.h:57, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/DataSet.h:53, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/DataSet.cpp:41: -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:73:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] +In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Individual.h:58, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Group.h:57, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../DataSet.h:53, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/IODataSet.h:43, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/IDataSet.h:43, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/AbstractIDataSet.h:44, + from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/AbstractIDataSet.cpp:41: +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:73:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 73 | Locality(const std::string name, const T x = 0, const T y = 0) : | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:73:14: note: remove the '< >' -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:83:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:73:14: note: remove the '< >' +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:83:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 83 | Locality(const std::string name, const bpp::Point2D &coord) : | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:83:14: note: remove the '< >' -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:90:11: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:83:14: note: remove the '< >' +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:90:11: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 90 | virtual ~Locality() {} | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:90:11: note: remove the '< >' +/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:90:11: note: remove the '< >' In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Individual.h:58, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Group.h:57, from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/DataSet.h:53, @@ -1051,63 +1132,18 @@ 90 | virtual ~Locality() {} | ^ /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:90:11: note: remove the '< >' -[ 96%] Building CXX object src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/SequenceStatistics.cpp.o +[ 88%] Building CXX object src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismMultiGContainer.cpp.o +cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismMultiGContainer.cpp.o -MF CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismMultiGContainer.cpp.o.d -o CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismMultiGContainer.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/PolymorphismMultiGContainer.cpp +[ 90%] Building CXX object src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/SequenceStatistics.cpp.o cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_popgen_shared_EXPORTS -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/SequenceStatistics.cpp.o -MF CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/SequenceStatistics.cpp.o.d -o CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/SequenceStatistics.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/SequenceStatistics.cpp -In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Individual.h:58, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Group.h:57, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Group.cpp:41: -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:73:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] - 73 | Locality(const std::string name, const T x = 0, const T y = 0) : - | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:73:14: note: remove the '< >' -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:83:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] - 83 | Locality(const std::string name, const bpp::Point2D &coord) : - | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:83:14: note: remove the '< >' -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:90:11: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] - 90 | virtual ~Locality() {} - | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Locality.h:90:11: note: remove the '< >' -In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/../../Individual.h:58, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/../../Group.h:57, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/../../DataSet.h:53, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/../IODataSet.h:43, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/../IDataSet.h:43, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/../AbstractIDataSet.h:44, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/GeneMapperCsvExport.h:50, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/GeneMapperCsvExport.cpp:40: -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/../../Locality.h:73:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] - 73 | Locality(const std::string name, const T x = 0, const T y = 0) : - | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/../../Locality.h:73:14: note: remove the '< >' -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/../../Locality.h:83:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] - 83 | Locality(const std::string name, const bpp::Point2D &coord) : - | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/../../Locality.h:83:14: note: remove the '< >' -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/../../Locality.h:90:11: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] - 90 | virtual ~Locality() {} - | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/GeneMapper/../../Locality.h:90:11: note: remove the '< >' -In file included from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Individual.h:58, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Group.h:57, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../DataSet.h:53, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/IODataSet.h:43, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/IDataSet.h:43, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/AbstractIDataSet.h:44, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/PopgenlibIO.h:52, - from /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/PopgenlibIO.cpp:40: -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:73:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] - 73 | Locality(const std::string name, const T x = 0, const T y = 0) : - | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:73:14: note: remove the '< >' -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:83:14: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] - 83 | Locality(const std::string name, const bpp::Point2D &coord) : - | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:83:14: note: remove the '< >' -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:90:11: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] - 90 | virtual ~Locality() {} - | ^ -/build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/DataSet/Io/../Locality.h:90:11: note: remove the '< >' +[ 91%] Building CXX object src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismMultiGContainerTools.cpp.o +cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismMultiGContainerTools.cpp.o -MF CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismMultiGContainerTools.cpp.o.d -o CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismMultiGContainerTools.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/PolymorphismMultiGContainerTools.cpp +[ 93%] Building CXX object src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismSequenceContainer.cpp.o +cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismSequenceContainer.cpp.o -MF CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismSequenceContainer.cpp.o.d -o CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismSequenceContainer.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/PolymorphismSequenceContainer.cpp +[ 95%] Building CXX object src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismSequenceContainerTools.cpp.o +cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismSequenceContainerTools.cpp.o -MF CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismSequenceContainerTools.cpp.o.d -o CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismSequenceContainerTools.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/PolymorphismSequenceContainerTools.cpp +[ 96%] Building CXX object src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/SequenceStatistics.cpp.o +cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-popgen-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/SequenceStatistics.cpp.o -MF CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/SequenceStatistics.cpp.o.d -o CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/SequenceStatistics.cpp.o -c /build/reproducible-path/libbpp-popgen-2.4.1/src/Bpp/PopGen/SequenceStatistics.cpp [ 98%] Linking CXX static library libbpp-popgen.a cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/cmake -P CMakeFiles/bpp-popgen-static.dir/cmake_clean_target.cmake cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/bpp-popgen-static.dir/link.txt --verbose=1 @@ -1115,12 +1151,12 @@ cd /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/bpp-popgen-shared.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-popgen-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,--dependency-file=CMakeFiles/bpp-popgen-shared.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libbpp-popgen.so.8 -o libbpp-popgen.so.8.0.0 "CMakeFiles/bpp-popgen-shared.dir/Bpp/PopGen/BasicAlleleInfo.cpp.o" 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"CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/DataSet/MultiSeqIndividual.cpp.o" "CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/GeneralExceptions.cpp.o" "CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/LocusInfo.cpp.o" "CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MonoAlleleMonolocusGenotype.cpp.o" "CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MonolocusGenotypeTools.cpp.o" "CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MultiAlleleMonolocusGenotype.cpp.o" "CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MultilocusGenotype.cpp.o" "CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/MultilocusGenotypeStatistics.cpp.o" "CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismMultiGContainer.cpp.o" "CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismMultiGContainerTools.cpp.o" "CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismSequenceContainer.cpp.o" "CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/PolymorphismSequenceContainerTools.cpp.o" "CMakeFiles/bpp-popgen-static.dir/Bpp/PopGen/SequenceStatistics.cpp.o" /usr/bin/ranlib libbpp-popgen.a make[3]: Leaving directory '/build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu' [100%] Built target bpp-popgen-static -[100%] Built target bpp-popgen-shared make[2]: Leaving directory '/build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu' @@ -1128,7 +1164,7 @@ create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install - cd obj-x86_64-linux-gnu && make -j42 install DESTDIR=/build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" + cd obj-x86_64-linux-gnu && make -j40 install DESTDIR=/build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/libbpp-popgen-2.4.1 -B/build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall @@ -1146,48 +1182,48 @@ -- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/lib/x86_64-linux-gnu/libbpp-popgen.so -- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp -- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/PolymorphismSequenceContainer.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/PolymorphismMultiGContainerTools.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/AlleleInfo.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/SequenceStatistics.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/MultiAlleleMonolocusGenotype.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/BasicAlleleInfo.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/PolymorphismMultiGContainer.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/MultilocusGenotypeStatistics.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/MonoAlleleMonolocusGenotype.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/LocusInfo.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/PolymorphismSequenceContainerTools.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/MonolocusGenotypeTools.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/MultilocusGenotype.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/BiAlleleMonolocusGenotype.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/GeneralExceptions.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/MonolocusGenotype.h -- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/DataSet.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/AnalyzedSequences.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Locality.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Individual.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Date.h -- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Io --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Io/Darwin --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Io/Darwin/DarwinVarSingle.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Io/Darwin/DarwinDon.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Io/ODataSet.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Io/IODataSet.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Io/PopgenlibIO.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Io/Genetix --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Io/Genetix/Genetix.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Io/AbstractIDataSet.h -- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Io/Genepop -- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Io/Genepop/Genepop.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Io/AbstractIDataSet.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Io/IDataSet.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Io/AbstractODataSet.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Io/Genetix +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Io/Genetix/Genetix.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Io/ODataSet.h -- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Io/GeneMapper -- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Io/GeneMapper/GeneMapperCsvExport.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Io/AbstractODataSet.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Io/IDataSet.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/AnalyzedLoci.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Io/PopgenlibIO.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Io/IODataSet.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Io/Darwin +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Io/Darwin/DarwinDon.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Io/Darwin/DarwinVarSingle.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Individual.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/DataSetTools.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Date.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Locality.h -- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/MultiSeqIndividual.h -- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/Group.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/DataSetTools.h --- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/MonolocusGenotype.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/AnalyzedSequences.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/AnalyzedLoci.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/DataSet/DataSet.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/MultilocusGenotypeStatistics.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/PolymorphismMultiGContainerTools.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/PolymorphismSequenceContainer.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/MultilocusGenotype.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/SequenceStatistics.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/MonoAlleleMonolocusGenotype.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/BiAlleleMonolocusGenotype.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/LocusInfo.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/PolymorphismSequenceContainerTools.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/PolymorphismMultiGContainer.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/MultiAlleleMonolocusGenotype.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/GeneralExceptions.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/MonolocusGenotypeTools.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/AlleleInfo.h +-- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/include/Bpp/PopGen/BasicAlleleInfo.h -- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/bpp-popgen/bpp-popgen-targets.cmake -- Installing: /build/reproducible-path/libbpp-popgen-2.4.1/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/bpp-popgen/bpp-popgen-targets-none.cmake make[1]: Leaving directory '/build/reproducible-path/libbpp-popgen-2.4.1/obj-x86_64-linux-gnu' @@ -1246,12 +1282,14 @@ 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/35419/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/35419/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/3142553 and its subdirectories -I: Current time: Fri Oct 2 15:06:37 -12 2026 -I: pbuilder-time-stamp: 1790996797 +I: removing directory /srv/workspace/pbuilder/35419 and its subdirectories +I: Current time: Sun Aug 31 10:45:21 +14 2025 +I: pbuilder-time-stamp: 1756586722