Diff of the two buildlogs: -- --- b1/build.log 2024-05-12 05:11:46.528401553 +0000 +++ b2/build.log 2024-05-12 05:17:17.778292002 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Sat May 11 17:05:21 -12 2024 -I: pbuilder-time-stamp: 1715490321 +I: Current time: Sun May 12 19:12:01 +14 2024 +I: pbuilder-time-stamp: 1715490721 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -31,52 +31,84 @@ dpkg-source: info: applying no_pp-popcon.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/12093/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/27251/tmp/hooks/D01_modify_environment starting +debug: Running on ff64a. +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 May 12 05:12 /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/27251/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/27251/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='armhf' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=3 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='armhf' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="21" [3]="1" [4]="release" [5]="arm-unknown-linux-gnueabihf") + BASH_VERSION='5.2.21(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=armhf + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=6 ' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=arm + HOST_ARCH=armhf IFS=' ' - INVOCATION_ID='97fc5738d7644881b146595e38f92ff4' - 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='12093' - PS1='# ' - PS2='> ' + INVOCATION_ID=45801c8ba5074bdaa9500aaad8ef9498 + LANG=C + LANGUAGE=it_CH:it + LC_ALL=C + MACHTYPE=arm-unknown-linux-gnueabihf + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnueabihf + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=27251 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.Q6SqYi0Q/pbuilderrc_cZiG --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.Q6SqYi0Q/b1 --logfile b1/build.log proftmb_1.1.12-11.dsc' - SUDO_GID='116' - SUDO_UID='112' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://10.0.0.15:3142/' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.Q6SqYi0Q/pbuilderrc_i5Jy --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.Q6SqYi0Q/b2 --logfile b2/build.log proftmb_1.1.12-11.dsc' + SUDO_GID=114 + SUDO_UID=109 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://10.0.0.15:3142/ I: uname -a - Linux cbxi4b 6.1.0-21-armmp #1 SMP Debian 6.1.90-1 (2024-05-03) armv7l GNU/Linux + Linux i-capture-the-hostname 6.1.0-21-arm64 #1 SMP Debian 6.1.90-1 (2024-05-03) aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 May 11 11:28 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/12093/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 May 9 11:26 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/27251/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -156,7 +188,7 @@ Get: 34 http://deb.debian.org/debian trixie/main armhf libgsl27 armhf 2.7.1+dfsg-6+b1 [767 kB] Get: 35 http://deb.debian.org/debian trixie/main armhf libgsl-dev armhf 2.7.1+dfsg-6+b1 [975 kB] Get: 36 http://deb.debian.org/debian trixie/main armhf opt armhf 3.19-3+b1 [65.8 kB] -Fetched 20.5 MB in 2s (11.4 MB/s) +Fetched 20.5 MB in 1s (17.4 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package liblocale-gettext-perl. (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 ... 19446 files and directories currently installed.) @@ -315,7 +347,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/proftmb-1.1.12/ && 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 > ../proftmb_1.1.12-11_source.changes +I: user script /srv/workspace/pbuilder/27251/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/27251/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/proftmb-1.1.12/ && 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 > ../proftmb_1.1.12-11_source.changes dpkg-buildpackage: info: source package proftmb dpkg-buildpackage: info: source version 1.1.12-11 dpkg-buildpackage: info: source distribution unstable @@ -387,7 +423,7 @@ config.status: creating config.h config.status: executing depfiles commands dh_auto_build - make -j3 + make -j6 make[1]: Entering directory '/build/reproducible-path/proftmb-1.1.12' make all-recursive make[2]: Entering directory '/build/reproducible-path/proftmb-1.1.12' @@ -400,6 +436,13 @@ g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o proftmb.o proftmb.cpp g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Backward.o Backward.cpp g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o BaumWelch.o BaumWelch.cpp +g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Eval.o Eval.cpp +g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o ExpectA.o ExpectA.cpp +g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o ExpectC.o ExpectC.cpp +Eval.cpp: In function 'std::pair CalcAccCovFromZ(double&)': +Eval.cpp:573:52: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 + 573 | pair CalcAccCovFromZ(double& zscore){ + | ^ In file included from proftmb.cpp:18: HMMOutput.h:21:46: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 21 | void DisplayArch(ostream&,Par&,uint,char* =""); @@ -407,6 +450,7 @@ HMMOutput.h:24:44: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 24 | void PrintEmit(ostream&,Par&,uint,char* =""); | ^ +g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Forward.o Forward.cpp In file included from /usr/include/c++/13/vector:72, from structs.h:5, from Par.h:4, @@ -419,15 +463,20 @@ /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Eval.o Eval.cpp -g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o ExpectA.o ExpectA.cpp -Eval.cpp: In function 'std::pair CalcAccCovFromZ(double&)': -Eval.cpp:573:52: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 - 573 | pair CalcAccCovFromZ(double& zscore){ - | ^ -g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o ExpectC.o ExpectC.cpp -g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Forward.o Forward.cpp g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o GradientDescent.o GradientDescent.cpp +g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o HMMEval.o HMMEval.cpp +g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o HMMOutput.o HMMOutput.cpp +GradientDescent.cpp: In member function 'std::pair Par::Update(std::vector&, std::set >&)': +GradientDescent.cpp:329:77: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 + 329 | pair Par::Update(vector& tsq, set& exclude){ + | ^ +In file included from HMMOutput.cpp:1: +HMMOutput.h:21:46: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] + 21 | void DisplayArch(ostream&,Par&,uint,char* =""); + | ^ +HMMOutput.h:24:44: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] + 24 | void PrintEmit(ostream&,Par&,uint,char* =""); + | ^ In file included from /usr/include/c++/13/vector:72, from structs.h:5, from Eval.h:4, @@ -438,6 +487,10 @@ | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]': /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 +HMMOutput.cpp: In function 'void PrintRdb(std::ostream&, Seq&, bool, bool)': +HMMOutput.cpp:58:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 + 58 | pair ac = CalcAccCovFromZ(S.scl.Score); + | ^ In file included from /usr/include/c++/13/vector:66: In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]', inlined from 'std::vector, std::vector > > AccCov(std::vector&, std::string&, bool)' at Eval.cpp:543:29: @@ -461,6 +514,8 @@ /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o HTools.o HTools.cpp +g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Krogh1Best.o Krogh1Best.cpp In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]', inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:1299:21, inlined from 'void DecodeStats(std::vector&, std::vector&, std::vector > >&, measure&, unsigned int, bool)' at Eval.cpp:214:16: @@ -497,33 +552,27 @@ /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -GradientDescent.cpp: In member function 'std::pair Par::Update(std::vector&, std::set >&)': -GradientDescent.cpp:329:77: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 - 329 | pair Par::Update(vector& tsq, set& exclude){ - | ^ +g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Load.o Load.cpp In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]', inlined from 'std::map, std::vector > > ScoCov(std::vector&)' at Eval.cpp:488:30: /usr/include/c++/13/bits/stl_vector.h:1292:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1292 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ -g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o HMMEval.o HMMEval.cpp -g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o HMMOutput.o HMMOutput.cpp -g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o HTools.o HTools.cpp -In file included from HMMOutput.cpp:1: -HMMOutput.h:21:46: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] - 21 | void DisplayArch(ostream&,Par&,uint,char* =""); - | ^ -HMMOutput.h:24:44: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] - 24 | void PrintEmit(ostream&,Par&,uint,char* =""); - | ^ -HMMOutput.cpp: In function 'void PrintRdb(std::ostream&, Seq&, bool, bool)': -HMMOutput.cpp:58:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 - 58 | pair ac = CalcAccCovFromZ(S.scl.Score); - | ^ -g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Krogh1Best.o Krogh1Best.cpp -g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Load.o Load.cpp g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Output.o Output.cpp g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Par.o Par.cpp +g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Params.o Params.cpp +g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Posterior.o Posterior.cpp +In file included from /usr/include/c++/13/bits/stl_algobase.h:64, + from /usr/include/c++/13/string:51, + from structs.h:4, + from Par.h:4, + from Par.cpp:1: +/usr/include/c++/13/bits/stl_pair.h: In instantiation of 'constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = float&; _T2 = float&; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp>::type = float; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp2>::type = float]': +Par.cpp:250:22: required from here +/usr/include/c++/13/bits/stl_pair.h:922:5: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 + 922 | make_pair(_T1&& __x, _T2&& __y) + | ^~~~~~~~~ +g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Regularization.o Regularization.cpp In file included from /usr/include/c++/13/vector:72, from structs.h:5, from TrainSeq.h:4, @@ -539,34 +588,26 @@ /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from Params.cpp:2: +Serialize.h: In function 'void StoreVector(std::ofstream&, std::vector&, T, M1, M2) [with T = std::pair; M1 = double; M2 = double]': +Serialize.h:28:6: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 + 28 | void StoreVector(ofstream& of, vector& D, T dummy1, M1 dummy2, M2 dummy3){ + | ^~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {TrainSeq}; _Tp = TrainSeq; _Alloc = std::allocator]': /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ +g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Seq.o Seq.cpp In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {TrainSeq}; _Tp = TrainSeq; _Alloc = std::allocator]', inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = TrainSeq; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:1299:21, inlined from 'std::vector LoadTrainSeqs(char*, char*)' at Load.cpp:56:17: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/c++/13/bits/stl_algobase.h:64, - from /usr/include/c++/13/string:51, - from structs.h:4, - from Par.h:4, - from Par.cpp:1: -/usr/include/c++/13/bits/stl_pair.h: In instantiation of 'constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = float&; _T2 = float&; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp>::type = float; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp2>::type = float]': -Par.cpp:250:22: required from here -/usr/include/c++/13/bits/stl_pair.h:922:5: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 - 922 | make_pair(_T1&& __x, _T2&& __y) - | ^~~~~~~~~ -g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Params.o Params.cpp -g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Posterior.o Posterior.cpp -In file included from Params.cpp:2: -Serialize.h: In function 'void StoreVector(std::ofstream&, std::vector&, T, M1, M2) [with T = std::pair; M1 = double; M2 = double]': -Serialize.h:28:6: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 - 28 | void StoreVector(ofstream& of, vector& D, T dummy1, M1 dummy2, M2 dummy3){ - | ^~~~~~~~~~~ -g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Regularization.o Regularization.cpp +g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Sov.o Sov.cpp +g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o structs.o structs.cpp +g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Tally.o Tally.cpp +g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Tools.o Tools.cpp In file included from /usr/include/c++/13/vector:72, from structs.h:5: /usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]': @@ -589,7 +630,16 @@ /usr/include/c++/13/bits/stl_vector.h:1292:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1292 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ -g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Seq.o Seq.cpp +g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o TrainSeq.o TrainSeq.cpp +g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Viterbi.o Viterbi.cpp +In file included from /usr/include/c++/13/vector:72, + from structs.h:5, + from Par.h:4, + from Params.cpp:1: +/usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]': +/usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 + 445 | vector<_Tp, _Alloc>:: + | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]': /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type 'std::vector >::iterator' changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: @@ -600,6 +650,12 @@ /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/c++/13/vector:66: +In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]', + inlined from 'void ReadVector(std::ifstream&, std::vector&, T) [with T = double]' at Serialize.h:97:15: +/usr/include/c++/13/bits/stl_vector.h:1292:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 + 1292 | _M_realloc_insert(end(), __x); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]', inlined from 'void ReadVector(std::ifstream&, std::vector&, T) [with T = double]' at Serialize.h:97:15, inlined from 'static void Par::InitDirichlet(char*)' at Par.cpp:193:12: @@ -612,30 +668,32 @@ /usr/include/c++/13/bits/stl_vector.h:1292:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1292 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ -In file included from /usr/include/c++/13/vector:72, - from structs.h:5, - from Par.h:4, - from Params.cpp:1: -/usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]': -/usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 +/usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {archpair}; _Tp = archpair; _Alloc = std::allocator]': +/usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/c++/13/vector:66: -In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]', - inlined from 'void ReadVector(std::ifstream&, std::vector&, T) [with T = double]' at Serialize.h:97:15: -/usr/include/c++/13/bits/stl_vector.h:1292:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 - 1292 | _M_realloc_insert(end(), __x); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ +In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {archpair}; _Tp = archpair; _Alloc = std::allocator]', + inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = archpair; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:1299:21, + inlined from 'void Read2DVector(std::ifstream&, std::vector >&, T, M1, M2) [with T = archpair; M1 = unsigned int; M2 = double]' at Serialize.h:177:21: +/usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 + 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); + | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/c++/13/vector:72, + from structs.h:5, + from TrainSeq.h:4, + from Tally.cpp:1: /usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {archpair}; _Tp = archpair; _Alloc = std::allocator]': /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {archpair}; _Tp = archpair; _Alloc = std::allocator]', inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = archpair; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:1299:21, - inlined from 'void Read2DVector(std::ifstream&, std::vector >&, T, M1, M2) [with T = archpair; M1 = unsigned int; M2 = double]' at Serialize.h:177:21: + inlined from 'void Par::InitArch(double)' at Tally.cpp:46:30: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Zscore.o Zscore.cpp +sed -e 's|__pkgdatadir__|/usr/share/proftmb|g;s|__datadir__|/usr/share|g;s|__PACKAGE__|proftmb|g;' < proftmb_example.txt.raw > proftmb_example.txt In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]', inlined from 'void Read2DVector(std::ifstream&, std::vector >&, T) [with T = double]' at Serialize.h:205:21, inlined from 'void Par::Read(char*)' at Params.cpp:51:14: @@ -652,28 +710,6 @@ /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Sov.o Sov.cpp -g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o structs.o structs.cpp -g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Tally.o Tally.cpp -g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Tools.o Tools.cpp -g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o TrainSeq.o TrainSeq.cpp -g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Viterbi.o Viterbi.cpp -In file included from /usr/include/c++/13/vector:72, - from structs.h:5, - from TrainSeq.h:4, - from Tally.cpp:1: -/usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {archpair}; _Tp = archpair; _Alloc = std::allocator]': -/usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 - 445 | vector<_Tp, _Alloc>:: - | ^~~~~~~~~~~~~~~~~~~ -In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {archpair}; _Tp = archpair; _Alloc = std::allocator]', - inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = archpair; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:1299:21, - inlined from 'void Par::InitArch(double)' at Tally.cpp:46:30: -/usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 - 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); - | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -DHAVE_CONFIG_H -I. -I.. -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/proftmb-1.1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -c -o Zscore.o Zscore.cpp -sed -e 's|__pkgdatadir__|/usr/share/proftmb|g;s|__datadir__|/usr/share|g;s|__PACKAGE__|proftmb|g;' < proftmb_example.txt.raw > proftmb_example.txt In file included from /usr/include/c++/13/bits/stl_algobase.h:64, from /usr/include/c++/13/vector:62, from Zscore.h:1, @@ -761,7 +797,7 @@ make[2]: Leaving directory '/build/reproducible-path/proftmb-1.1.12' make[1]: Leaving directory '/build/reproducible-path/proftmb-1.1.12' dh_auto_test - make -j3 check "TESTSUITEFLAGS=-j3 --verbose" VERBOSE=1 + make -j6 check "TESTSUITEFLAGS=-j6 --verbose" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/proftmb-1.1.12' Making check in examples make[2]: Entering directory '/build/reproducible-path/proftmb-1.1.12/examples' @@ -777,7 +813,7 @@ create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/proftmb/ - make -j3 install DESTDIR=/build/reproducible-path/proftmb-1.1.12/debian/proftmb AM_UPDATE_INFO_DIR=no + make -j6 install DESTDIR=/build/reproducible-path/proftmb-1.1.12/debian/proftmb AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/build/reproducible-path/proftmb-1.1.12' Making install in examples make[2]: Entering directory '/build/reproducible-path/proftmb-1.1.12/examples' @@ -802,8 +838,8 @@ mkdir -p "/build/reproducible-path/proftmb-1.1.12/debian/proftmb/usr/share/proftmb" /usr/bin/mkdir -p '/build/reproducible-path/proftmb-1.1.12/debian/proftmb/usr/share/doc/proftmb' cp "."/input/* "/build/reproducible-path/proftmb-1.1.12/debian/proftmb/usr/share/proftmb/" - /usr/bin/install -c -m 644 README '/build/reproducible-path/proftmb-1.1.12/debian/proftmb/usr/share/doc/proftmb' rm -rf `find "/build/reproducible-path/proftmb-1.1.12/debian/proftmb/usr/share/proftmb" -name .svn` + /usr/bin/install -c -m 644 README '/build/reproducible-path/proftmb-1.1.12/debian/proftmb/usr/share/doc/proftmb' find "/build/reproducible-path/proftmb-1.1.12/debian/proftmb/usr/share/proftmb" -type d -exec chmod 0755 {} \; find "/build/reproducible-path/proftmb-1.1.12/debian/proftmb/usr/share/proftmb" -type f -exec chmod 0644 {} \; make install-data-hook @@ -834,8 +870,8 @@ dh_gencontrol dh_md5sums dh_builddeb -dpkg-deb: building package 'proftmb-dbgsym' in '../proftmb-dbgsym_1.1.12-11_armhf.deb'. dpkg-deb: building package 'proftmb' in '../proftmb_1.1.12-11_armhf.deb'. +dpkg-deb: building package 'proftmb-dbgsym' in '../proftmb-dbgsym_1.1.12-11_armhf.deb'. dpkg-genbuildinfo --build=binary -O../proftmb_1.1.12-11_armhf.buildinfo dpkg-genchanges --build=binary -O../proftmb_1.1.12-11_armhf.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -843,12 +879,14 @@ 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/27251/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/27251/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/12093 and its subdirectories -I: Current time: Sat May 11 17:11:41 -12 2024 -I: pbuilder-time-stamp: 1715490701 +I: removing directory /srv/workspace/pbuilder/27251 and its subdirectories +I: Current time: Sun May 12 19:17:13 +14 2024 +I: pbuilder-time-stamp: 1715491033