Diff of the two buildlogs: -- --- b1/build.log 2025-01-25 20:05:09.498511140 +0000 +++ b2/build.log 2025-01-25 20:12:55.049491931 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Fri Feb 27 14:23:50 -12 2026 -I: pbuilder-time-stamp: 1772245430 +I: Current time: Sun Jan 26 10:05:18 +14 2025 +I: pbuilder-time-stamp: 1737835518 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -29,52 +29,84 @@ dpkg-source: info: applying spelling I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/415517/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/2087452/tmp/hooks/D01_modify_environment starting +debug: Running on codethink04-arm64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Jan 25 20:05 /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/2087452/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/2087452/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='arm64' - DEBIAN_FRONTEND='noninteractive' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="37" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.2.37(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=arm64 + DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='6fa1f6bca1bd44cc8a1fe27960be699c' - 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='415517' - PS1='# ' - PS2='> ' + INVOCATION_ID=ccdae901164e461baffe9b231ff15a1b + LANG=C + LANGUAGE=nl_BE:nl + LC_ALL=C + MACHTYPE=aarch64-unknown-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=2087452 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.2VKMv14T/pbuilderrc_af9c --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.2VKMv14T/b1 --logfile b1/build.log hmmer_3.4+dfsg-2.dsc' - SUDO_GID='109' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://192.168.101.4:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.2VKMv14T/pbuilderrc_GziH --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.2VKMv14T/b2 --logfile b2/build.log hmmer_3.4+dfsg-2.dsc' + SUDO_GID=109 + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://192.168.101.4:3128 I: uname -a - Linux codethink03-arm64 6.1.0-30-cloud-arm64 #1 SMP Debian 6.1.124-1 (2025-01-12) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-30-cloud-arm64 #1 SMP Debian 6.1.124-1 (2025-01-12) aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/415517/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/2087452/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -169,7 +201,7 @@ Get: 53 http://deb.debian.org/debian trixie/main arm64 debhelper all 13.23 [919 kB] Get: 54 http://deb.debian.org/debian trixie/main arm64 libdivsufsort3 arm64 2.0.1-6+b1 [39.9 kB] Get: 55 http://deb.debian.org/debian trixie/main arm64 libdivsufsort-dev arm64 2.0.1-6+b1 [19.1 kB] -Fetched 26.7 MB in 0s (205 MB/s) +Fetched 26.7 MB in 0s (116 MB/s) Preconfiguring packages ... Selecting previously unselected package libpython3.12-minimal:arm64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19970 files and directories currently installed.) @@ -368,8 +400,8 @@ Setting up tzdata (2024b-6) ... Current default time zone: 'Etc/UTC' -Local time is now: Sat Feb 28 02:24:07 UTC 2026. -Universal Time is now: Sat Feb 28 02:24:07 UTC 2026. +Local time is now: Sat Jan 25 20:05:51 UTC 2025. +Universal Time is now: Sat Jan 25 20:05:51 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20220109.1) ... @@ -418,7 +450,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/hmmer-3.4+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../hmmer_3.4+dfsg-2_source.changes +I: user script /srv/workspace/pbuilder/2087452/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/2087452/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/hmmer-3.4+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../hmmer_3.4+dfsg-2_source.changes dpkg-buildpackage: info: source package hmmer dpkg-buildpackage: info: source version 3.4+dfsg-2 dpkg-buildpackage: info: source distribution unstable @@ -880,7 +916,6 @@ gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_neon -L. -o jackhmmer jackhmmer.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_neon -L. -o phmmer phmmer.o -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_neon -L. -o nhmmer nhmmer.o -lhmmer -leasel -ldivsufsort -lpthread -lm -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_neon -L. -o nhmmscan nhmmscan.o -lhmmer -leasel -ldivsufsort -lpthread -lm ../easel/esl_scorematrix.c: In function 'esl_scorematrix_Create': ../easel/esl_scorematrix.c:71:3: warning: argument 1 range [18446744071562067969, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 71 | ESL_ALLOC(S->outorder, sizeof(char) * (abc->Kp+1)); @@ -888,6 +923,7 @@ /usr/include/stdlib.h:672:14: note: in a call to allocation function 'malloc' declared here 672 | extern void *malloc (size_t __size) __THROW __attribute_malloc__ | ^ +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -L../easel -L./impl_neon -L. -o nhmmscan nhmmscan.o -lhmmer -leasel -ldivsufsort -lpthread -lm ../easel/esl_scorematrix.c: In function 'esl_scorematrix_Create': ../easel/esl_scorematrix.c:71:3: warning: argument 1 range [18446744071562067969, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 71 | ESL_ALLOC(S->outorder, sizeof(char) * (abc->Kp+1)); @@ -921,18 +957,18 @@ make[2]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg' make -C easel tests make[3]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/easel' +gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o easel_utest -I. -I. -L. -DeslEASEL_TESTDRIVE ./easel.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_alloc_utest -I. -I. -L. -DeslALLOC_TESTDRIVE ./esl_alloc.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_alphabet_utest -I. -I. -L. -DeslALPHABET_TESTDRIVE ./esl_alphabet.c -leasel -lm -lpthread -gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_cluster_utest -I. -I. -L. -DeslCLUSTER_TESTDRIVE ./esl_cluster.c -leasel -lm -lpthread -gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o easel_utest -I. -I. -L. -DeslEASEL_TESTDRIVE ./easel.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_bitfield_utest -I. -I. -L. -DeslBITFIELD_TESTDRIVE ./esl_bitfield.c -leasel -lm -lpthread -gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_cpu_utest -I. -I. -L. -DeslCPU_TESTDRIVE ./esl_cpu.c -leasel -lm -lpthread -gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_dirichlet_utest -I. -I. -L. -DeslDIRICHLET_TESTDRIVE ./esl_dirichlet.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_dsqdata_utest -I. -I. -L. -DeslDSQDATA_TESTDRIVE ./esl_dsqdata.c -leasel -lm -lpthread -gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_exponential_utest -I. -I. -L. -DeslEXPONENTIAL_TESTDRIVE ./esl_exponential.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_buffer_utest -I. -I. -L. -DeslBUFFER_TESTDRIVE ./esl_buffer.c -leasel -lm -lpthread +gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_cpu_utest -I. -I. -L. -DeslCPU_TESTDRIVE ./esl_cpu.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_dmatrix_utest -I. -I. -L. -DeslDMATRIX_TESTDRIVE ./esl_dmatrix.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_distance_utest -I. -I. -L. -DeslDISTANCE_TESTDRIVE ./esl_distance.c -leasel -lm -lpthread +gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_exponential_utest -I. -I. -L. -DeslEXPONENTIAL_TESTDRIVE ./esl_exponential.c -leasel -lm -lpthread +gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_cluster_utest -I. -I. -L. -DeslCLUSTER_TESTDRIVE ./esl_cluster.c -leasel -lm -lpthread +gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_dirichlet_utest -I. -I. -L. -DeslDIRICHLET_TESTDRIVE ./esl_dirichlet.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_fileparser_utest -I. -I. -L. -DeslFILEPARSER_TESTDRIVE ./esl_fileparser.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_gamma_utest -I. -I. -L. -DeslGAMMA_TESTDRIVE ./esl_gamma.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_gencode_utest -I. -I. -L. -DeslGENCODE_TESTDRIVE ./esl_gencode.c -leasel -lm -lpthread @@ -945,8 +981,8 @@ gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_huffman_utest -I. -I. -L. -DeslHUFFMAN_TESTDRIVE ./esl_huffman.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_hyperexp_utest -I. -I. -L. -DeslHYPEREXP_TESTDRIVE ./esl_hyperexp.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_iset_utest -I. -I. -L. -DeslISET_TESTDRIVE ./esl_iset.c -leasel -lm -lpthread -gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_keyhash_utest -I. -I. -L. -DeslKEYHASH_TESTDRIVE ./esl_keyhash.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_json_utest -I. -I. -L. -DeslJSON_TESTDRIVE ./esl_json.c -leasel -lm -lpthread +gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_keyhash_utest -I. -I. -L. -DeslKEYHASH_TESTDRIVE ./esl_keyhash.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_lognormal_utest -I. -I. -L. -DeslLOGNORMAL_TESTDRIVE ./esl_lognormal.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_matrixops_utest -I. -I. -L. -DeslMATRIXOPS_TESTDRIVE ./esl_matrixops.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_mem_utest -I. -I. -L. -DeslMEM_TESTDRIVE ./esl_mem.c -leasel -lm -lpthread @@ -978,6 +1014,8 @@ gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_sq_utest -I. -I. -L. -DeslSQ_TESTDRIVE ./esl_sq.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_sqio_utest -I. -I. -L. -DeslSQIO_TESTDRIVE ./esl_sqio.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_ssi_utest -I. -I. -L. -DeslSSI_TESTDRIVE ./esl_ssi.c -leasel -lm -lpthread +gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_stack_utest -I. -I. -L. -DeslSTACK_TESTDRIVE ./esl_stack.c -leasel -lm -lpthread +gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_stats_utest -I. -I. -L. -DeslSTATS_TESTDRIVE ./esl_stats.c -leasel -lm -lpthread ./esl_scorematrix.c: In function 'esl_scorematrix_Create': ./esl_scorematrix.c:71:3: warning: argument 1 range [18446744071562067969, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 71 | ESL_ALLOC(S->outorder, sizeof(char) * (abc->Kp+1)); @@ -985,8 +1023,6 @@ /usr/include/stdlib.h:672:14: note: in a call to allocation function 'malloc' declared here 672 | extern void *malloc (size_t __size) __THROW __attribute_malloc__ | ^ -gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_stack_utest -I. -I. -L. -DeslSTACK_TESTDRIVE ./esl_stack.c -leasel -lm -lpthread -gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_stats_utest -I. -I. -L. -DeslSTATS_TESTDRIVE ./esl_stats.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_stretchexp_utest -I. -I. -L. -DeslSTRETCHEXP_TESTDRIVE ./esl_stretchexp.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_tree_utest -I. -I. -L. -DeslTREE_TESTDRIVE ./esl_tree.c -leasel -lm -lpthread gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -Wl,-z,relro -Wl,-z,now -flto -o esl_varint_utest -I. -I. -L. -DeslVARINT_TESTDRIVE ./esl_varint.c -leasel -lm -lpthread @@ -1006,32 +1042,32 @@ make -C src tests make[3]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/src' make -C impl_neon libhmmer-impl.stamp -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o itest_brute.o -c itest_brute.c make[4]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/src/impl_neon' make[4]: 'libhmmer-impl.stamp' is up to date. make[4]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/src/impl_neon' -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7GENERIC_FWDBACK_TESTDRIVE -o generic_fwdback_utest ./generic_fwdback.c -lhmmer -leasel -ldivsufsort -lpthread -lm +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -DHAVE_CONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -I../easel -I../easel -I. -I. -o itest_brute.o -c itest_brute.c gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7BUILD_TESTDRIVE -o build_utest ./build.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7GENERIC_FWDBACK_CHK_TESTDRIVE -o generic_fwdback_chk_utest ./generic_fwdback_chk.c -lhmmer -leasel -ldivsufsort -lpthread -lm +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7GENERIC_FWDBACK_TESTDRIVE -o generic_fwdback_utest ./generic_fwdback.c -lhmmer -leasel -ldivsufsort -lpthread -lm +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7GENERIC_MSV_TESTDRIVE -o generic_msv_utest ./generic_msv.c -lhmmer -leasel -ldivsufsort -lpthread -lm +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7GENERIC_VITERBI_TESTDRIVE -o generic_viterbi_utest ./generic_viterbi.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7GENERIC_STOTRACE_TESTDRIVE -o generic_stotrace_utest ./generic_stotrace.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7HMMER_TESTDRIVE -o hmmer_utest ./hmmer.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7LOGSUM_TESTDRIVE -o logsum_utest ./logsum.c -lhmmer -leasel -ldivsufsort -lpthread -lm -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7GENERIC_VITERBI_TESTDRIVE -o generic_viterbi_utest ./generic_viterbi.c -lhmmer -leasel -ldivsufsort -lpthread -lm -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7GENERIC_MSV_TESTDRIVE -o generic_msv_utest ./generic_msv.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7MODELCONFIG_TESTDRIVE -o modelconfig_utest ./modelconfig.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7SEQMODEL_TESTDRIVE -o seqmodel_utest ./seqmodel.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7ALIDISPLAY_TESTDRIVE -o p7_alidisplay_utest ./p7_alidisplay.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7BG_TESTDRIVE -o p7_bg_utest ./p7_bg.c -lhmmer -leasel -ldivsufsort -lpthread -lm -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7GMX_TESTDRIVE -o p7_gmx_utest ./p7_gmx.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7DOMAIN_TESTDRIVE -o p7_domain_utest ./p7_domain.c -lhmmer -leasel -ldivsufsort -lpthread -lm +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7GMX_TESTDRIVE -o p7_gmx_utest ./p7_gmx.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7GMXCHK_TESTDRIVE -o p7_gmxchk_utest ./p7_gmxchk.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7HIT_TESTDRIVE -o p7_hit_utest ./p7_hit.c -lhmmer -leasel -ldivsufsort -lpthread -lm -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7HMM_TESTDRIVE -o p7_hmm_utest ./p7_hmm.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7HMMD_SEARCH_STATS_TESTDRIVE -o p7_hmmd_search_stats_utest ./p7_hmmd_search_stats.c -lhmmer -leasel -ldivsufsort -lpthread -lm +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7HMM_TESTDRIVE -o p7_hmm_utest ./p7_hmm.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7HMMFILE_TESTDRIVE -o p7_hmmfile_utest ./p7_hmmfile.c -lhmmer -leasel -ldivsufsort -lpthread -lm -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7TOPHITS_TESTDRIVE -o p7_tophits_utest ./p7_tophits.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7PROFILE_TESTDRIVE -o p7_profile_utest ./p7_profile.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7TRACE_TESTDRIVE -o p7_trace_utest ./p7_trace.c -lhmmer -leasel -ldivsufsort -lpthread -lm +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7TOPHITS_TESTDRIVE -o p7_tophits_utest ./p7_tophits.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7SCOREDATA_TESTDRIVE -o p7_scoredata_utest ./p7_scoredata.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7HMMPGMD2MSA_TESTDRIVE -o hmmpgmd2msa_utest ./hmmpgmd2msa.c -lhmmer -leasel -ldivsufsort -lpthread -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../easel -L./impl_neon -L. -I../easel -I../easel -I. -I. -Dp7HMMD_SEARCH_STATUS_TESTDRIVE -o hmmd_search_status_utest ./hmmd_search_status.c -lhmmer -leasel -ldivsufsort -lpthread -lm @@ -1040,10 +1076,10 @@ make[4]: Entering directory '/build/reproducible-path/hmmer-3.4+dfsg/src/impl_neon' gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../../easel -L.. -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -Dp7DECODING_TESTDRIVE -o decoding_utest ./decoding.c -lhmmer -leasel -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../../easel -L.. -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -Dp7FWDBACK_TESTDRIVE -o fwdback_utest ./fwdback.c -lhmmer -leasel -lm -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../../easel -L.. -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -Dp7NULL2_TESTDRIVE -o null2_utest ./null2.c -lhmmer -leasel -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../../easel -L.. -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -Dp7IO_TESTDRIVE -o io_utest ./io.c -lhmmer -leasel -lm -gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../../easel -L.. -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -Dp7OPTACC_TESTDRIVE -o optacc_utest ./optacc.c -lhmmer -leasel -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../../easel -L.. -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -Dp7MSVFILTER_TESTDRIVE -o msvfilter_utest ./msvfilter.c -lhmmer -leasel -lm +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../../easel -L.. -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -Dp7NULL2_TESTDRIVE -o null2_utest ./null2.c -lhmmer -leasel -lm +gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../../easel -L.. -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -Dp7OPTACC_TESTDRIVE -o optacc_utest ./optacc.c -lhmmer -leasel -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../../easel -L.. -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -Dp7STOTRACE_TESTDRIVE -o stotrace_utest ./stotrace.c -lhmmer -leasel -lm gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/hmmer-3.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -flto -pthread -mlittle-endian -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -flto -DHAVE_CONFIG_H -L../../easel -L.. -I../../easel -I../../easel -I. -I.. -I. -I../../src -I./.. -Dp7VITFILTER_TESTDRIVE -o vitfilter_utest ./vitfilter.c -lhmmer -leasel -lm make[4]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/src/impl_neon' @@ -1151,8 +1187,8 @@ System information: -Fri Feb 27 14:26:41 -12 2026 -Linux codethink03-arm64 6.1.0-30-cloud-arm64 #1 SMP Debian 6.1.124-1 (2025-01-12) aarch64 GNU/Linux +Sun Jan 26 10:10:51 +14 2025 +Linux i-capture-the-hostname 6.1.0-30-cloud-arm64 #1 SMP Debian 6.1.124-1 (2025-01-12) aarch64 GNU/Linux make[4]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/easel/testsuite' make[3]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/easel' make -C testsuite check @@ -1472,8 +1508,8 @@ System information: -Fri Feb 27 14:27:01 -12 2026 -Linux codethink03-arm64 6.1.0-30-cloud-arm64 #1 SMP Debian 6.1.124-1 (2025-01-12) aarch64 GNU/Linux +Sun Jan 26 10:11:34 +14 2025 +Linux i-capture-the-hostname 6.1.0-30-cloud-arm64 #1 SMP Debian 6.1.124-1 (2025-01-12) aarch64 GNU/Linux make[3]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg/testsuite' make[2]: Leaving directory '/build/reproducible-path/hmmer-3.4+dfsg' if tail -n 6 debian/test_log | head -n 1 | grep -q FAILED ; then false ; fi @@ -1557,9 +1593,9 @@ dh_gencontrol dh_md5sums dh_builddeb -dpkg-deb: building package 'hmmer' in '../hmmer_3.4+dfsg-2_arm64.deb'. -dpkg-deb: building package 'hmmer-dbgsym' in '../hmmer-dbgsym_3.4+dfsg-2_arm64.deb'. dpkg-deb: building package 'hmmer-doc' in '../hmmer-doc_3.4+dfsg-2_all.deb'. +dpkg-deb: building package 'hmmer-dbgsym' in '../hmmer-dbgsym_3.4+dfsg-2_arm64.deb'. +dpkg-deb: building package 'hmmer' in '../hmmer_3.4+dfsg-2_arm64.deb'. dpkg-deb: building package 'hmmer-examples' in '../hmmer-examples_3.4+dfsg-2_arm64.deb'. dpkg-genbuildinfo --build=binary -O../hmmer_3.4+dfsg-2_arm64.buildinfo dpkg-genchanges --build=binary -O../hmmer_3.4+dfsg-2_arm64.changes @@ -1569,12 +1605,14 @@ 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/2087452/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/2087452/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/415517 and its subdirectories -I: Current time: Fri Feb 27 14:28:07 -12 2026 -I: pbuilder-time-stamp: 1772245687 +I: removing directory /srv/workspace/pbuilder/2087452 and its subdirectories +I: Current time: Sun Jan 26 10:12:54 +14 2025 +I: pbuilder-time-stamp: 1737835974