Diff of the two buildlogs: -- --- b1/build.log 2023-04-28 12:26:57.239460006 +0000 +++ b2/build.log 2023-04-28 12:28:10.564213604 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Fri Apr 28 00:25:48 -12 2023 -I: pbuilder-time-stamp: 1682684748 +I: Current time: Fri May 31 08:50:00 +14 2024 +I: pbuilder-time-stamp: 1717095000 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-reproducible-base.tgz] I: copying local configuration @@ -16,7 +16,7 @@ I: copying [./kalign_3.3.5.orig.tar.gz] I: copying [./kalign_3.3.5-1.debian.tar.xz] I: Extracting source -gpgv: Signature made Sun Feb 5 18:45:57 2023 -12 +gpgv: Signature made Mon Feb 6 20:45:57 2023 +14 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key @@ -28,52 +28,84 @@ dpkg-source: info: applying pass-proper-flags.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/10190/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/27946/tmp/hooks/D01_modify_environment starting +debug: Running on codethink9-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 May 31 08:50 /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/27946/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/27946/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build' - 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]="15" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.2.15(1)-release' + BUILDDIR=/build + 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=8' - DISTRIBUTION='bookworm' - HOME='/var/lib/jenkins' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=bookworm + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/var/lib/jenkins + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - 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='10190' - PS1='# ' - PS2='> ' + 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=27946 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.NIWpP6so/pbuilderrc_QenP --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.NIWpP6so/b1 --logfile b1/build.log kalign_3.3.5-1.dsc' - SUDO_GID='117' - SUDO_UID='110' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - USERNAME='root' - _='/usr/bin/systemd-run' - http_proxy='http://192.168.101.16:3128' + 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.NIWpP6so/pbuilderrc_WOnW --distribution bookworm --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.NIWpP6so/b2 --logfile b2/build.log --extrapackages usrmerge kalign_3.3.5-1.dsc' + SUDO_GID=117 + SUDO_UID=110 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + USERNAME=root + _='I: set' + http_proxy=http://192.168.101.16:3128 I: uname -a - Linux codethink12-arm64 4.15.0-210-generic #221-Ubuntu SMP Tue Apr 18 08:32:48 UTC 2023 aarch64 GNU/Linux + Linux i-capture-the-hostname 4.15.0-210-generic #221-Ubuntu SMP Tue Apr 18 08:32:48 UTC 2023 aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Apr 26 22:25 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/10190/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Apr 28 2023 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/27946/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -162,7 +194,7 @@ Get: 47 http://deb.debian.org/debian bookworm/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 48 http://deb.debian.org/debian bookworm/main arm64 debhelper all 13.11.4 [942 kB] Get: 49 http://deb.debian.org/debian bookworm/main arm64 libsimde-dev all 0.7.4~rc2-2 [377 kB] -Fetched 30.3 MB in 1s (39.9 MB/s) +Fetched 30.3 MB in 1s (45.2 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libproc2-0: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 ... 19616 files and directories currently installed.) @@ -372,8 +404,17 @@ Writing extended state information... Building tag database... -> Finished parsing the build-deps +Reading package lists... +Building dependency tree... +Reading state information... +usrmerge is already the newest version (35). +0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package -I: Running cd /build/kalign-3.3.5/ && 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 > ../kalign_3.3.5-1_source.changes +I: user script /srv/workspace/pbuilder/27946/tmp/hooks/A99_set_merged_usr starting +Re-configuring usrmerge... +I: user script /srv/workspace/pbuilder/27946/tmp/hooks/A99_set_merged_usr finished +hostname: Temporary failure in name resolution +I: Running cd /build/kalign-3.3.5/ && 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 > ../kalign_3.3.5-1_source.changes dpkg-buildpackage: info: source package kalign dpkg-buildpackage: info: source version 1:3.3.5-1 dpkg-buildpackage: info: source distribution unstable @@ -469,72 +510,56 @@ make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' -make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' -make -f lib/CMakeFiles/alphabet_utest.dir/build.make lib/CMakeFiles/alphabet_utest.dir/build -make -f lib/CMakeFiles/kalign_OBJ.dir/build.make lib/CMakeFiles/kalign_OBJ.dir/build make -f lib/CMakeFiles/bpm_utest.dir/build.make lib/CMakeFiles/bpm_utest.dir/build +make -f lib/CMakeFiles/tldevel.dir/build.make lib/CMakeFiles/tldevel.dir/build +make -f lib/CMakeFiles/alphabet_utest.dir/build.make lib/CMakeFiles/alphabet_utest.dir/build make -f lib/CMakeFiles/edist_utest.dir/build.make lib/CMakeFiles/edist_utest.dir/build -make -f lib/CMakeFiles/task_utest.dir/build.make lib/CMakeFiles/task_utest.dir/build -make[4]: Entering directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' -make -f lib/CMakeFiles/tldevel.dir/build.make lib/CMakeFiles/tldevel.dir/build +make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' +make -f lib/CMakeFiles/kalign_OBJ.dir/build.make lib/CMakeFiles/kalign_OBJ.dir/build +make -f lib/CMakeFiles/task_utest.dir/build.make lib/CMakeFiles/task_utest.dir/build +[ 4%] Building C object lib/CMakeFiles/alphabet_utest.dir/src/tldevel.c.o +[ 4%] Building C object lib/CMakeFiles/bpm_utest.dir/src/tldevel.c.o +[ 4%] Building C object lib/CMakeFiles/tldevel.dir/src/tldevel.c.o +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/bpm_utest.dir/src/tldevel.c.o -MF CMakeFiles/bpm_utest.dir/src/tldevel.c.o.d -o CMakeFiles/bpm_utest.dir/src/tldevel.c.o -c /build/kalign-3.3.5/lib/src/tldevel.c +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/lib/src -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/tldevel.dir/src/tldevel.c.o -MF CMakeFiles/tldevel.dir/src/tldevel.c.o.d -o CMakeFiles/tldevel.dir/src/tldevel.c.o -c /build/kalign-3.3.5/lib/src/tldevel.c +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUTEST_ALPHABET -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/alphabet_utest.dir/src/tldevel.c.o -MF CMakeFiles/alphabet_utest.dir/src/tldevel.c.o.d -o CMakeFiles/alphabet_utest.dir/src/tldevel.c.o -c /build/kalign-3.3.5/lib/src/tldevel.c +make[4]: Entering directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' -[ 5%] Building C object lib/CMakeFiles/alphabet_utest.dir/src/tldevel.c.o [ 5%] Building C object lib/CMakeFiles/task_utest.dir/src/tldevel.c.o -[ 5%] Building C object lib/CMakeFiles/edist_utest.dir/src/tldevel.c.o -[ 5%] Building C object lib/CMakeFiles/bpm_utest.dir/src/tldevel.c.o -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUTEST_ALPHABET -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/alphabet_utest.dir/src/tldevel.c.o -MF CMakeFiles/alphabet_utest.dir/src/tldevel.c.o.d -o CMakeFiles/alphabet_utest.dir/src/tldevel.c.o -c /build/kalign-3.3.5/lib/src/tldevel.c -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUTEST_EDIST -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/edist_utest.dir/src/tldevel.c.o -MF CMakeFiles/edist_utest.dir/src/tldevel.c.o.d -o CMakeFiles/edist_utest.dir/src/tldevel.c.o -c /build/kalign-3.3.5/lib/src/tldevel.c -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/bpm_utest.dir/src/tldevel.c.o -MF CMakeFiles/bpm_utest.dir/src/tldevel.c.o.d -o CMakeFiles/bpm_utest.dir/src/tldevel.c.o -c /build/kalign-3.3.5/lib/src/tldevel.c cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DTASKWRITETEST -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/task_utest.dir/src/tldevel.c.o -MF CMakeFiles/task_utest.dir/src/tldevel.c.o.d -o CMakeFiles/task_utest.dir/src/tldevel.c.o -c /build/kalign-3.3.5/lib/src/tldevel.c -[ 8%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/test.c.o -[ 10%] Building C object lib/CMakeFiles/tldevel.dir/src/tldevel.c.o -[ 8%] Building C object lib/CMakeFiles/bpm_utest.dir/src/tlrng.c.o -[ 11%] Building C object lib/CMakeFiles/alphabet_utest.dir/src/alphabet.c.o -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/bpm_utest.dir/src/tlrng.c.o -MF CMakeFiles/bpm_utest.dir/src/tlrng.c.o.d -o CMakeFiles/bpm_utest.dir/src/tlrng.c.o -c /build/kalign-3.3.5/lib/src/tlrng.c +[ 7%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/test.c.o cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/test.c.o -MF CMakeFiles/kalign_OBJ.dir/src/test.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/test.c.o -c /build/kalign-3.3.5/lib/src/test.c -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/lib/src -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/tldevel.dir/src/tldevel.c.o -MF CMakeFiles/tldevel.dir/src/tldevel.c.o.d -o CMakeFiles/tldevel.dir/src/tldevel.c.o -c /build/kalign-3.3.5/lib/src/tldevel.c -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUTEST_ALPHABET -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/alphabet_utest.dir/src/alphabet.c.o -MF CMakeFiles/alphabet_utest.dir/src/alphabet.c.o.d -o CMakeFiles/alphabet_utest.dir/src/alphabet.c.o -c /build/kalign-3.3.5/lib/src/alphabet.c +[ 8%] Building C object lib/CMakeFiles/edist_utest.dir/src/tldevel.c.o +[ 10%] Building C object lib/CMakeFiles/bpm_utest.dir/src/tlrng.c.o +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUTEST_EDIST -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/edist_utest.dir/src/tldevel.c.o -MF CMakeFiles/edist_utest.dir/src/tldevel.c.o.d -o CMakeFiles/edist_utest.dir/src/tldevel.c.o -c /build/kalign-3.3.5/lib/src/tldevel.c +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/bpm_utest.dir/src/tlrng.c.o -MF CMakeFiles/bpm_utest.dir/src/tlrng.c.o.d -o CMakeFiles/bpm_utest.dir/src/tlrng.c.o -c /build/kalign-3.3.5/lib/src/tlrng.c +[ 11%] Building C object lib/CMakeFiles/edist_utest.dir/src/tlrng.c.o +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUTEST_EDIST -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/edist_utest.dir/src/tlrng.c.o -MF CMakeFiles/edist_utest.dir/src/tlrng.c.o.d -o CMakeFiles/edist_utest.dir/src/tlrng.c.o -c /build/kalign-3.3.5/lib/src/tlrng.c [ 12%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/tldevel.c.o cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/tldevel.c.o -MF CMakeFiles/kalign_OBJ.dir/src/tldevel.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/tldevel.c.o -c /build/kalign-3.3.5/lib/src/tldevel.c [ 14%] Building C object lib/CMakeFiles/bpm_utest.dir/src/esl_stopwatch.c.o +[ 15%] Building C object lib/CMakeFiles/edist_utest.dir/src/esl_stopwatch.c.o cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/bpm_utest.dir/src/esl_stopwatch.c.o -MF CMakeFiles/bpm_utest.dir/src/esl_stopwatch.c.o.d -o CMakeFiles/bpm_utest.dir/src/esl_stopwatch.c.o -c /build/kalign-3.3.5/lib/src/esl_stopwatch.c -[ 15%] Building C object lib/CMakeFiles/bpm_utest.dir/src/alphabet.c.o +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUTEST_EDIST -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/edist_utest.dir/src/esl_stopwatch.c.o -MF CMakeFiles/edist_utest.dir/src/esl_stopwatch.c.o.d -o CMakeFiles/edist_utest.dir/src/esl_stopwatch.c.o -c /build/kalign-3.3.5/lib/src/esl_stopwatch.c +[ 17%] Building C object lib/CMakeFiles/bpm_utest.dir/src/alphabet.c.o cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/bpm_utest.dir/src/alphabet.c.o -MF CMakeFiles/bpm_utest.dir/src/alphabet.c.o.d -o CMakeFiles/bpm_utest.dir/src/alphabet.c.o -c /build/kalign-3.3.5/lib/src/alphabet.c -[ 17%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/tlmisc.c.o -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/tlmisc.c.o -MF CMakeFiles/kalign_OBJ.dir/src/tlmisc.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/tlmisc.c.o -c /build/kalign-3.3.5/lib/src/tlmisc.c -[ 18%] Building C object lib/CMakeFiles/bpm_utest.dir/src/bpm.c.o -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/bpm_utest.dir/src/bpm.c.o -MF CMakeFiles/bpm_utest.dir/src/bpm.c.o.d -o CMakeFiles/bpm_utest.dir/src/bpm.c.o -c /build/kalign-3.3.5/lib/src/bpm.c -[ 20%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/tlrng.c.o -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/tlrng.c.o -MF CMakeFiles/kalign_OBJ.dir/src/tlrng.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/tlrng.c.o -c /build/kalign-3.3.5/lib/src/tlrng.c -[ 21%] Building C object lib/CMakeFiles/edist_utest.dir/src/tlrng.c.o -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUTEST_EDIST -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/edist_utest.dir/src/tlrng.c.o -MF CMakeFiles/edist_utest.dir/src/tlrng.c.o.d -o CMakeFiles/edist_utest.dir/src/tlrng.c.o -c /build/kalign-3.3.5/lib/src/tlrng.c -[ 22%] Building C object lib/CMakeFiles/tldevel.dir/src/tlmisc.c.o -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/lib/src -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/tldevel.dir/src/tlmisc.c.o -MF CMakeFiles/tldevel.dir/src/tlmisc.c.o.d -o CMakeFiles/tldevel.dir/src/tlmisc.c.o -c /build/kalign-3.3.5/lib/src/tlmisc.c -[ 24%] Linking C executable alphabet_utest -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/alphabet_utest.dir/link.txt --verbose=1 -[ 25%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/esl_stopwatch.c.o -/usr/bin/cc -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/alphabet_utest.dir/src/tldevel.c.o CMakeFiles/alphabet_utest.dir/src/alphabet.c.o -o alphabet_utest -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/esl_stopwatch.c.o -MF CMakeFiles/kalign_OBJ.dir/src/esl_stopwatch.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/esl_stopwatch.c.o -c /build/kalign-3.3.5/lib/src/esl_stopwatch.c -[ 27%] Building C object lib/CMakeFiles/task_utest.dir/src/tlrng.c.o +[ 18%] Building C object lib/CMakeFiles/edist_utest.dir/src/euclidean_dist.c.o +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUTEST_EDIST -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/edist_utest.dir/src/euclidean_dist.c.o -MF CMakeFiles/edist_utest.dir/src/euclidean_dist.c.o.d -o CMakeFiles/edist_utest.dir/src/euclidean_dist.c.o -c /build/kalign-3.3.5/lib/src/euclidean_dist.c +/build/kalign-3.3.5/lib/src/euclidean_dist.c: In function 'main': +/build/kalign-3.3.5/lib/src/euclidean_dist.c:58:15: warning: unused variable 'd2' [-Wunused-variable] + 58 | float d2; + | ^~ +[ 20%] Building C object lib/CMakeFiles/task_utest.dir/src/tlrng.c.o cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DTASKWRITETEST -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/task_utest.dir/src/tlrng.c.o -MF CMakeFiles/task_utest.dir/src/tlrng.c.o.d -o CMakeFiles/task_utest.dir/src/tlrng.c.o -c /build/kalign-3.3.5/lib/src/tlrng.c -make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' -[ 28%] Building C object lib/CMakeFiles/bpm_utest.dir/src/bpm_test.c.o -[ 28%] Built target alphabet_utest -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/bpm_utest.dir/src/bpm_test.c.o -MF CMakeFiles/bpm_utest.dir/src/bpm_test.c.o.d -o CMakeFiles/bpm_utest.dir/src/bpm_test.c.o -c /build/kalign-3.3.5/lib/src/bpm_test.c -[ 30%] Building C object lib/CMakeFiles/task_utest.dir/src/task.c.o +[ 21%] Building C object lib/CMakeFiles/task_utest.dir/src/task.c.o cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DTASKWRITETEST -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/task_utest.dir/src/task.c.o -MF CMakeFiles/task_utest.dir/src/task.c.o.d -o CMakeFiles/task_utest.dir/src/task.c.o -c /build/kalign-3.3.5/lib/src/task.c -[ 31%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_alloc.c.o -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/msa_alloc.c.o -MF CMakeFiles/kalign_OBJ.dir/src/msa_alloc.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/msa_alloc.c.o -c /build/kalign-3.3.5/lib/src/msa_alloc.c -[ 32%] Building C object lib/CMakeFiles/edist_utest.dir/src/esl_stopwatch.c.o -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUTEST_EDIST -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/edist_utest.dir/src/esl_stopwatch.c.o -MF CMakeFiles/edist_utest.dir/src/esl_stopwatch.c.o.d -o CMakeFiles/edist_utest.dir/src/esl_stopwatch.c.o -c /build/kalign-3.3.5/lib/src/esl_stopwatch.c -[ 34%] Building C object lib/CMakeFiles/tldevel.dir/src/tlrng.c.o -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/lib/src -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/tldevel.dir/src/tlrng.c.o -MF CMakeFiles/tldevel.dir/src/tlrng.c.o.d -o CMakeFiles/tldevel.dir/src/tlrng.c.o -c /build/kalign-3.3.5/lib/src/tlrng.c -[ 35%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_op.c.o +[ 22%] Building C object lib/CMakeFiles/bpm_utest.dir/src/bpm.c.o +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/bpm_utest.dir/src/bpm.c.o -MF CMakeFiles/bpm_utest.dir/src/bpm.c.o.d -o CMakeFiles/bpm_utest.dir/src/bpm.c.o -c /build/kalign-3.3.5/lib/src/bpm.c /build/kalign-3.3.5/lib/src/task.c: In function 'read_tasks': /build/kalign-3.3.5/lib/src/task.c:94:9: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 94 | fscanf( f_ptr, "%d", &n_tasks); @@ -542,61 +567,69 @@ /build/kalign-3.3.5/lib/src/task.c:99:17: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 99 | fscanf(f_ptr,"%d,%d,%d,%d,%d\n",&a->a,&a->b,&a->c,&a->p,&a->n); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +[ 24%] Building C object lib/CMakeFiles/bpm_utest.dir/src/bpm_test.c.o +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/bpm_utest.dir/src/bpm_test.c.o -MF CMakeFiles/bpm_utest.dir/src/bpm_test.c.o.d -o CMakeFiles/bpm_utest.dir/src/bpm_test.c.o -c /build/kalign-3.3.5/lib/src/bpm_test.c +[ 25%] Building C object lib/CMakeFiles/alphabet_utest.dir/src/alphabet.c.o +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUTEST_ALPHABET -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/alphabet_utest.dir/src/alphabet.c.o -MF CMakeFiles/alphabet_utest.dir/src/alphabet.c.o.d -o CMakeFiles/alphabet_utest.dir/src/alphabet.c.o -c /build/kalign-3.3.5/lib/src/alphabet.c +[ 27%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/tlmisc.c.o +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/tlmisc.c.o -MF CMakeFiles/kalign_OBJ.dir/src/tlmisc.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/tlmisc.c.o -c /build/kalign-3.3.5/lib/src/tlmisc.c +[ 28%] Linking C executable task_utest +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/task_utest.dir/link.txt --verbose=1 +[ 30%] Building C object lib/CMakeFiles/tldevel.dir/src/tlmisc.c.o +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/lib/src -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/tldevel.dir/src/tlmisc.c.o -MF CMakeFiles/tldevel.dir/src/tlmisc.c.o.d -o CMakeFiles/tldevel.dir/src/tlmisc.c.o -c /build/kalign-3.3.5/lib/src/tlmisc.c +/usr/bin/cc -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/task_utest.dir/src/tldevel.c.o CMakeFiles/task_utest.dir/src/tlrng.c.o CMakeFiles/task_utest.dir/src/task.c.o -o task_utest -lm +make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' +[ 30%] Built target task_utest +[ 31%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/tlrng.c.o +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/tlrng.c.o -MF CMakeFiles/kalign_OBJ.dir/src/tlrng.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/tlrng.c.o -c /build/kalign-3.3.5/lib/src/tlrng.c +[ 32%] Building C object lib/CMakeFiles/tldevel.dir/src/tlrng.c.o +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/lib/src -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/tldevel.dir/src/tlrng.c.o -MF CMakeFiles/tldevel.dir/src/tlrng.c.o.d -o CMakeFiles/tldevel.dir/src/tlrng.c.o -c /build/kalign-3.3.5/lib/src/tlrng.c +[ 34%] Linking C executable edist_utest +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/edist_utest.dir/link.txt --verbose=1 +[ 35%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/esl_stopwatch.c.o +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/esl_stopwatch.c.o -MF CMakeFiles/kalign_OBJ.dir/src/esl_stopwatch.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/esl_stopwatch.c.o -c /build/kalign-3.3.5/lib/src/esl_stopwatch.c +/usr/bin/cc -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/edist_utest.dir/src/tldevel.c.o CMakeFiles/edist_utest.dir/src/tlrng.c.o CMakeFiles/edist_utest.dir/src/esl_stopwatch.c.o CMakeFiles/edist_utest.dir/src/euclidean_dist.c.o -o edist_utest -lm +[ 37%] Linking C executable alphabet_utest +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/alphabet_utest.dir/link.txt --verbose=1 +[ 38%] Building C object lib/CMakeFiles/tldevel.dir/src/esl_stopwatch.c.o +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/lib/src -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/tldevel.dir/src/esl_stopwatch.c.o -MF CMakeFiles/tldevel.dir/src/esl_stopwatch.c.o.d -o CMakeFiles/tldevel.dir/src/esl_stopwatch.c.o -c /build/kalign-3.3.5/lib/src/esl_stopwatch.c +make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' +/usr/bin/cc -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/alphabet_utest.dir/src/tldevel.c.o CMakeFiles/alphabet_utest.dir/src/alphabet.c.o -o alphabet_utest +[ 38%] Built target edist_utest +[ 40%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_alloc.c.o +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/msa_alloc.c.o -MF CMakeFiles/kalign_OBJ.dir/src/msa_alloc.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/msa_alloc.c.o -c /build/kalign-3.3.5/lib/src/msa_alloc.c +[ 41%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_op.c.o cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/msa_op.c.o -MF CMakeFiles/kalign_OBJ.dir/src/msa_op.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/msa_op.c.o -c /build/kalign-3.3.5/lib/src/msa_op.c -[ 37%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_io.c.o +[ 42%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_io.c.o cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/msa_io.c.o -MF CMakeFiles/kalign_OBJ.dir/src/msa_io.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/msa_io.c.o -c /build/kalign-3.3.5/lib/src/msa_io.c -[ 38%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_misc.c.o +make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' +[ 42%] Built target alphabet_utest +[ 44%] Linking C executable bpm_utest +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/bpm_utest.dir/link.txt --verbose=1 +[ 45%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_misc.c.o cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/msa_misc.c.o -MF CMakeFiles/kalign_OBJ.dir/src/msa_misc.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/msa_misc.c.o -c /build/kalign-3.3.5/lib/src/msa_misc.c -[ 40%] Building C object lib/CMakeFiles/edist_utest.dir/src/euclidean_dist.c.o -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DUTEST_EDIST -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/edist_utest.dir/src/euclidean_dist.c.o -MF CMakeFiles/edist_utest.dir/src/euclidean_dist.c.o.d -o CMakeFiles/edist_utest.dir/src/euclidean_dist.c.o -c /build/kalign-3.3.5/lib/src/euclidean_dist.c -[ 41%] Linking C executable task_utest -[ 42%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_check.c.o -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/task_utest.dir/link.txt --verbose=1 +[ 47%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_cmp.c.o +/usr/bin/cc -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/bpm_utest.dir/src/tldevel.c.o CMakeFiles/bpm_utest.dir/src/tlrng.c.o CMakeFiles/bpm_utest.dir/src/esl_stopwatch.c.o CMakeFiles/bpm_utest.dir/src/alphabet.c.o CMakeFiles/bpm_utest.dir/src/bpm.c.o CMakeFiles/bpm_utest.dir/src/bpm_test.c.o -o bpm_utest -lm +[ 48%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_check.c.o cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/msa_check.c.o -MF CMakeFiles/kalign_OBJ.dir/src/msa_check.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/msa_check.c.o -c /build/kalign-3.3.5/lib/src/msa_check.c -/usr/bin/cc -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/task_utest.dir/src/tldevel.c.o CMakeFiles/task_utest.dir/src/tlrng.c.o CMakeFiles/task_utest.dir/src/task.c.o -o task_utest -lm -[ 44%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_cmp.c.o cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/msa_cmp.c.o -MF CMakeFiles/kalign_OBJ.dir/src/msa_cmp.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/msa_cmp.c.o -c /build/kalign-3.3.5/lib/src/msa_cmp.c +[ 50%] Linking C static library libtldevel.a +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cmake -P CMakeFiles/tldevel.dir/cmake_clean_target.cmake make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' -[ 44%] Built target task_utest -[ 45%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/alphabet.c.o +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/tldevel.dir/link.txt --verbose=1 +[ 50%] Built target bpm_utest +[ 51%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/alphabet.c.o +/usr/bin/ar qc libtldevel.a CMakeFiles/tldevel.dir/src/tldevel.c.o CMakeFiles/tldevel.dir/src/tlmisc.c.o CMakeFiles/tldevel.dir/src/tlrng.c.o CMakeFiles/tldevel.dir/src/esl_stopwatch.c.o cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/alphabet.c.o -MF CMakeFiles/kalign_OBJ.dir/src/alphabet.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/alphabet.c.o -c /build/kalign-3.3.5/lib/src/alphabet.c -/build/kalign-3.3.5/lib/src/euclidean_dist.c: In function 'main': -/build/kalign-3.3.5/lib/src/euclidean_dist.c:58:15: warning: unused variable 'd2' [-Wunused-variable] - 58 | float d2; - | ^~ -[ 47%] Building C object lib/CMakeFiles/tldevel.dir/src/esl_stopwatch.c.o -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/lib/src -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -std=gnu11 -MD -MT lib/CMakeFiles/tldevel.dir/src/esl_stopwatch.c.o -MF CMakeFiles/tldevel.dir/src/esl_stopwatch.c.o.d -o CMakeFiles/tldevel.dir/src/esl_stopwatch.c.o -c /build/kalign-3.3.5/lib/src/esl_stopwatch.c -[ 48%] Linking C executable bpm_utest -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/bpm_utest.dir/link.txt --verbose=1 -/usr/bin/cc -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/bpm_utest.dir/src/tldevel.c.o CMakeFiles/bpm_utest.dir/src/tlrng.c.o CMakeFiles/bpm_utest.dir/src/esl_stopwatch.c.o CMakeFiles/bpm_utest.dir/src/alphabet.c.o CMakeFiles/bpm_utest.dir/src/bpm.c.o CMakeFiles/bpm_utest.dir/src/bpm_test.c.o -o bpm_utest -lm -[ 50%] Linking C executable edist_utest -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/edist_utest.dir/link.txt --verbose=1 -/usr/bin/cc -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/edist_utest.dir/src/tldevel.c.o CMakeFiles/edist_utest.dir/src/tlrng.c.o CMakeFiles/edist_utest.dir/src/esl_stopwatch.c.o CMakeFiles/edist_utest.dir/src/euclidean_dist.c.o -o edist_utest -lm +/usr/bin/ranlib libtldevel.a make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' -[ 51%] Linking C static library libtldevel.a -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cmake -P CMakeFiles/tldevel.dir/cmake_clean_target.cmake [ 52%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/task.c.o cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/task.c.o -MF CMakeFiles/kalign_OBJ.dir/src/task.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/task.c.o -c /build/kalign-3.3.5/lib/src/task.c +[ 52%] Built target tldevel [ 54%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/bisectingKmeans.c.o -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/tldevel.dir/link.txt --verbose=1 cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/bisectingKmeans.c.o -MF CMakeFiles/kalign_OBJ.dir/src/bisectingKmeans.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/bisectingKmeans.c.o -c /build/kalign-3.3.5/lib/src/bisectingKmeans.c -[ 54%] Built target bpm_utest -make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' [ 55%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/sequence_distance.c.o cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/sequence_distance.c.o -MF CMakeFiles/kalign_OBJ.dir/src/sequence_distance.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/sequence_distance.c.o -c /build/kalign-3.3.5/lib/src/sequence_distance.c -[ 57%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/bpm.c.o -[ 57%] Built target edist_utest -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/bpm.c.o -MF CMakeFiles/kalign_OBJ.dir/src/bpm.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/bpm.c.o -c /build/kalign-3.3.5/lib/src/bpm.c -/usr/bin/ar qc libtldevel.a CMakeFiles/tldevel.dir/src/tldevel.c.o CMakeFiles/tldevel.dir/src/tlmisc.c.o CMakeFiles/tldevel.dir/src/tlrng.c.o CMakeFiles/tldevel.dir/src/esl_stopwatch.c.o -/usr/bin/ranlib libtldevel.a -make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' -[ 58%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/euclidean_dist.c.o -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/euclidean_dist.c.o -MF CMakeFiles/kalign_OBJ.dir/src/euclidean_dist.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/euclidean_dist.c.o -c /build/kalign-3.3.5/lib/src/euclidean_dist.c -[ 58%] Built target tldevel -[ 60%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_wrap.c.o -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_wrap.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_wrap.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_wrap.c.o -c /build/kalign-3.3.5/lib/src/aln_wrap.c -[ 61%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/pick_anchor.c.o -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/pick_anchor.c.o -MF CMakeFiles/kalign_OBJ.dir/src/pick_anchor.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/pick_anchor.c.o -c /build/kalign-3.3.5/lib/src/pick_anchor.c /build/kalign-3.3.5/lib/src/task.c: In function 'read_tasks': /build/kalign-3.3.5/lib/src/task.c:94:9: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 94 | fscanf( f_ptr, "%d", &n_tasks); @@ -604,23 +637,31 @@ /build/kalign-3.3.5/lib/src/task.c:99:17: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 99 | fscanf(f_ptr,"%d,%d,%d,%d,%d\n",&a->a,&a->b,&a->c,&a->p,&a->n); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +[ 57%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/bpm.c.o +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/bpm.c.o -MF CMakeFiles/kalign_OBJ.dir/src/bpm.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/bpm.c.o -c /build/kalign-3.3.5/lib/src/bpm.c +[ 58%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/euclidean_dist.c.o +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/euclidean_dist.c.o -MF CMakeFiles/kalign_OBJ.dir/src/euclidean_dist.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/euclidean_dist.c.o -c /build/kalign-3.3.5/lib/src/euclidean_dist.c +[ 60%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/pick_anchor.c.o +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/pick_anchor.c.o -MF CMakeFiles/kalign_OBJ.dir/src/pick_anchor.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/pick_anchor.c.o -c /build/kalign-3.3.5/lib/src/pick_anchor.c +[ 61%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_wrap.c.o +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_wrap.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_wrap.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_wrap.c.o -c /build/kalign-3.3.5/lib/src/aln_wrap.c [ 62%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_param.c.o cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_param.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_param.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_param.c.o -c /build/kalign-3.3.5/lib/src/aln_param.c [ 64%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_run.c.o cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_run.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_run.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_run.c.o -c /build/kalign-3.3.5/lib/src/aln_run.c [ 65%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_mem.c.o cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_mem.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_mem.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_mem.c.o -c /build/kalign-3.3.5/lib/src/aln_mem.c -[ 67%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o -c /build/kalign-3.3.5/lib/src/aln_setup.c -[ 68%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_controller.c.o +[ 67%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_controller.c.o cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_controller.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_controller.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_controller.c.o -c /build/kalign-3.3.5/lib/src/aln_controller.c +[ 68%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o -c /build/kalign-3.3.5/lib/src/aln_setup.c [ 70%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_seqseq.c.o cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_seqseq.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_seqseq.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_seqseq.c.o -c /build/kalign-3.3.5/lib/src/aln_seqseq.c [ 71%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_seqprofile.c.o cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_seqprofile.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_seqprofile.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_seqprofile.c.o -c /build/kalign-3.3.5/lib/src/aln_seqprofile.c [ 72%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_profileprofile.c.o -[ 74%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/weave_alignment.c.o cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_profileprofile.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_profileprofile.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_profileprofile.c.o -c /build/kalign-3.3.5/lib/src/aln_profileprofile.c +[ 74%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/weave_alignment.c.o cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -I/build/kalign-3.3.5/lib/include -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Wall -Wextra -pedantic -fopenmp -std=gnu11 -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/weave_alignment.c.o -MF CMakeFiles/kalign_OBJ.dir/src/weave_alignment.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/weave_alignment.c.o -c /build/kalign-3.3.5/lib/src/weave_alignment.c make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' [ 74%] Built target kalign_OBJ @@ -632,34 +673,31 @@ cd /build/kalign-3.3.5/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/kalign-3.3.5 /build/kalign-3.3.5/lib /build/kalign-3.3.5/obj-aarch64-linux-gnu /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib/CMakeFiles/kalign_static.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' -make -f lib/CMakeFiles/kalign.dir/build.make lib/CMakeFiles/kalign.dir/build make -f lib/CMakeFiles/kalign_static.dir/build.make lib/CMakeFiles/kalign_static.dir/build +make -f lib/CMakeFiles/kalign.dir/build.make lib/CMakeFiles/kalign.dir/build make[4]: Entering directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' -[ 77%] Linking C static library libkalign.a [ 77%] Linking C static library libkalign_static.a +[ 77%] Linking C static library libkalign.a cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cmake -P CMakeFiles/kalign_static.dir/cmake_clean_target.cmake cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cmake -P CMakeFiles/kalign.dir/cmake_clean_target.cmake cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/kalign_static.dir/link.txt --verbose=1 cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/kalign.dir/link.txt --verbose=1 -/usr/bin/ar qc libkalign_static.a CMakeFiles/kalign_OBJ.dir/src/test.c.o CMakeFiles/kalign_OBJ.dir/src/tldevel.c.o CMakeFiles/kalign_OBJ.dir/src/tlmisc.c.o CMakeFiles/kalign_OBJ.dir/src/tlrng.c.o CMakeFiles/kalign_OBJ.dir/src/esl_stopwatch.c.o CMakeFiles/kalign_OBJ.dir/src/msa_alloc.c.o CMakeFiles/kalign_OBJ.dir/src/msa_op.c.o CMakeFiles/kalign_OBJ.dir/src/msa_io.c.o CMakeFiles/kalign_OBJ.dir/src/msa_misc.c.o CMakeFiles/kalign_OBJ.dir/src/msa_check.c.o CMakeFiles/kalign_OBJ.dir/src/msa_cmp.c.o CMakeFiles/kalign_OBJ.dir/src/alphabet.c.o CMakeFiles/kalign_OBJ.dir/src/task.c.o CMakeFiles/kalign_OBJ.dir/src/bisectingKmeans.c.o CMakeFiles/kalign_OBJ.dir/src/sequence_distance.c.o CMakeFiles/kalign_OBJ.dir/src/bpm.c.o CMakeFiles/kalign_OBJ.dir/src/euclidean_dist.c.o CMakeFiles/kalign_OBJ.dir/src/pick_anchor.c.o CMakeFiles/kalign_OBJ.dir/src/aln_wrap.c.o CMakeFiles/kalign_OBJ.dir/src/aln_param.c.o CMakeFiles/kalign_OBJ.dir/src/aln_run.c.o CMakeFiles/kalign_OBJ.dir/src/aln_mem.c.o CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o CMakeFiles/kalign_OBJ.dir/src/aln_controller.c.o CMakeFiles/kalign_OBJ.dir/src/aln_seqseq.c.o CMakeFiles/kalign_OBJ.dir/src/aln_seqprofile.c.o CMakeFiles/kalign_OBJ.dir/src/aln_profileprofile.c.o CMakeFiles/kalign_OBJ.dir/src/weave_alignment.c.o /usr/bin/ar qc libkalign.a CMakeFiles/kalign_OBJ.dir/src/test.c.o CMakeFiles/kalign_OBJ.dir/src/tldevel.c.o CMakeFiles/kalign_OBJ.dir/src/tlmisc.c.o CMakeFiles/kalign_OBJ.dir/src/tlrng.c.o CMakeFiles/kalign_OBJ.dir/src/esl_stopwatch.c.o CMakeFiles/kalign_OBJ.dir/src/msa_alloc.c.o CMakeFiles/kalign_OBJ.dir/src/msa_op.c.o CMakeFiles/kalign_OBJ.dir/src/msa_io.c.o CMakeFiles/kalign_OBJ.dir/src/msa_misc.c.o CMakeFiles/kalign_OBJ.dir/src/msa_check.c.o CMakeFiles/kalign_OBJ.dir/src/msa_cmp.c.o CMakeFiles/kalign_OBJ.dir/src/alphabet.c.o CMakeFiles/kalign_OBJ.dir/src/task.c.o CMakeFiles/kalign_OBJ.dir/src/bisectingKmeans.c.o CMakeFiles/kalign_OBJ.dir/src/sequence_distance.c.o CMakeFiles/kalign_OBJ.dir/src/bpm.c.o CMakeFiles/kalign_OBJ.dir/src/euclidean_dist.c.o CMakeFiles/kalign_OBJ.dir/src/pick_anchor.c.o CMakeFiles/kalign_OBJ.dir/src/aln_wrap.c.o CMakeFiles/kalign_OBJ.dir/src/aln_param.c.o CMakeFiles/kalign_OBJ.dir/src/aln_run.c.o CMakeFiles/kalign_OBJ.dir/src/aln_mem.c.o CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o CMakeFiles/kalign_OBJ.dir/src/aln_controller.c.o CMakeFiles/kalign_OBJ.dir/src/aln_seqseq.c.o CMakeFiles/kalign_OBJ.dir/src/aln_seqprofile.c.o CMakeFiles/kalign_OBJ.dir/src/aln_profileprofile.c.o CMakeFiles/kalign_OBJ.dir/src/weave_alignment.c.o +/usr/bin/ar qc libkalign_static.a CMakeFiles/kalign_OBJ.dir/src/test.c.o CMakeFiles/kalign_OBJ.dir/src/tldevel.c.o CMakeFiles/kalign_OBJ.dir/src/tlmisc.c.o CMakeFiles/kalign_OBJ.dir/src/tlrng.c.o CMakeFiles/kalign_OBJ.dir/src/esl_stopwatch.c.o CMakeFiles/kalign_OBJ.dir/src/msa_alloc.c.o CMakeFiles/kalign_OBJ.dir/src/msa_op.c.o CMakeFiles/kalign_OBJ.dir/src/msa_io.c.o CMakeFiles/kalign_OBJ.dir/src/msa_misc.c.o CMakeFiles/kalign_OBJ.dir/src/msa_check.c.o CMakeFiles/kalign_OBJ.dir/src/msa_cmp.c.o CMakeFiles/kalign_OBJ.dir/src/alphabet.c.o CMakeFiles/kalign_OBJ.dir/src/task.c.o CMakeFiles/kalign_OBJ.dir/src/bisectingKmeans.c.o CMakeFiles/kalign_OBJ.dir/src/sequence_distance.c.o CMakeFiles/kalign_OBJ.dir/src/bpm.c.o CMakeFiles/kalign_OBJ.dir/src/euclidean_dist.c.o CMakeFiles/kalign_OBJ.dir/src/pick_anchor.c.o CMakeFiles/kalign_OBJ.dir/src/aln_wrap.c.o CMakeFiles/kalign_OBJ.dir/src/aln_param.c.o CMakeFiles/kalign_OBJ.dir/src/aln_run.c.o CMakeFiles/kalign_OBJ.dir/src/aln_mem.c.o CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o CMakeFiles/kalign_OBJ.dir/src/aln_controller.c.o CMakeFiles/kalign_OBJ.dir/src/aln_seqseq.c.o CMakeFiles/kalign_OBJ.dir/src/aln_seqprofile.c.o CMakeFiles/kalign_OBJ.dir/src/aln_profileprofile.c.o CMakeFiles/kalign_OBJ.dir/src/weave_alignment.c.o /usr/bin/ranlib libkalign.a /usr/bin/ranlib libkalign_static.a make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' -[ 77%] Built target kalign_static [ 77%] Built target kalign +[ 77%] Built target kalign_static make -f src/CMakeFiles/kalignfmt.dir/build.make src/CMakeFiles/kalignfmt.dir/depend -make -f tests/CMakeFiles/largebench.dir/build.make tests/CMakeFiles/largebench.dir/depend make -f tests/CMakeFiles/kalign_io_test.dir/build.make tests/CMakeFiles/kalign_io_test.dir/depend make -f tests/CMakeFiles/kalign_lib_test.dir/build.make tests/CMakeFiles/kalign_lib_test.dir/depend make -f tests/CMakeFiles/kalign_cmp_test.dir/build.make tests/CMakeFiles/kalign_cmp_test.dir/depend -make[4]: Entering directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/kalign-3.3.5 /build/kalign-3.3.5/src /build/kalign-3.3.5/obj-aarch64-linux-gnu /build/kalign-3.3.5/obj-aarch64-linux-gnu/src /build/kalign-3.3.5/obj-aarch64-linux-gnu/src/CMakeFiles/kalignfmt.dir/DependInfo.cmake --color= make -f tests/CMakeFiles/kaligncpp.dir/build.make tests/CMakeFiles/kaligncpp.dir/depend make[4]: Entering directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/kalign-3.3.5 /build/kalign-3.3.5/tests /build/kalign-3.3.5/obj-aarch64-linux-gnu /build/kalign-3.3.5/obj-aarch64-linux-gnu/tests /build/kalign-3.3.5/obj-aarch64-linux-gnu/tests/CMakeFiles/largebench.dir/DependInfo.cmake --color= +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/kalign-3.3.5 /build/kalign-3.3.5/src /build/kalign-3.3.5/obj-aarch64-linux-gnu /build/kalign-3.3.5/obj-aarch64-linux-gnu/src /build/kalign-3.3.5/obj-aarch64-linux-gnu/src/CMakeFiles/kalignfmt.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' cd /build/kalign-3.3.5/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/kalign-3.3.5 /build/kalign-3.3.5/tests /build/kalign-3.3.5/obj-aarch64-linux-gnu /build/kalign-3.3.5/obj-aarch64-linux-gnu/tests /build/kalign-3.3.5/obj-aarch64-linux-gnu/tests/CMakeFiles/kalign_io_test.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' @@ -669,76 +707,78 @@ make[4]: Entering directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' cd /build/kalign-3.3.5/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/kalign-3.3.5 /build/kalign-3.3.5/tests /build/kalign-3.3.5/obj-aarch64-linux-gnu /build/kalign-3.3.5/obj-aarch64-linux-gnu/tests /build/kalign-3.3.5/obj-aarch64-linux-gnu/tests/CMakeFiles/kaligncpp.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' -make -f src/CMakeFiles/kalignfmt.dir/build.make src/CMakeFiles/kalignfmt.dir/build -make[4]: Entering directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' -make -f tests/CMakeFiles/largebench.dir/build.make tests/CMakeFiles/largebench.dir/build -make[4]: Entering directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' +make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' +make -f tests/CMakeFiles/kalign_lib_test.dir/build.make tests/CMakeFiles/kalign_lib_test.dir/build +make -f src/CMakeFiles/kalignfmt.dir/build.make src/CMakeFiles/kalignfmt.dir/build +make -f tests/CMakeFiles/kalign_cmp_test.dir/build.make tests/CMakeFiles/kalign_cmp_test.dir/build make -f tests/CMakeFiles/kaligncpp.dir/build.make tests/CMakeFiles/kaligncpp.dir/build make[4]: Entering directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' -make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' -make -f tests/CMakeFiles/kalign_io_test.dir/build.make tests/CMakeFiles/kalign_io_test.dir/build make[4]: Entering directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' -make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' -make -f tests/CMakeFiles/kalign_lib_test.dir/build.make tests/CMakeFiles/kalign_lib_test.dir/build make[4]: Entering directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' -[ 78%] Building C object src/CMakeFiles/kalignfmt.dir/run_reformat.c.o +make[4]: Entering directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' -make -f tests/CMakeFiles/kalign_cmp_test.dir/build.make tests/CMakeFiles/kalign_cmp_test.dir/build -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/src && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/lib/src -I/build/kalign-3.3.5/lib/include -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -std=gnu11 -MD -MT src/CMakeFiles/kalignfmt.dir/run_reformat.c.o -MF CMakeFiles/kalignfmt.dir/run_reformat.c.o.d -o CMakeFiles/kalignfmt.dir/run_reformat.c.o -c /build/kalign-3.3.5/src/run_reformat.c +make -f tests/CMakeFiles/kalign_io_test.dir/build.make tests/CMakeFiles/kalign_io_test.dir/build make[4]: Entering directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' -[ 81%] Building C object tests/CMakeFiles/kalign_io_test.dir/kalign_io_test.c.o -[ 81%] Building CXX object tests/CMakeFiles/kaligncpp.dir/kalign_lib_testCXX.cpp.o -[ 82%] Building C object tests/CMakeFiles/kalign_lib_test.dir/kalign_lib_test.c.o -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/tests && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/lib/include -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -std=gnu11 -MD -MT tests/CMakeFiles/kalign_io_test.dir/kalign_io_test.c.o -MF CMakeFiles/kalign_io_test.dir/kalign_io_test.c.o.d -o CMakeFiles/kalign_io_test.dir/kalign_io_test.c.o -c /build/kalign-3.3.5/tests/kalign_io_test.c +[ 80%] Building CXX object tests/CMakeFiles/kaligncpp.dir/kalign_lib_testCXX.cpp.o +[ 80%] Building C object tests/CMakeFiles/kalign_cmp_test.dir/kalign_cmp_test.c.o +[ 81%] Building C object tests/CMakeFiles/kalign_lib_test.dir/kalign_lib_test.c.o +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/tests && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/lib/include -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -std=gnu11 -MD -MT tests/CMakeFiles/kalign_cmp_test.dir/kalign_cmp_test.c.o -MF CMakeFiles/kalign_cmp_test.dir/kalign_cmp_test.c.o.d -o CMakeFiles/kalign_cmp_test.dir/kalign_cmp_test.c.o -c /build/kalign-3.3.5/tests/kalign_cmp_test.c cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/tests && /usr/bin/c++ -DHAVE_OPENMP -I/build/kalign-3.3.5/lib/include -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -MD -MT tests/CMakeFiles/kaligncpp.dir/kalign_lib_testCXX.cpp.o -MF CMakeFiles/kaligncpp.dir/kalign_lib_testCXX.cpp.o.d -o CMakeFiles/kaligncpp.dir/kalign_lib_testCXX.cpp.o -c /build/kalign-3.3.5/tests/kalign_lib_testCXX.cpp cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/tests && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/lib/include -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -std=gnu11 -MD -MT tests/CMakeFiles/kalign_lib_test.dir/kalign_lib_test.c.o -MF CMakeFiles/kalign_lib_test.dir/kalign_lib_test.c.o.d -o CMakeFiles/kalign_lib_test.dir/kalign_lib_test.c.o -c /build/kalign-3.3.5/tests/kalign_lib_test.c -[ 84%] Building C object tests/CMakeFiles/largebench.dir/large_benchmark.c.o +[ 82%] Building C object src/CMakeFiles/kalignfmt.dir/run_reformat.c.o +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/src && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/lib/src -I/build/kalign-3.3.5/lib/include -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -std=gnu11 -MD -MT src/CMakeFiles/kalignfmt.dir/run_reformat.c.o -MF CMakeFiles/kalignfmt.dir/run_reformat.c.o.d -o CMakeFiles/kalignfmt.dir/run_reformat.c.o -c /build/kalign-3.3.5/src/run_reformat.c +[ 84%] Building C object tests/CMakeFiles/kalign_io_test.dir/kalign_io_test.c.o +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/tests && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/lib/include -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -std=gnu11 -MD -MT tests/CMakeFiles/kalign_io_test.dir/kalign_io_test.c.o -MF CMakeFiles/kalign_io_test.dir/kalign_io_test.c.o.d -o CMakeFiles/kalign_io_test.dir/kalign_io_test.c.o -c /build/kalign-3.3.5/tests/kalign_io_test.c [ 85%] Building C object src/CMakeFiles/kalignfmt.dir/parameters.c.o -[ 87%] Building C object tests/CMakeFiles/kalign_cmp_test.dir/kalign_cmp_test.c.o -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/tests && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/lib/src -I/build/kalign-3.3.5/lib/include -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -std=gnu11 -MD -MT tests/CMakeFiles/largebench.dir/large_benchmark.c.o -MF CMakeFiles/largebench.dir/large_benchmark.c.o.d -o CMakeFiles/largebench.dir/large_benchmark.c.o -c /build/kalign-3.3.5/tests/large_benchmark.c cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/src && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/lib/src -I/build/kalign-3.3.5/lib/include -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -std=gnu11 -MD -MT src/CMakeFiles/kalignfmt.dir/parameters.c.o -MF CMakeFiles/kalignfmt.dir/parameters.c.o.d -o CMakeFiles/kalignfmt.dir/parameters.c.o -c /build/kalign-3.3.5/src/parameters.c -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/tests && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/lib/include -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -std=gnu11 -MD -MT tests/CMakeFiles/kalign_cmp_test.dir/kalign_cmp_test.c.o -MF CMakeFiles/kalign_cmp_test.dir/kalign_cmp_test.c.o.d -o CMakeFiles/kalign_cmp_test.dir/kalign_cmp_test.c.o -c /build/kalign-3.3.5/tests/kalign_cmp_test.c -[ 88%] Linking C executable kalign_io_test +[ 87%] Linking C executable kalign_io_test cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/kalign_io_test.dir/link.txt --verbose=1 -[ 90%] Linking C executable kalign_lib_test +[ 88%] Linking C executable kalign_lib_test cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/kalign_lib_test.dir/link.txt --verbose=1 -[ 91%] Linking C executable kalign_cmp_test -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/kalign_cmp_test.dir/link.txt --verbose=1 /usr/bin/cc -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/kalign_io_test.dir/kalign_io_test.c.o -o kalign_io_test ../lib/libkalign.a -lm -lgomp -Wl,-Bstatic -lpthread -Wl,-Bdynamic +[ 90%] Linking C executable kalign_cmp_test +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/kalign_cmp_test.dir/link.txt --verbose=1 /usr/bin/cc -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/kalign_lib_test.dir/kalign_lib_test.c.o -o kalign_lib_test ../lib/libkalign.a -lm -lgomp -Wl,-Bstatic -lpthread -Wl,-Bdynamic /usr/bin/cc -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/kalign_cmp_test.dir/kalign_cmp_test.c.o -o kalign_cmp_test ../lib/libkalign.a -lm -lgomp -Wl,-Bstatic -lpthread -Wl,-Bdynamic make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' -[ 91%] Built target kalign_io_test +[ 90%] Built target kalign_io_test make -f src/CMakeFiles/kalign-bin.dir/build.make src/CMakeFiles/kalign-bin.dir/depend +make -f tests/CMakeFiles/largebench.dir/build.make tests/CMakeFiles/largebench.dir/depend +[ 90%] Built target kalign_lib_test make[4]: Entering directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' cd /build/kalign-3.3.5/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/kalign-3.3.5 /build/kalign-3.3.5/src /build/kalign-3.3.5/obj-aarch64-linux-gnu /build/kalign-3.3.5/obj-aarch64-linux-gnu/src /build/kalign-3.3.5/obj-aarch64-linux-gnu/src/CMakeFiles/kalign-bin.dir/DependInfo.cmake --color= +make[4]: Entering directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/kalign-3.3.5 /build/kalign-3.3.5/tests /build/kalign-3.3.5/obj-aarch64-linux-gnu /build/kalign-3.3.5/obj-aarch64-linux-gnu/tests /build/kalign-3.3.5/obj-aarch64-linux-gnu/tests/CMakeFiles/largebench.dir/DependInfo.cmake --color= +make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' +[ 90%] Built target kalign_cmp_test make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' -[ 91%] Built target kalign_lib_test make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' +make -f tests/CMakeFiles/largebench.dir/build.make tests/CMakeFiles/largebench.dir/build make -f src/CMakeFiles/kalign-bin.dir/build.make src/CMakeFiles/kalign-bin.dir/build make[4]: Entering directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' -[ 91%] Built target kalign_cmp_test +make[4]: Entering directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' +[ 94%] Building C object tests/CMakeFiles/largebench.dir/large_benchmark.c.o +[ 94%] Building C object src/CMakeFiles/kalign-bin.dir/run_kalign.c.o [ 94%] Building C object src/CMakeFiles/kalign-bin.dir/parameters.c.o +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/tests && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/lib/src -I/build/kalign-3.3.5/lib/include -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -std=gnu11 -MD -MT tests/CMakeFiles/largebench.dir/large_benchmark.c.o -MF CMakeFiles/largebench.dir/large_benchmark.c.o.d -o CMakeFiles/largebench.dir/large_benchmark.c.o -c /build/kalign-3.3.5/tests/large_benchmark.c cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/src && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/lib/src -I/build/kalign-3.3.5/lib/include -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -std=gnu11 -MD -MT src/CMakeFiles/kalign-bin.dir/parameters.c.o -MF CMakeFiles/kalign-bin.dir/parameters.c.o.d -o CMakeFiles/kalign-bin.dir/parameters.c.o -c /build/kalign-3.3.5/src/parameters.c -[ 94%] Building C object src/CMakeFiles/kalign-bin.dir/run_kalign.c.o cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/src && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/lib/src -I/build/kalign-3.3.5/lib/include -I/build/kalign-3.3.5/obj-aarch64-linux-gnu/lib -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -std=gnu11 -MD -MT src/CMakeFiles/kalign-bin.dir/run_kalign.c.o -MF CMakeFiles/kalign-bin.dir/run_kalign.c.o.d -o CMakeFiles/kalign-bin.dir/run_kalign.c.o -c /build/kalign-3.3.5/src/run_kalign.c [ 95%] Linking C executable kalignfmt cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/kalignfmt.dir/link.txt --verbose=1 /usr/bin/cc -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/kalignfmt.dir/run_reformat.c.o CMakeFiles/kalignfmt.dir/parameters.c.o -o kalignfmt ../lib/libtldevel.a ../lib/libkalign.a -lm -lgomp -Wl,-Bstatic -lpthread -Wl,-Bdynamic make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' [ 95%] Built target kalignfmt -[ 97%] Linking C executable largebench -cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/largebench.dir/link.txt --verbose=1 -/usr/bin/cc -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/largebench.dir/large_benchmark.c.o -o largebench ../lib/libtldevel.a ../lib/libkalign_static.a -lm -lgomp -Wl,-Bstatic -lpthread -Wl,-Bdynamic -make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' -[ 97%] Built target largebench -[ 98%] Linking C executable kalign +[ 97%] Linking C executable kalign cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/kalign-bin.dir/link.txt --verbose=1 /usr/bin/cc -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic "CMakeFiles/kalign-bin.dir/run_kalign.c.o" "CMakeFiles/kalign-bin.dir/parameters.c.o" -o kalign ../lib/libtldevel.a ../lib/libkalign_static.a -lm -lgomp -Wl,-Bstatic -lpthread -Wl,-Bdynamic make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' +[ 98%] Linking C executable largebench +cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/largebench.dir/link.txt --verbose=1 +/usr/bin/cc -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/largebench.dir/large_benchmark.c.o -o largebench ../lib/libtldevel.a ../lib/libkalign_static.a -lm -lgomp -Wl,-Bstatic -lpthread -Wl,-Bdynamic +[ 98%] Built target kalign-bin /build/kalign-3.3.5/tests/kalign_lib_testCXX.cpp: In function 'int main()': /build/kalign-3.3.5/tests/kalign_lib_testCXX.cpp:10:17: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 10 | "GKGDPKKPRGKMSSYAFFVQTSREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMKTYIPPKGE", @@ -752,7 +792,8 @@ /build/kalign-3.3.5/tests/kalign_lib_testCXX.cpp:13:17: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 13 | "MHIKKPLNAFMLYMKEMRANVVAESTLKESAAINQILGRRWHALSREEQAKYYELARKERQLHMQLYPGWSARDNYGKKKKRKREK", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -[ 98%] Built target kalign-bin +make[4]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' +[ 98%] Built target largebench [100%] Linking CXX executable kaligncpp cd /build/kalign-3.3.5/obj-aarch64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/kaligncpp.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/kalign-3.3.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/kaligncpp.dir/kalign_lib_testCXX.cpp.o -o kaligncpp ../lib/libkalign.a -lm -lgomp -Wl,-Bstatic -lpthread -Wl,-Bdynamic @@ -829,7 +870,7 @@ 8: Working Directory: /build/kalign-3.3.5/tests 8: Test timeout computed to be: 1500 1: LEN: 256 -1: [2023-04-28 00:26:32] : LOG : Testing correctness of serial bpm. +1: [2024-05-31 08:50:46] : LOG : Testing correctness of serial bpm. 2: LEN: 21 2: @ -1 2: A 0 @@ -962,68 +1003,62 @@ 2: ] -1 2: ^ -1 2: _ -1 -3: [2023-04-28 00:26:32] : LOG : Check for correctness. -3: [2023-04-28 00:26:32] : LOG : Timing serial -3: [2023-04-28 00:26:32] : LOG : CPU Time: 0.02u 00:00:00.01 Elapsed: 00:00:00.00 -4: 770 796 165 864 576 -4: 195 727 853 998 245 -4: 964 11 177 958 866 -4: 313 682 387 550 320 -4: 273 624 850 798 115 -4: 983 922 861 782 207 -4: 425 855 945 232 968 -4: 88 921 292 718 479 -4: 753 73 54 186 238 -4: 349 490 69 938 590 -4: 141 958 730 154 127 -4: 489 428 413 820 805 -4: 621 824 461 901 407 -4: 507 422 197 163 819 -4: 244 305 991 265 369 -4: 256 850 89 637 826 -4: 520 188 45 768 398 -4: 30 49 330 595 682 -4: 696 189 873 68 660 -4: 948 19 606 427 304 -4: 846 750 546 753 743 -4: 296 930 773 571 931 -4: 924 963 545 66 677 -4: 702 225 374 142 761 -4: 761 424 475 667 748 -4: 518 983 346 950 16 -4: 61 715 951 961 490 -4: 308 512 977 831 743 -4: 454 51 859 60 640 -4: 971 90 317 708 781 -4: 805 253 796 110 302 -4: 243 498 345 55 817 -4: 416 182 855 794 54 -4: 704 267 728 879 621 -4: 744 651 213 447 717 -4: 585 404 307 152 481 -4: 601 137 761 387 175 -4: 965 678 437 404 180 -4: 62 910 238 524 234 -4: 894 510 993 339 463 -4: 48 257 636 965 764 -4: 920 738 228 334 131 -4: 744 3 360 785 554 -4: 78 473 999 395 690 -4: 831 253 969 216 127 -4: 280 786 242 805 62 -4: 355 700 428 522 77 -4: 479 285 132 488 782 -4: 653 655 314 108 133 -4: 277 688 531 372 162 -4: 502 932 78 83 293 -4: 438 346 124 706 263 -4: 308 802 13 677 396 -4: 436 308 332 423 621 -5: Aligned: -5: ------GKGDPKKPRGKMSSYAFFVQTSREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMKTYIPP---------- -5: ------------MQDRVKRPMNAFIVWSRDQRRKMAL-EN-PRMR-NS-EISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREK---YPNYKYRP- -5: MKKLKKHPDFPKKPLTPYFRFFMEKRAKYAKLHPEMS--N-L-DLTKILSKKYKELPEKKKMKYIQDFQREKQEFERNLARFREDHPDLIQNA--- -5: ----------------MHIKKPLNAFMLYMKEMRANV-VA-ESTLKE-SA-AINQILGRRWHALSREEQAKYYELARKERQLHMQLYPGWSARDNY +3: [2024-05-31 08:50:46] : LOG : Check for correctness. +3: [2024-05-31 08:50:46] : LOG : Timing serial +4: 199 980 4 11 578 +4: 626 789 18 558 138 +4: 229 686 370 612 739 +4: 565 521 955 208 798 +4: 551 518 899 375 222 +4: 600 152 951 985 360 +4: 401 791 324 974 507 +4: 432 226 112 362 614 +4: 98 856 211 748 218 +4: 895 530 127 400 575 +4: 290 354 14 263 415 +4: 61 881 632 57 177 +4: 434 635 298 492 199 +4: 553 415 514 497 38 +4: 858 2 316 880 21 +4: 231 381 71 73 571 +4: 934 202 482 555 698 +4: 826 116 478 271 620 +4: 574 189 549 440 924 +4: 347 965 836 659 957 +4: 995 698 487 151 624 +4: 446 660 354 509 453 +4: 951 476 2 448 367 +4: 751 137 389 331 603 +4: 755 67 652 904 265 +4: 235 220 576 675 759 +4: 288 856 106 670 634 +4: 548 214 283 126 529 +4: 850 772 969 948 191 +4: 429 725 969 231 810 +4: 595 522 841 542 528 +4: 499 99 836 288 115 +4: 518 236 42 977 2 +4: 724 104 802 482 132 +4: 392 277 637 457 943 +4: 114 879 661 625 191 +4: 510 362 160 397 504 +4: 927 339 484 946 722 +4: 222 316 374 111 306 +4: 698 592 157 864 278 +4: 75 970 490 648 420 +4: 617 676 743 717 815 +4: 891 970 650 184 64 +4: 182 432 735 273 954 +4: 216 141 191 209 601 +4: 822 181 611 430 191 +4: 215 456 270 234 964 +4: 296 888 875 492 793 +4: 835 771 199 352 972 +4: 797 843 384 246 426 +4: 301 634 599 181 791 +4: 911 495 187 455 140 +4: 902 133 937 193 485 +4: 791 939 302 325 569 6: 6: Kalign (3.3.5) 6: @@ -1040,15 +1075,15 @@ 6: Bioinformatics (2019) 6: https://doi.org/10.1093/bioinformatics/btz795 6: -6: [2023-04-28 00:26:32] : LOG : Detected protein sequences. -6: [2023-04-28 00:26:32] : LOG : Read 4 sequences from /build/kalign-3.3.5/tests/data/BB11001.tfa. -6: [2023-04-28 00:26:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -6: [2023-04-28 00:26:32] : LOG : Calculating pairwise distances -6: [2023-04-28 00:26:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -6: [2023-04-28 00:26:32] : LOG : Building guide tree. -6: [2023-04-28 00:26:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -6: [2023-04-28 00:26:32] : LOG : Aligning -6: [2023-04-28 00:26:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +6: [2024-05-31 08:50:46] : LOG : Detected protein sequences. +6: [2024-05-31 08:50:46] : LOG : Read 4 sequences from /build/kalign-3.3.5/tests/data/BB11001.tfa. +6: [2024-05-31 08:50:46] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +6: [2024-05-31 08:50:46] : LOG : Calculating pairwise distances +6: [2024-05-31 08:50:46] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +6: [2024-05-31 08:50:46] : LOG : Building guide tree. +6: [2024-05-31 08:50:46] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +6: [2024-05-31 08:50:46] : LOG : Aligning +6: [2024-05-31 08:50:46] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 6: >1aab_ 6: ---GKGDPKKPRGKMSSYAFFVQTSREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKG 6: KFEDMAKADKARYEREMKTYIPPKGE---------- @@ -1077,51 +1112,51 @@ 7: Bioinformatics (2019) 7: https://doi.org/10.1093/bioinformatics/btz795 7: -7: [2023-04-28 00:26:32] : LOG : Detected protein sequences. -7: [2023-04-28 00:26:32] : LOG : Read 4 sequences from /build/kalign-3.3.5/tests/data/BB11001_EOF.msf. -7: [2023-04-28 00:26:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -7: [2023-04-28 00:26:32] : LOG : Calculating pairwise distances -7: [2023-04-28 00:26:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -7: [2023-04-28 00:26:32] : LOG : Building guide tree. -7: [2023-04-28 00:26:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -7: [2023-04-28 00:26:32] : LOG : Aligning -7: [2023-04-28 00:26:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -7: >1aab_ -7: ---GKGDPKKPRGKMSSYAFFVQTSREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKG -7: KFEDMAKADKARYEREMKTYIPPKGE---------- -7: >1j46_A -7: ------MQDRVKRPMNAFIVWSRDQRRKMALENPRMR-NS-EISKQLGYQWKMLTEAEKW -7: PFFQEAQKLQAMHREKYPNYKYRP---RRKAKMLPK -7: >1k99_A -7: MKKLKKHPDFPKKPLTPYFRFFMEKRAKYAKLHPEMS-NL-DLTKILSKKYKELPEKKKM -7: KYIQDFQREKQEFERNLARFREDHPDLIQNAKK--- -7: >2lef_A -7: --------MHIKKPLNAFMLYMKEMRANVVAESTLKE-SA-AINQILGRRWHALSREEQA -7: KYYELARKERQLHMQLYPGWSARDNYGKKKKRKREK - 1/11 Test #2: alphabet_utest ................... Passed 0.03 sec +7: [2024-05-31 08:50:46] : LOG : Detected protein sequences. +7: [2024-05-31 08:50:46] : LOG : Read 4 sequences from /build/kalign-3.3.5/tests/data/BB11001_EOF.msf. +7: [2024-05-31 08:50:46] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +7: [2024-05-31 08:50:46] : LOG : Calculating pairwise distances + 1/11 Test #2: alphabet_utest ................... Passed 0.02 sec test 9 Start 9: kalign_itest_BB12006.tfa 9: Test command: /build/kalign-3.3.5/obj-aarch64-linux-gnu/src/kalign "/build/kalign-3.3.5/tests/data/BB12006.tfa" 9: Working Directory: /build/kalign-3.3.5/tests 9: Test timeout computed to be: 1500 - 2/11 Test #3: edist_utest ...................... Passed 0.03 sec + 2/11 Test #4: task_utest ....................... Passed 0.02 sec test 10 Start 10: kalign_itest_BB30014.msf 10: Test command: /build/kalign-3.3.5/obj-aarch64-linux-gnu/src/kalign "/build/kalign-3.3.5/tests/data/BB12006.tfa" 10: Working Directory: /build/kalign-3.3.5/tests 10: Test timeout computed to be: 1500 - 3/11 Test #4: task_utest ....................... Passed 0.03 sec +3: [2024-05-31 08:50:46] : LOG : CPU Time: 0.01u 00:00:00.01 Elapsed: 00:00:00.00 + 3/11 Test #3: edist_utest ...................... Passed 0.03 sec test 11 Start 11: kalign_itest_BB30014.tfa 11: Test command: /build/kalign-3.3.5/obj-aarch64-linux-gnu/src/kalign "/build/kalign-3.3.5/tests/data/BB30014.tfa" 11: Working Directory: /build/kalign-3.3.5/tests 11: Test timeout computed to be: 1500 - 4/11 Test #5: C++Lib ........................... Passed 0.03 sec - 5/11 Test #6: kalign_itest_BB11001.tfa ......... Passed 0.03 sec - 6/11 Test #7: kalign_itest_BB11001_EOF.msf ..... Passed 0.03 sec + 4/11 Test #6: kalign_itest_BB11001.tfa ......... Passed 0.03 sec +7: [2024-05-31 08:50:46] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +7: [2024-05-31 08:50:46] : LOG : Building guide tree. +7: [2024-05-31 08:50:46] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +7: [2024-05-31 08:50:46] : LOG : Aligning +7: [2024-05-31 08:50:46] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +7: >1aab_ +7: ---GKGDPKKPRGKMSSYAFFVQTSREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKG +7: KFEDMAKADKARYEREMKTYIPPKGE---------- +7: >1j46_A +7: ------MQDRVKRPMNAFIVWSRDQRRKMALENPRMR-NS-EISKQLGYQWKMLTEAEKW +7: PFFQEAQKLQAMHREKYPNYKYRP---RRKAKMLPK +7: >1k99_A +7: MKKLKKHPDFPKKPLTPYFRFFMEKRAKYAKLHPEMS-NL-DLTKILSKKYKELPEKKKM +7: KYIQDFQREKQEFERNLARFREDHPDLIQNAKK--- +7: >2lef_A +7: --------MHIKKPLNAFMLYMKEMRANVVAESTLKE-SA-AINQILGRRWHALSREEQA +7: KYYELARKERQLHMQLYPGWSARDNYGKKKKRKREK + 5/11 Test #7: kalign_itest_BB11001_EOF.msf ..... Passed 0.03 sec 8: 8: Kalign (3.3.5) 8: @@ -1138,15 +1173,15 @@ 8: Bioinformatics (2019) 8: https://doi.org/10.1093/bioinformatics/btz795 8: -8: [2023-04-28 00:26:32] : LOG : Detected protein sequences. -8: [2023-04-28 00:26:32] : LOG : Read 4 sequences from /build/kalign-3.3.5/tests/data/BB12006.msf. -8: [2023-04-28 00:26:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -8: [2023-04-28 00:26:32] : LOG : Calculating pairwise distances -8: [2023-04-28 00:26:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -8: [2023-04-28 00:26:32] : LOG : Building guide tree. -8: [2023-04-28 00:26:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -8: [2023-04-28 00:26:32] : LOG : Aligning -8: [2023-04-28 00:26:32] : LOG : CPU Time: 0.01u 00:00:00.00 Elapsed: 00:00:00.00 +8: [2024-05-31 08:50:46] : LOG : Detected protein sequences. +8: [2024-05-31 08:50:46] : LOG : Read 4 sequences from /build/kalign-3.3.5/tests/data/BB12006.msf. +8: [2024-05-31 08:50:46] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +8: [2024-05-31 08:50:46] : LOG : Calculating pairwise distances +8: [2024-05-31 08:50:46] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +8: [2024-05-31 08:50:46] : LOG : Building guide tree. +8: [2024-05-31 08:50:46] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +8: [2024-05-31 08:50:46] : LOG : Aligning +8: [2024-05-31 08:50:46] : LOG : CPU Time: 0.01u 00:00:00.00 Elapsed: 00:00:00.00 8: >1al2_ad 8: G-LPVMNTPGSNQYLTADNFQSPCALPEFDVTPPIDIPGEVKNMMELAEI-DTMIPFDLS 8: ATKKNTMEMYRVRLSDKPHTDDPILCLSLSPASDPRLSHTMLGEILNYYTHWAGSLKFTF @@ -1171,6 +1206,13 @@ 8: VFTGTAMMKGKFLIAYTPPGAGKPTSRDQAMQATYAIWDLGLNSSYSFTVPFISPTHFRM 8: VGTDQA--NITNVDGWVTVWQLTPLTYPPGCPTSAKILTMVSAGKDFSLKMPISPAPWSP 8: Q---- + 6/11 Test #8: kalign_itest_BB12006.msf ......... Passed 0.03 sec +5: Aligned: +5: ------GKGDPKKPRGKMSSYAFFVQTSREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMKTYIPP---------- +5: ------------MQDRVKRPMNAFIVWSRDQRRKMAL-EN-PRMR-NS-EISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREK---YPNYKYRP- +5: MKKLKKHPDFPKKPLTPYFRFFMEKRAKYAKLHPEMS--N-L-DLTKILSKKYKELPEKKKMKYIQDFQREKQEFERNLARFREDHPDLIQNA--- +5: ----------------MHIKKPLNAFMLYMKEMRANV-VA-ESTLKE-SA-AINQILGRRWHALSREEQAKYYELARKERQLHMQLYPGWSARDNY + 7/11 Test #5: C++Lib ........................... Passed 0.03 sec 9: 9: Kalign (3.3.5) 9: @@ -1187,10 +1229,39 @@ 9: Bioinformatics (2019) 9: https://doi.org/10.1093/bioinformatics/btz795 9: -9: [2023-04-28 00:26:32] : LOG : Detected protein sequences. -9: [2023-04-28 00:26:32] : LOG : Read 4 sequences from /build/kalign-3.3.5/tests/data/BB12006.tfa. -9: [2023-04-28 00:26:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -9: [2023-04-28 00:26:32] : LOG : Calculating pairwise distances +9: [2024-05-31 08:50:46] : LOG : Detected protein sequences. +9: [2024-05-31 08:50:46] : LOG : Read 4 sequences from /build/kalign-3.3.5/tests/data/BB12006.tfa. +9: [2024-05-31 08:50:46] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +9: [2024-05-31 08:50:46] : LOG : Calculating pairwise distances +9: [2024-05-31 08:50:46] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +9: [2024-05-31 08:50:46] : LOG : Building guide tree. +9: [2024-05-31 08:50:46] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +9: [2024-05-31 08:50:46] : LOG : Aligning +9: [2024-05-31 08:50:46] : LOG : CPU Time: 0.01u 00:00:00.01 Elapsed: 00:00:00.00 +9: >1al2_ad +9: G-LPVMNTPGSNQYLTADNFQSPCALPEFDVTPPIDIPGEVKNMMELAEI-DTMIPFDLS +9: ATKKNTMEMYRVRLSDKPHTDDPILCLSLSPASDPRLSHTMLGEILNYYTHWAGSLKFTF +9: LFCGSMMATGKLLVSYAPPGADPPKKRKEAMLGTHVIWDIGLQSSCTMVVPWISNTTYRQ +9: TIDD-----SFTEGGYISVFYQTRIVVPLSTPREMDILGFVSACNDFSVRLLRDTTHIEQ +9: KA--- +9: >1bbt_ac +9: GIFPVACSDGYGGLVTTDPKTADPVYGKVFNPPRNQLPGRFTNLLDVAEACPTFL--R-- +9: ---FEGGVPYVTTKTDSDRV---LAQFDMSLAAK-HMSNTFLAGLAQYYTQYSGTINLHF +9: MFTGPTDAKARYMVAYAPPGMEPPKTPEAAAHCIHAEWDTGLNSKFTFSIPYLSAADYTY +9: TASDVA--ETTNVQGWVCLFQITH-----GKADGDALVVLASAGKDFELRLPVDARAE-- +9: ----- +9: >1bev_ac +9: G-LPTKPGPGSYQFMTTDEDCSPCILPDFQPTPEIFIPGKVNNLLEIAQV-ESILEAN-N +9: REGVEGVERYVIPVSVQDALDAQIYALRLELGGSGPLSSSLLGTLAKHYTQWSGSVEITC +9: MFTGTFMTTGKVLLAYTPPGGDMPRNREEAMLGTHVIWDFGLQSSITLVIPWISASHFRG +9: VSNDDVLNYQYYAAGHVTIWYQTNMVIPPGFPNTAGIIMMIAAQPNFSFRIQKDREDMTQ +9: TAILQ +9: >1mec_ac +9: SPIPVTIREHAGTWYSTLPDSTVPIYGKTPVAPANYMVGEYKDFLEIAQI-PTFIGNK-- +9: ---MPNAVPYIEASNTAVKTQ-PLAVYQVTLSCS-CLANTFLAALSRNFAQYRGSLVYTF +9: VFTGTAMMKGKFLIAYTPPGAGKPTSRDQAMQATYAIWDLGLNSSYSFTVPFISPTHFRM +9: VGTDQA--NITNVDGWVTVWQLTPLTYPPGCPTSAKILTMVSAGKDFSLKMPISPAPWSP +9: Q---- 10: 10: Kalign (3.3.5) 10: @@ -1207,11 +1278,15 @@ 10: Bioinformatics (2019) 10: https://doi.org/10.1093/bioinformatics/btz795 10: -10: [2023-04-28 00:26:32] : LOG : Detected protein sequences. -10: [2023-04-28 00:26:32] : LOG : Read 4 sequences from /build/kalign-3.3.5/tests/data/BB12006.tfa. -10: [2023-04-28 00:26:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -10: [2023-04-28 00:26:32] : LOG : Calculating pairwise distances - 7/11 Test #8: kalign_itest_BB12006.msf ......... Passed 0.03 sec +10: [2024-05-31 08:50:46] : LOG : Detected protein sequences. +10: [2024-05-31 08:50:46] : LOG : Read 4 sequences from /build/kalign-3.3.5/tests/data/BB12006.tfa. +10: [2024-05-31 08:50:46] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +10: [2024-05-31 08:50:46] : LOG : Calculating pairwise distances +10: [2024-05-31 08:50:46] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +10: [2024-05-31 08:50:46] : LOG : Building guide tree. +10: [2024-05-31 08:50:46] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +10: [2024-05-31 08:50:46] : LOG : Aligning + 8/11 Test #9: kalign_itest_BB12006.tfa ......... Passed 0.02 sec 11: 11: Kalign (3.3.5) 11: @@ -1228,47 +1303,11 @@ 11: Bioinformatics (2019) 11: https://doi.org/10.1093/bioinformatics/btz795 11: -11: [2023-04-28 00:26:32] : LOG : Detected protein sequences. -11: [2023-04-28 00:26:32] : LOG : Read 44 sequences from /build/kalign-3.3.5/tests/data/BB30014.tfa. -11: [2023-04-28 00:26:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -11: [2023-04-28 00:26:32] : LOG : Calculating pairwise distances -9: [2023-04-28 00:26:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -9: [2023-04-28 00:26:32] : LOG : Building guide tree. -9: [2023-04-28 00:26:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -9: [2023-04-28 00:26:32] : LOG : Aligning -11: [2023-04-28 00:26:32] : LOG : CPU Time: 0.04u 00:00:00.03 Elapsed: 00:00:00.00 -11: [2023-04-28 00:26:32] : LOG : Building guide tree. -10: [2023-04-28 00:26:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -10: [2023-04-28 00:26:32] : LOG : Building guide tree. -10: [2023-04-28 00:26:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -10: [2023-04-28 00:26:32] : LOG : Aligning -9: [2023-04-28 00:26:32] : LOG : CPU Time: 0.01u 00:00:00.01 Elapsed: 00:00:00.00 -9: >1al2_ad -9: G-LPVMNTPGSNQYLTADNFQSPCALPEFDVTPPIDIPGEVKNMMELAEI-DTMIPFDLS -9: ATKKNTMEMYRVRLSDKPHTDDPILCLSLSPASDPRLSHTMLGEILNYYTHWAGSLKFTF -9: LFCGSMMATGKLLVSYAPPGADPPKKRKEAMLGTHVIWDIGLQSSCTMVVPWISNTTYRQ -9: TIDD-----SFTEGGYISVFYQTRIVVPLSTPREMDILGFVSACNDFSVRLLRDTTHIEQ -9: KA--- -9: >1bbt_ac -9: GIFPVACSDGYGGLVTTDPKTADPVYGKVFNPPRNQLPGRFTNLLDVAEACPTFL--R-- -9: ---FEGGVPYVTTKTDSDRV---LAQFDMSLAAK-HMSNTFLAGLAQYYTQYSGTINLHF -9: MFTGPTDAKARYMVAYAPPGMEPPKTPEAAAHCIHAEWDTGLNSKFTFSIPYLSAADYTY -9: TASDVA--ETTNVQGWVCLFQITH-----GKADGDALVVLASAGKDFELRLPVDARAE-- -9: ----- -9: >1bev_ac -9: G-LPTKPGPGSYQFMTTDEDCSPCILPDFQPTPEIFIPGKVNNLLEIAQV-ESILEAN-N -9: REGVEGVERYVIPVSVQDALDAQIYALRLELGGSGPLSSSLLGTLAKHYTQWSGSVEITC -9: MFTGTFMTTGKVLLAYTPPGGDMPRNREEAMLGTHVIWDFGLQSSITLVIPWISASHFRG -9: VSNDDVLNYQYYAAGHVTIWYQTNMVIPPGFPNTAGIIMMIAAQPNFSFRIQKDREDMTQ -9: TAILQ -9: >1mec_ac -9: SPIPVTIREHAGTWYSTLPDSTVPIYGKTPVAPANYMVGEYKDFLEIAQI-PTFIGNK-- -9: ---MPNAVPYIEASNTAVKTQ-PLAVYQVTLSCS-CLANTFLAALSRNFAQYRGSLVYTF -9: VFTGTAMMKGKFLIAYTPPGAGKPTSRDQAMQATYAIWDLGLNSSYSFTVPFISPTHFRM -9: VGTDQA--NITNVDGWVTVWQLTPLTYPPGCPTSAKILTMVSAGKDFSLKMPISPAPWSP -9: Q---- - 8/11 Test #9: kalign_itest_BB12006.tfa ......... Passed 0.03 sec -10: [2023-04-28 00:26:32] : LOG : CPU Time: 0.01u 00:00:00.00 Elapsed: 00:00:00.00 +11: [2024-05-31 08:50:46] : LOG : Detected protein sequences. +11: [2024-05-31 08:50:46] : LOG : Read 44 sequences from /build/kalign-3.3.5/tests/data/BB30014.tfa. +11: [2024-05-31 08:50:46] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +11: [2024-05-31 08:50:46] : LOG : Calculating pairwise distances +10: [2024-05-31 08:50:46] : LOG : CPU Time: 0.01u 00:00:00.00 Elapsed: 00:00:00.00 10: >1al2_ad 10: G-LPVMNTPGSNQYLTADNFQSPCALPEFDVTPPIDIPGEVKNMMELAEI-DTMIPFDLS 10: ATKKNTMEMYRVRLSDKPHTDDPILCLSLSPASDPRLSHTMLGEILNYYTHWAGSLKFTF @@ -1294,9 +1333,17 @@ 10: VGTDQA--NITNVDGWVTVWQLTPLTYPPGCPTSAKILTMVSAGKDFSLKMPISPAPWSP 10: Q---- 9/11 Test #10: kalign_itest_BB30014.msf ......... Passed 0.03 sec -11: [2023-04-28 00:26:32] : LOG : CPU Time: 0.04u 00:00:00.04 Elapsed: 00:00:00.00 -11: [2023-04-28 00:26:32] : LOG : Aligning -11: [2023-04-28 00:26:32] : LOG : CPU Time: 0.11u 00:00:00.11 Elapsed: 00:00:00.00 +11: [2024-05-31 08:50:46] : LOG : CPU Time: 0.03u 00:00:00.03 Elapsed: 00:00:00.00 +11: [2024-05-31 08:50:46] : LOG : Building guide tree. +11: [2024-05-31 08:50:46] : LOG : CPU Time: 0.05u 00:00:00.04 Elapsed: 00:00:00.00 +11: [2024-05-31 08:50:46] : LOG : Aligning +1: 0 0 0 0 +1: 0 0 0 0 +1: 0 0 0 0 +1: 0 0 0 0 +1: +1: [2024-05-31 08:50:46] : LOG : Testing correctness of AVX bpm. +11: [2024-05-31 08:50:46] : LOG : CPU Time: 0.11u 00:00:00.11 Elapsed: 00:00:00.00 11: >1ags_A 11: ----------------------------------AEKPKLHYFNARGRMESTRWLLAAAG 11: VEFEEKFIKSAEDLDKLRNDG--YLMFQQVPMVEI-----DG--MKLVQTRAILNYIA-- @@ -1605,29 +1652,23 @@ 11: ----KNPDLREEKFA-DIKKAYDNAEQLLT----GDFYS-GTSKPGFVDYLLYPNIQRAY 11: WAAHIVPDFPLEAESFPGPN-YPRLSKWYKAL-ESIPEVAAASQPTENGVGFFKDYLGGS 11: PNYDYGLTKLSETI -10/11 Test #11: kalign_itest_BB30014.tfa ......... Passed 0.15 sec -1: 0 0 0 0 -1: 0 0 0 0 -1: 0 0 0 0 -1: 0 0 0 0 -1: -1: [2023-04-28 00:26:32] : LOG : Testing correctness of AVX bpm. +10/11 Test #11: kalign_itest_BB30014.tfa ......... Passed 0.19 sec 1: 0 0 0 0 1: 0 0 0 0 1: 0 0 0 0 1: 0 0 0 0 1: 1: Dyn AVX DYN/AVX -1: [2023-04-28 00:26:42] : LOG : Timing DYN 256 -1: [2023-04-28 00:26:46] : LOG : 3.270155 - dyn -1: [2023-04-28 00:26:46] : LOG : 0.000000 - bpm -1: [2023-04-28 00:26:46] : LOG : 0.210979 - bpm_block2 -1: [2023-04-28 00:26:46] : LOG : 0.220022 - bpm_block -11/11 Test #1: bpm_utest ........................ Passed 13.57 sec +1: [2024-05-31 08:50:56] : LOG : Timing DYN 256 +1: [2024-05-31 08:51:00] : LOG : 3.260796 - dyn +1: [2024-05-31 08:51:00] : LOG : 0.000000 - bpm +1: [2024-05-31 08:51:00] : LOG : 0.209339 - bpm_block2 +1: [2024-05-31 08:51:00] : LOG : 0.218623 - bpm_block +11/11 Test #1: bpm_utest ........................ Passed 13.55 sec 100% tests passed, 0 tests failed out of 11 -Total Test time (real) = 13.57 sec +Total Test time (real) = 13.55 sec make[2]: Leaving directory '/build/kalign-3.3.5/obj-aarch64-linux-gnu' make[1]: Leaving directory '/build/kalign-3.3.5' create-stamp debian/debhelper-build-stamp @@ -1687,12 +1728,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/27946/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/27946/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/10190 and its subdirectories -I: Current time: Fri Apr 28 00:26:56 -12 2023 -I: pbuilder-time-stamp: 1682684816 +I: removing directory /srv/workspace/pbuilder/27946 and its subdirectories +I: Current time: Fri May 31 08:51:09 +14 2024 +I: pbuilder-time-stamp: 1717095069