Diff of the two buildlogs: -- --- b1/build.log 2023-06-09 06:45:32.092569720 +0000 +++ b2/build.log 2023-06-09 06:47:37.707073339 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Thu Jun 8 18:41:31 -12 2023 -I: pbuilder-time-stamp: 1686292891 +I: Current time: Fri Jun 9 20:45:51 +14 2023 +I: pbuilder-time-stamp: 1686293151 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 @@ -28,135 +28,167 @@ 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/10623/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/12248/tmp/hooks/D01_modify_environment starting +debug: Running on virt32c. +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 Jun 9 20:46 /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/12248/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/12248/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='armhf' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=3 ' - DISTRIBUTION='bookworm' - HOME='/root' - HOST_ARCH='armhf' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="15" [3]="1" [4]="release" [5]="arm-unknown-linux-gnueabihf") + 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=armhf + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=4 ' + DIRSTACK=() + DISTRIBUTION=bookworm + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=arm + HOST_ARCH=armhf IFS=' ' - INVOCATION_ID='8c61e8e88cec4ab28518ead7e10f1cba' - 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='10623' - PS1='# ' - PS2='> ' + INVOCATION_ID=28e58582e17d4738b659a24222e1395f + LANG=C + LANGUAGE=it_CH:it + LC_ALL=C + MACHTYPE=arm-unknown-linux-gnueabihf + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnueabihf + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=12248 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.ET7g3Qj2/pbuilderrc_tBAb --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.ET7g3Qj2/b1 --logfile b1/build.log kalign_3.3.5-1.dsc' - SUDO_GID='114' - SUDO_UID='108' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://10.0.0.15:3142/' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.ET7g3Qj2/pbuilderrc_kyuG --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.ET7g3Qj2/b2 --logfile b2/build.log --extrapackages usrmerge kalign_3.3.5-1.dsc' + SUDO_GID=113 + SUDO_UID=107 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://10.0.0.15:3142/ I: uname -a - Linux jtx1c 5.10.0-23-arm64 #1 SMP Debian 5.10.179-1 (2023-05-12) aarch64 GNU/Linux + Linux i-capture-the-hostname 5.10.0-23-armmp-lpae #1 SMP Debian 5.10.179-1 (2023-05-12) armv7l GNU/Linux I: ls -l /bin total 5072 - -rwxr-xr-x 1 root root 838488 Apr 23 09:24 bash - -rwxr-xr-x 3 root root 67144 Sep 18 2022 bunzip2 - -rwxr-xr-x 3 root root 67144 Sep 18 2022 bzcat - lrwxrwxrwx 1 root root 6 Sep 18 2022 bzcmp -> bzdiff - -rwxr-xr-x 1 root root 2225 Sep 18 2022 bzdiff - lrwxrwxrwx 1 root root 6 Sep 18 2022 bzegrep -> bzgrep - -rwxr-xr-x 1 root root 4893 Nov 27 2021 bzexe - lrwxrwxrwx 1 root root 6 Sep 18 2022 bzfgrep -> bzgrep - -rwxr-xr-x 1 root root 3775 Sep 18 2022 bzgrep - -rwxr-xr-x 3 root root 67144 Sep 18 2022 bzip2 - -rwxr-xr-x 1 root root 67112 Sep 18 2022 bzip2recover - lrwxrwxrwx 1 root root 6 Sep 18 2022 bzless -> bzmore - -rwxr-xr-x 1 root root 1297 Sep 18 2022 bzmore - -rwxr-xr-x 1 root root 67632 Sep 20 2022 cat - -rwxr-xr-x 1 root root 67676 Sep 20 2022 chgrp - -rwxr-xr-x 1 root root 67644 Sep 20 2022 chmod - -rwxr-xr-x 1 root root 67684 Sep 20 2022 chown - -rwxr-xr-x 1 root root 133532 Sep 20 2022 cp - -rwxr-xr-x 1 root root 132868 Jan 5 01:20 dash - -rwxr-xr-x 1 root root 133220 Sep 20 2022 date - -rwxr-xr-x 1 root root 67732 Sep 20 2022 dd - -rwxr-xr-x 1 root root 68104 Sep 20 2022 df - -rwxr-xr-x 1 root root 133632 Sep 20 2022 dir - -rwxr-xr-x 1 root root 59128 Mar 22 21:02 dmesg - lrwxrwxrwx 1 root root 8 Dec 19 01:33 dnsdomainname -> hostname - lrwxrwxrwx 1 root root 8 Dec 19 01:33 domainname -> hostname - -rwxr-xr-x 1 root root 67560 Sep 20 2022 echo - -rwxr-xr-x 1 root root 41 Jan 24 02:43 egrep - -rwxr-xr-x 1 root root 67548 Sep 20 2022 false - -rwxr-xr-x 1 root root 41 Jan 24 02:43 fgrep - -rwxr-xr-x 1 root root 55748 Mar 22 21:02 findmnt - -rwsr-xr-x 1 root root 26208 Mar 22 20:15 fusermount - -rwxr-xr-x 1 root root 128608 Jan 24 02:43 grep - -rwxr-xr-x 2 root root 2346 Apr 9 2022 gunzip - -rwxr-xr-x 1 root root 6447 Apr 9 2022 gzexe - -rwxr-xr-x 1 root root 64220 Apr 9 2022 gzip - -rwxr-xr-x 1 root root 67032 Dec 19 01:33 hostname - -rwxr-xr-x 1 root root 67720 Sep 20 2022 ln - -rwxr-xr-x 1 root root 35132 Mar 22 21:51 login - -rwxr-xr-x 1 root root 133632 Sep 20 2022 ls - -rwxr-xr-x 1 root root 136808 Mar 22 21:02 lsblk - -rwxr-xr-x 1 root root 67800 Sep 20 2022 mkdir - -rwxr-xr-x 1 root root 67764 Sep 20 2022 mknod - -rwxr-xr-x 1 root root 67596 Sep 20 2022 mktemp - -rwxr-xr-x 1 root root 38504 Mar 22 21:02 more - -rwsr-xr-x 1 root root 38496 Mar 22 21:02 mount - -rwxr-xr-x 1 root root 9824 Mar 22 21:02 mountpoint - -rwxr-xr-x 1 root root 133532 Sep 20 2022 mv - lrwxrwxrwx 1 root root 8 Dec 19 01:33 nisdomainname -> hostname - lrwxrwxrwx 1 root root 14 Apr 2 18:25 pidof -> /sbin/killall5 - -rwxr-xr-x 1 root root 67608 Sep 20 2022 pwd - lrwxrwxrwx 1 root root 4 Apr 23 09:24 rbash -> bash - -rwxr-xr-x 1 root root 67600 Sep 20 2022 readlink - -rwxr-xr-x 1 root root 67672 Sep 20 2022 rm - -rwxr-xr-x 1 root root 67600 Sep 20 2022 rmdir - -rwxr-xr-x 1 root root 67400 Nov 2 2022 run-parts - -rwxr-xr-x 1 root root 133372 Jan 5 07:55 sed - lrwxrwxrwx 1 root root 4 Jan 5 01:20 sh -> dash - -rwxr-xr-x 1 root root 67584 Sep 20 2022 sleep - -rwxr-xr-x 1 root root 67644 Sep 20 2022 stty - -rwsr-xr-x 1 root root 50800 Mar 22 21:02 su - -rwxr-xr-x 1 root root 67584 Sep 20 2022 sync - -rwxr-xr-x 1 root root 336764 Apr 6 02:25 tar - -rwxr-xr-x 1 root root 67144 Nov 2 2022 tempfile - -rwxr-xr-x 1 root root 133224 Sep 20 2022 touch - -rwxr-xr-x 1 root root 67548 Sep 20 2022 true - -rwxr-xr-x 1 root root 9768 Mar 22 20:15 ulockmgr_server - -rwsr-xr-x 1 root root 22108 Mar 22 21:02 umount - -rwxr-xr-x 1 root root 67572 Sep 20 2022 uname - -rwxr-xr-x 2 root root 2346 Apr 9 2022 uncompress - -rwxr-xr-x 1 root root 133632 Sep 20 2022 vdir - -rwxr-xr-x 1 root root 42608 Mar 22 21:02 wdctl - lrwxrwxrwx 1 root root 8 Dec 19 01:33 ypdomainname -> hostname - -rwxr-xr-x 1 root root 1984 Apr 9 2022 zcat - -rwxr-xr-x 1 root root 1678 Apr 9 2022 zcmp - -rwxr-xr-x 1 root root 6460 Apr 9 2022 zdiff - -rwxr-xr-x 1 root root 29 Apr 9 2022 zegrep - -rwxr-xr-x 1 root root 29 Apr 9 2022 zfgrep - -rwxr-xr-x 1 root root 2081 Apr 9 2022 zforce - -rwxr-xr-x 1 root root 8103 Apr 9 2022 zgrep - -rwxr-xr-x 1 root root 2206 Apr 9 2022 zless - -rwxr-xr-x 1 root root 1842 Apr 9 2022 zmore - -rwxr-xr-x 1 root root 4577 Apr 9 2022 znew -I: user script /srv/workspace/pbuilder/10623/tmp/hooks/D02_print_environment finished + -rwxr-xr-x 1 root root 838488 Apr 24 11:24 bash + -rwxr-xr-x 3 root root 67144 Sep 19 2022 bunzip2 + -rwxr-xr-x 3 root root 67144 Sep 19 2022 bzcat + lrwxrwxrwx 1 root root 6 Sep 19 2022 bzcmp -> bzdiff + -rwxr-xr-x 1 root root 2225 Sep 19 2022 bzdiff + lrwxrwxrwx 1 root root 6 Sep 19 2022 bzegrep -> bzgrep + -rwxr-xr-x 1 root root 4893 Nov 28 2021 bzexe + lrwxrwxrwx 1 root root 6 Sep 19 2022 bzfgrep -> bzgrep + -rwxr-xr-x 1 root root 3775 Sep 19 2022 bzgrep + -rwxr-xr-x 3 root root 67144 Sep 19 2022 bzip2 + -rwxr-xr-x 1 root root 67112 Sep 19 2022 bzip2recover + lrwxrwxrwx 1 root root 6 Sep 19 2022 bzless -> bzmore + -rwxr-xr-x 1 root root 1297 Sep 19 2022 bzmore + -rwxr-xr-x 1 root root 67632 Sep 21 2022 cat + -rwxr-xr-x 1 root root 67676 Sep 21 2022 chgrp + -rwxr-xr-x 1 root root 67644 Sep 21 2022 chmod + -rwxr-xr-x 1 root root 67684 Sep 21 2022 chown + -rwxr-xr-x 1 root root 133532 Sep 21 2022 cp + -rwxr-xr-x 1 root root 132868 Jan 6 03:20 dash + -rwxr-xr-x 1 root root 133220 Sep 21 2022 date + -rwxr-xr-x 1 root root 67732 Sep 21 2022 dd + -rwxr-xr-x 1 root root 68104 Sep 21 2022 df + -rwxr-xr-x 1 root root 133632 Sep 21 2022 dir + -rwxr-xr-x 1 root root 59128 Mar 23 23:02 dmesg + lrwxrwxrwx 1 root root 8 Dec 20 03:33 dnsdomainname -> hostname + lrwxrwxrwx 1 root root 8 Dec 20 03:33 domainname -> hostname + -rwxr-xr-x 1 root root 67560 Sep 21 2022 echo + -rwxr-xr-x 1 root root 41 Jan 25 04:43 egrep + -rwxr-xr-x 1 root root 67548 Sep 21 2022 false + -rwxr-xr-x 1 root root 41 Jan 25 04:43 fgrep + -rwxr-xr-x 1 root root 55748 Mar 23 23:02 findmnt + -rwsr-xr-x 1 root root 26208 Mar 23 22:15 fusermount + -rwxr-xr-x 1 root root 128608 Jan 25 04:43 grep + -rwxr-xr-x 2 root root 2346 Apr 10 2022 gunzip + -rwxr-xr-x 1 root root 6447 Apr 10 2022 gzexe + -rwxr-xr-x 1 root root 64220 Apr 10 2022 gzip + -rwxr-xr-x 1 root root 67032 Dec 20 03:33 hostname + -rwxr-xr-x 1 root root 67720 Sep 21 2022 ln + -rwxr-xr-x 1 root root 35132 Mar 23 23:51 login + -rwxr-xr-x 1 root root 133632 Sep 21 2022 ls + -rwxr-xr-x 1 root root 136808 Mar 23 23:02 lsblk + -rwxr-xr-x 1 root root 67800 Sep 21 2022 mkdir + -rwxr-xr-x 1 root root 67764 Sep 21 2022 mknod + -rwxr-xr-x 1 root root 67596 Sep 21 2022 mktemp + -rwxr-xr-x 1 root root 38504 Mar 23 23:02 more + -rwsr-xr-x 1 root root 38496 Mar 23 23:02 mount + -rwxr-xr-x 1 root root 9824 Mar 23 23:02 mountpoint + -rwxr-xr-x 1 root root 133532 Sep 21 2022 mv + lrwxrwxrwx 1 root root 8 Dec 20 03:33 nisdomainname -> hostname + lrwxrwxrwx 1 root root 14 Apr 3 20:25 pidof -> /sbin/killall5 + -rwxr-xr-x 1 root root 67608 Sep 21 2022 pwd + lrwxrwxrwx 1 root root 4 Apr 24 11:24 rbash -> bash + -rwxr-xr-x 1 root root 67600 Sep 21 2022 readlink + -rwxr-xr-x 1 root root 67672 Sep 21 2022 rm + -rwxr-xr-x 1 root root 67600 Sep 21 2022 rmdir + -rwxr-xr-x 1 root root 67400 Nov 3 2022 run-parts + -rwxr-xr-x 1 root root 133372 Jan 6 09:55 sed + lrwxrwxrwx 1 root root 9 Jun 9 20:46 sh -> /bin/bash + -rwxr-xr-x 1 root root 67584 Sep 21 2022 sleep + -rwxr-xr-x 1 root root 67644 Sep 21 2022 stty + -rwsr-xr-x 1 root root 50800 Mar 23 23:02 su + -rwxr-xr-x 1 root root 67584 Sep 21 2022 sync + -rwxr-xr-x 1 root root 336764 Apr 7 04:25 tar + -rwxr-xr-x 1 root root 67144 Nov 3 2022 tempfile + -rwxr-xr-x 1 root root 133224 Sep 21 2022 touch + -rwxr-xr-x 1 root root 67548 Sep 21 2022 true + -rwxr-xr-x 1 root root 9768 Mar 23 22:15 ulockmgr_server + -rwsr-xr-x 1 root root 22108 Mar 23 23:02 umount + -rwxr-xr-x 1 root root 67572 Sep 21 2022 uname + -rwxr-xr-x 2 root root 2346 Apr 10 2022 uncompress + -rwxr-xr-x 1 root root 133632 Sep 21 2022 vdir + -rwxr-xr-x 1 root root 42608 Mar 23 23:02 wdctl + lrwxrwxrwx 1 root root 8 Dec 20 03:33 ypdomainname -> hostname + -rwxr-xr-x 1 root root 1984 Apr 10 2022 zcat + -rwxr-xr-x 1 root root 1678 Apr 10 2022 zcmp + -rwxr-xr-x 1 root root 6460 Apr 10 2022 zdiff + -rwxr-xr-x 1 root root 29 Apr 10 2022 zegrep + -rwxr-xr-x 1 root root 29 Apr 10 2022 zfgrep + -rwxr-xr-x 1 root root 2081 Apr 10 2022 zforce + -rwxr-xr-x 1 root root 8103 Apr 10 2022 zgrep + -rwxr-xr-x 1 root root 2206 Apr 10 2022 zless + -rwxr-xr-x 1 root root 1842 Apr 10 2022 zmore + -rwxr-xr-x 1 root root 4577 Apr 10 2022 znew +I: user script /srv/workspace/pbuilder/12248/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -245,7 +277,7 @@ Get: 47 http://deb.debian.org/debian bookworm/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 48 http://deb.debian.org/debian bookworm/main armhf debhelper all 13.11.4 [942 kB] Get: 49 http://deb.debian.org/debian bookworm/main armhf libsimde-dev all 0.7.4~rc2-2 [377 kB] -Fetched 27.4 MB in 2s (11.4 MB/s) +Fetched 27.4 MB in 1s (32.3 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libproc2-0:armhf. (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 ... 19324 files and directories currently installed.) @@ -455,8 +487,19 @@ 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/12248/tmp/hooks/A99_set_merged_usr starting +Re-configuring usrmerge... +removed '/etc/unsupported-skip-usrmerge-conversion' +The system has been successfully converted. +I: user script /srv/workspace/pbuilder/12248/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +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 @@ -524,121 +567,117 @@ debian/rules override_dh_auto_build make[1]: Entering directory '/build/kalign-3.3.5' dh_auto_build - cd obj-arm-linux-gnueabihf && make -j3 "INSTALL=install --strip-program=true" VERBOSE=1 + cd obj-arm-linux-gnueabihf && make -j4 "INSTALL=install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/build/kalign-3.3.5 -B/build/kalign-3.3.5/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/kalign-3.3.5/obj-arm-linux-gnueabihf/CMakeFiles /build/kalign-3.3.5/obj-arm-linux-gnueabihf//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' make -f lib/CMakeFiles/kalign_OBJ.dir/build.make lib/CMakeFiles/kalign_OBJ.dir/depend -make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' make -f lib/CMakeFiles/tldevel.dir/build.make lib/CMakeFiles/tldevel.dir/depend -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib/CMakeFiles/kalign_OBJ.dir/DependInfo.cmake --color= -make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' make -f lib/CMakeFiles/bpm_utest.dir/build.make lib/CMakeFiles/bpm_utest.dir/depend +make -f lib/CMakeFiles/alphabet_utest.dir/build.make lib/CMakeFiles/alphabet_utest.dir/depend +make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib/CMakeFiles/tldevel.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib/CMakeFiles/bpm_utest.dir/DependInfo.cmake --color= -make[4]: Leaving directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' -make -f lib/CMakeFiles/kalign_OBJ.dir/build.make lib/CMakeFiles/kalign_OBJ.dir/build make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' +make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib/CMakeFiles/alphabet_utest.dir/DependInfo.cmake --color= +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib/CMakeFiles/kalign_OBJ.dir/DependInfo.cmake --color= +make[4]: Leaving directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' -make -f lib/CMakeFiles/bpm_utest.dir/build.make lib/CMakeFiles/bpm_utest.dir/build make[4]: Leaving directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' -make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' make -f lib/CMakeFiles/tldevel.dir/build.make lib/CMakeFiles/tldevel.dir/build +make[4]: Leaving directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' +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/alphabet_utest.dir/build.make lib/CMakeFiles/alphabet_utest.dir/build +make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' +make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' +make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' -[ 1%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/test.c.o -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 [ 2%] Building C object lib/CMakeFiles/tldevel.dir/src/tldevel.c.o -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -[ 4%] Building C object lib/CMakeFiles/bpm_utest.dir/src/tldevel.c.o +[ 2%] Building C object lib/CMakeFiles/bpm_utest.dir/src/tldevel.c.o +[ 4%] Building C object lib/CMakeFiles/alphabet_utest.dir/src/tldevel.c.o cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -[ 5%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/tldevel.c.o +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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-arm-linux-gnueabihf/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 +[ 5%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/test.c.o +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 +[ 7%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/tldevel.c.o cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -[ 7%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/tlmisc.c.o -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 [ 8%] Building C object lib/CMakeFiles/bpm_utest.dir/src/tlrng.c.o cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -[ 10%] Building C object lib/CMakeFiles/tldevel.dir/src/tlmisc.c.o +[ 10%] Building C object lib/CMakeFiles/alphabet_utest.dir/src/alphabet.c.o +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 +[ 11%] Building C object lib/CMakeFiles/tldevel.dir/src/tlmisc.c.o cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 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/build/kalign-3.3.5/lib/src/esl_stopwatch.c -[ 17%] Building C object lib/CMakeFiles/bpm_utest.dir/src/alphabet.c.o +[ 15%] Building C object lib/CMakeFiles/tldevel.dir/src/tlrng.c.o +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 +[ 17%] Linking C executable alphabet_utest +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/alphabet_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 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-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 -[ 18%] Building C object lib/CMakeFiles/tldevel.dir/src/esl_stopwatch.c.o -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -[ 20%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_alloc.c.o -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -[ 21%] Linking C static library libtldevel.a -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cmake -P CMakeFiles/tldevel.dir/cmake_clean_target.cmake -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/tldevel.dir/link.txt --verbose=1 -/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-arm-linux-gnueabihf' -[ 21%] Built target tldevel -make -f lib/CMakeFiles/alphabet_utest.dir/build.make lib/CMakeFiles/alphabet_utest.dir/depend -make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib/CMakeFiles/alphabet_utest.dir/DependInfo.cmake --color= -[ 22%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_op.c.o -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -make[4]: Leaving directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' -make -f lib/CMakeFiles/alphabet_utest.dir/build.make lib/CMakeFiles/alphabet_utest.dir/build -make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' -[ 24%] Building C object lib/CMakeFiles/bpm_utest.dir/src/bpm.c.o -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -[ 25%] Building C object lib/CMakeFiles/alphabet_utest.dir/src/tldevel.c.o -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -[ 27%] Building C object lib/CMakeFiles/bpm_utest.dir/src/bpm_test.c.o -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -[ 28%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_io.c.o -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -[ 30%] Linking C executable bpm_utest -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 make[4]: Leaving directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' -[ 30%] Built target bpm_utest +[ 20%] Built target alphabet_utest make -f lib/CMakeFiles/edist_utest.dir/build.make lib/CMakeFiles/edist_utest.dir/depend make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib/CMakeFiles/edist_utest.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' make -f lib/CMakeFiles/edist_utest.dir/build.make lib/CMakeFiles/edist_utest.dir/build make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' -[ 31%] Building C object lib/CMakeFiles/edist_utest.dir/src/tldevel.c.o +[ 21%] Building C object lib/CMakeFiles/edist_utest.dir/src/tldevel.c.o cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -[ 32%] Building C object lib/CMakeFiles/alphabet_utest.dir/src/alphabet.c.o -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -[ 34%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_misc.c.o -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -[ 35%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_check.c.o -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -[ 37%] Linking C executable alphabet_utest -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/alphabet_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/alphabet_utest.dir/src/tldevel.c.o CMakeFiles/alphabet_utest.dir/src/alphabet.c.o -o alphabet_utest +[ 22%] Building C object lib/CMakeFiles/tldevel.dir/src/esl_stopwatch.c.o +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 +[ 24%] Building C object lib/CMakeFiles/bpm_utest.dir/src/bpm.c.o +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 +[ 25%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/esl_stopwatch.c.o +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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%] Linking C static library libtldevel.a +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cmake -P CMakeFiles/tldevel.dir/cmake_clean_target.cmake +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/tldevel.dir/link.txt --verbose=1 +/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-arm-linux-gnueabihf' -[ 37%] Built target alphabet_utest +[ 27%] Built target tldevel make -f lib/CMakeFiles/task_utest.dir/build.make lib/CMakeFiles/task_utest.dir/depend make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib/CMakeFiles/task_utest.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' 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-arm-linux-gnueabihf' -[ 38%] Building C object lib/CMakeFiles/task_utest.dir/src/tldevel.c.o +[ 28%] Building C object lib/CMakeFiles/task_utest.dir/src/tldevel.c.o cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -[ 40%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_cmp.c.o -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -[ 41%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/alphabet.c.o -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -[ 42%] Building C object lib/CMakeFiles/edist_utest.dir/src/tlrng.c.o +[ 30%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_alloc.c.o +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 +[ 31%] Building C object lib/CMakeFiles/bpm_utest.dir/src/bpm_test.c.o +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 +[ 32%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_op.c.o +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 +[ 34%] Linking C executable bpm_utest +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 +make[4]: Leaving directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' +[ 34%] Built target bpm_utest +[ 35%] Building C object lib/CMakeFiles/task_utest.dir/src/tlrng.c.o +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 +[ 37%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_io.c.o +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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/edist_utest.dir/src/tlrng.c.o cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -[ 44%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/task.c.o -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 +[ 40%] Building C object lib/CMakeFiles/task_utest.dir/src/task.c.o +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 +[ 41%] Building C object lib/CMakeFiles/edist_utest.dir/src/esl_stopwatch.c.o +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 /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); @@ -646,29 +685,36 @@ /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); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -[ 45%] Building C object lib/CMakeFiles/edist_utest.dir/src/esl_stopwatch.c.o -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -[ 47%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/bisectingKmeans.c.o -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -[ 48%] Building C object lib/CMakeFiles/edist_utest.dir/src/euclidean_dist.c.o +[ 42%] Building C object lib/CMakeFiles/edist_utest.dir/src/euclidean_dist.c.o cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 +[ 44%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_misc.c.o +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 +[ 45%] Linking C executable task_utest +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/task_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/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 /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/kalign_OBJ.dir/src/msa_check.c.o +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 +make[4]: Leaving directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' +[ 47%] Built target task_utest +[ 48%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_cmp.c.o +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 executable edist_utest cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 make[4]: Leaving directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' [ 50%] Built target edist_utest -[ 51%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/sequence_distance.c.o +[ 51%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/alphabet.c.o +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 +[ 54%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/bisectingKmeans.c.o +[ 54%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/task.c.o +[ 55%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/sequence_distance.c.o +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -[ 52%] Building C object lib/CMakeFiles/task_utest.dir/src/tlrng.c.o -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -[ 54%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/bpm.c.o -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -[ 55%] Building C object lib/CMakeFiles/task_utest.dir/src/task.c.o -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 /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); @@ -676,17 +722,14 @@ /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/euclidean_dist.c.o +[ 57%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/bpm.c.o +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/pick_anchor.c.o +[ 60%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/pick_anchor.c.o cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -[ 60%] Linking C executable task_utest -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/task_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/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 [ 61%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_wrap.c.o cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -make[4]: Leaving directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' -[ 61%] Built target task_utest [ 62%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_param.c.o cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 @@ -708,119 +751,121 @@ make[4]: Leaving directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' [ 74%] Built target kalign_OBJ make -f lib/CMakeFiles/kalign.dir/build.make lib/CMakeFiles/kalign.dir/depend -make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' make -f lib/CMakeFiles/kalign_static.dir/build.make lib/CMakeFiles/kalign_static.dir/depend +make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib/CMakeFiles/kalign.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib/CMakeFiles/kalign_static.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' -make -f lib/CMakeFiles/kalign.dir/build.make lib/CMakeFiles/kalign.dir/build -make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' -[ 75%] Linking C static library libkalign.a -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cmake -P CMakeFiles/kalign.dir/cmake_clean_target.cmake make[4]: Leaving directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' 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-arm-linux-gnueabihf' make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' +[ 77%] Linking C static library libkalign_static.a +[ 77%] Linking C static library libkalign.a +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cmake -P CMakeFiles/kalign.dir/cmake_clean_target.cmake +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cmake -P CMakeFiles/kalign_static.dir/cmake_clean_target.cmake +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/kalign_static.dir/link.txt --verbose=1 cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/kalign.dir/link.txt --verbose=1 /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 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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_static.a /usr/bin/ranlib libkalign.a -[ 77%] Linking C static library libkalign_static.a -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cmake -P CMakeFiles/kalign_static.dir/cmake_clean_target.cmake make[4]: Leaving directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/kalign_static.dir/link.txt --verbose=1 +make[4]: Leaving directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' +[ 77%] Built target kalign_static [ 77%] Built target kalign make -f src/CMakeFiles/kalignfmt.dir/build.make src/CMakeFiles/kalignfmt.dir/depend -make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' 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-arm-linux-gnueabihf' cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/kalign-3.3.5/obj-arm-linux-gnueabihf/src /build/kalign-3.3.5/obj-arm-linux-gnueabihf/src/CMakeFiles/kalignfmt.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/kalign-3.3.5/obj-arm-linux-gnueabihf/tests /build/kalign-3.3.5/obj-arm-linux-gnueabihf/tests/CMakeFiles/kalign_io_test.dir/DependInfo.cmake --color= -/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 -make[4]: Leaving directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' -make -f src/CMakeFiles/kalignfmt.dir/build.make src/CMakeFiles/kalignfmt.dir/build make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' -make[4]: Leaving directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' -make -f tests/CMakeFiles/kalign_io_test.dir/build.make tests/CMakeFiles/kalign_io_test.dir/build +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/kalign-3.3.5/obj-arm-linux-gnueabihf/tests /build/kalign-3.3.5/obj-arm-linux-gnueabihf/tests/CMakeFiles/kalign_lib_test.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' -/usr/bin/ranlib libkalign_static.a -[ 78%] Building C object src/CMakeFiles/kalignfmt.dir/run_reformat.c.o -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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-arm-linux-gnueabihf/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 -[ 80%] Building C object tests/CMakeFiles/kalign_io_test.dir/kalign_io_test.c.o -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/tests && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/lib/include -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/kalign-3.3.5/obj-arm-linux-gnueabihf/tests /build/kalign-3.3.5/obj-arm-linux-gnueabihf/tests/CMakeFiles/kalign_cmp_test.dir/DependInfo.cmake --color= +make[4]: Leaving directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' -[ 80%] Built target kalign_static -make -f tests/CMakeFiles/kalign_lib_test.dir/build.make tests/CMakeFiles/kalign_lib_test.dir/depend -make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf && /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-arm-linux-gnueabihf /build/kalign-3.3.5/obj-arm-linux-gnueabihf/tests /build/kalign-3.3.5/obj-arm-linux-gnueabihf/tests/CMakeFiles/kalign_lib_test.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' +make[4]: Leaving directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' +make -f src/CMakeFiles/kalignfmt.dir/build.make src/CMakeFiles/kalignfmt.dir/build +make -f tests/CMakeFiles/kalign_io_test.dir/build.make tests/CMakeFiles/kalign_io_test.dir/build make -f tests/CMakeFiles/kalign_lib_test.dir/build.make tests/CMakeFiles/kalign_lib_test.dir/build +make -f tests/CMakeFiles/kalign_cmp_test.dir/build.make tests/CMakeFiles/kalign_cmp_test.dir/build make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' -[ 81%] Linking C executable kalign_io_test -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/kalign_io_test.dir/link.txt --verbose=1 +make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' +make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' +make[4]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' +[ 82%] Building C object src/CMakeFiles/kalignfmt.dir/run_reformat.c.o +[ 82%] Building C object tests/CMakeFiles/kalign_cmp_test.dir/kalign_cmp_test.c.o [ 82%] Building C object tests/CMakeFiles/kalign_lib_test.dir/kalign_lib_test.c.o +[ 82%] Building C object tests/CMakeFiles/kalign_io_test.dir/kalign_io_test.c.o +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/tests && /usr/bin/cc -DHAVE_OPENMP -I/build/kalign-3.3.5/lib/include -I/build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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-arm-linux-gnueabihf/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 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'/build/kalign-3.3.5/obj-arm-linux-gnueabihf' [ 95%] Building C object src/CMakeFiles/kalign-bin.dir/parameters.c.o cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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-arm-linux-gnueabihf/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 -[ 97%] Linking C executable kalign +[ 95%] Built target kalignfmt +[ 97%] Linking C executable largebench +cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/largebench.dir/link.txt --verbose=1 +[ 98%] Linking C executable kalign +/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 cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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-arm-linux-gnueabihf' -[ 97%] Built target kalign-bin -[ 98%] Linking C executable largebench -cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 largebench +make[4]: Leaving directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' +[ 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", @@ -834,8 +879,6 @@ /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", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -make[4]: Leaving directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' -[ 98%] Built target largebench [100%] Linking CXX executable kaligncpp cd /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 @@ -848,10 +891,10 @@ debian/rules override_dh_auto_test make[1]: Entering directory '/build/kalign-3.3.5' dh_auto_test - cd obj-arm-linux-gnueabihf && make -j3 test ARGS\+=--verbose ARGS\+=-j3 + cd obj-arm-linux-gnueabihf && make -j4 test ARGS\+=--verbose ARGS\+=-j4 make[2]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' Running tests... -/usr/bin/ctest --force-new-ctest-process --verbose -j3 +/usr/bin/ctest --force-new-ctest-process --verbose -j4 UpdateCTestConfiguration from :/build/kalign-3.3.5/obj-arm-linux-gnueabihf/DartConfiguration.tcl Parse Config file:/build/kalign-3.3.5/obj-arm-linux-gnueabihf/DartConfiguration.tcl UpdateCTestConfiguration from :/build/kalign-3.3.5/obj-arm-linux-gnueabihf/DartConfiguration.tcl @@ -881,8 +924,14 @@ 3: Test command: /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib/edist_utest 3: Working Directory: /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib 3: Test timeout computed to be: 1500 +test 4 + Start 4: task_utest + +4: Test command: /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib/task_utest +4: Working Directory: /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib +4: Test timeout computed to be: 1500 1: LEN: 256 -1: [2023-06-08 18:44:32] : LOG : Testing correctness of serial bpm. +1: [2023-06-09 20:47:03] : LOG : Testing correctness of serial bpm. 2: LEN: 21 2: @ -1 2: A 0 @@ -1015,78 +1064,70 @@ 2: ] -1 2: ^ -1 2: _ -1 -3: [2023-06-08 18:44:32] : LOG : Check for correctness. -3: [2023-06-08 18:44:32] : LOG : Timing serial - 1/11 Test #2: alphabet_utest ................... Passed 0.03 sec -test 4 - Start 4: task_utest - -4: Test command: /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib/task_utest -4: Working Directory: /build/kalign-3.3.5/obj-arm-linux-gnueabihf/lib -4: Test timeout computed to be: 1500 -4: 438 35 337 999 311 -4: 475 62 60 209 17 -4: 199 442 273 496 64 -4: 825 305 193 723 395 -4: 210 366 956 762 557 -4: 359 549 603 241 305 -4: 680 529 207 419 56 -4: 728 870 836 390 1 -4: 605 561 650 226 969 -4: 367 521 27 46 915 -4: 404 564 230 393 194 -4: 553 872 563 679 315 -4: 141 841 882 381 881 -4: 633 681 466 798 447 -4: 627 674 884 450 350 -4: 581 858 186 733 887 -4: 255 40 555 928 774 -4: 497 696 971 438 944 -4: 956 716 289 897 559 -4: 52 358 156 324 347 -4: 25 176 149 288 625 -4: 758 214 666 277 655 -4: 813 435 586 648 1 -4: 908 226 899 944 963 -4: 136 647 280 449 197 -4: 431 986 282 189 16 -4: 735 543 877 225 922 -4: 28 202 570 534 557 -4: 530 144 202 204 341 -4: 285 599 606 160 339 -4: 162 617 917 412 358 -4: 640 775 298 98 132 -4: 633 147 105 527 666 -4: 70 891 397 174 665 -4: 753 505 765 165 673 -4: 935 668 36 81 526 -4: 504 670 611 659 122 -4: 964 944 271 366 982 -4: 583 353 394 675 888 -4: 464 656 914 720 310 -4: 491 443 501 503 266 -4: 747 201 878 617 742 -4: 951 818 419 306 795 -4: 451 70 562 728 361 -4: 359 607 771 286 850 -4: 131 588 108 579 308 -4: 588 74 956 886 854 -4: 716 516 287 96 711 -4: 841 993 512 269 736 -4: 204 226 753 316 119 -4: 855 185 688 951 517 -4: 9 105 153 414 948 -4: 411 826 801 623 204 -4: 286 333 412 902 325 - 2/11 Test #4: task_utest ....................... Passed 0.01 sec +3: [2023-06-09 20:47:03] : LOG : Check for correctness. +3: [2023-06-09 20:47:03] : LOG : Timing serial + 1/11 Test #2: alphabet_utest ................... Passed 0.01 sec test 5 Start 5: C++Lib 5: Test command: /build/kalign-3.3.5/obj-arm-linux-gnueabihf/tests/kaligncpp 5: Working Directory: /build/kalign-3.3.5/tests 5: Test timeout computed to be: 1500 -3: [2023-06-08 18:44:32] : LOG : CPU Time: 0.01u 00:00:00.01 Elapsed: 00:00:00.00 - 3/11 Test #3: edist_utest ...................... Passed 0.06 sec +4: 896 181 892 154 916 +4: 266 872 213 250 606 +4: 323 601 913 864 402 +4: 117 910 255 824 399 +4: 183 704 1 277 97 +4: 705 61 847 720 402 +4: 797 352 16 218 935 +4: 899 45 27 678 295 +4: 623 229 502 987 776 +4: 919 507 177 280 938 +4: 363 229 585 741 983 +4: 814 308 641 271 98 +4: 818 988 99 595 661 +4: 533 509 245 793 5 +4: 668 864 327 558 423 +4: 521 738 986 706 209 +4: 496 169 593 262 329 +4: 783 641 350 77 596 +4: 501 367 39 881 539 +4: 564 39 265 170 899 +4: 587 245 403 286 603 +4: 10 870 780 283 453 +4: 650 202 638 87 968 +4: 259 183 443 319 169 +4: 53 818 266 848 791 +4: 171 689 322 197 409 +4: 779 938 725 825 226 +4: 9 556 921 131 338 +4: 283 617 973 586 95 +4: 821 488 934 906 338 +4: 331 620 245 689 401 +4: 224 89 418 595 656 +4: 197 508 919 62 825 +4: 118 37 460 122 926 +4: 328 478 128 946 58 +4: 948 809 127 464 904 +4: 700 870 938 182 959 +4: 235 108 918 753 525 +4: 896 434 219 910 671 +4: 258 242 486 840 240 +4: 814 844 23 437 268 +4: 3 257 20 390 230 +4: 139 680 453 92 734 +4: 835 450 168 390 457 +4: 23 39 272 662 910 +4: 826 275 466 765 492 +4: 21 793 31 669 799 +4: 775 620 498 404 720 +4: 727 680 385 803 823 +4: 995 620 137 329 907 +4: 331 372 181 998 476 +4: 319 754 707 758 147 +4: 346 660 869 686 570 +4: 36 835 333 82 41 + 2/11 Test #4: task_utest ....................... Passed 0.01 sec test 6 Start 6: kalign_itest_BB11001.tfa @@ -1109,27 +1150,28 @@ 6: Bioinformatics (2019) 6: https://doi.org/10.1093/bioinformatics/btz795 6: -6: [2023-06-08 18:44:32] : LOG : Detected protein sequences. -6: [2023-06-08 18:44:32] : LOG : Read 4 sequences from /build/kalign-3.3.5/tests/data/BB11001.tfa. -6: [2023-06-08 18:44:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -6: [2023-06-08 18:44:32] : LOG : Calculating pairwise distances -5: Aligned: -5: ------GKGDPKKPRGKMSSYAFFVQTSREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMKTYIPP---------- -5: ------------MQDRVKRPMNAFIVWSRDQRRKMAL-EN-PRMR-NS-EISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREK---YPNYKYRP- -5: MKKLKKHPDFPKKPLTPYFRFFMEKRAKYAKLHPEMS--N-L-DLTKILSKKYKELPEKKKMKYIQDFQREKQEFERNLARFREDHPDLIQNA--- -5: ----------------MHIKKPLNAFMLYMKEMRANV-VA-ESTLKE-SA-AINQILGRRWHALSREEQAKYYELARKERQLHMQLYPGWSARDNY - 4/11 Test #5: C++Lib ........................... Passed 0.06 sec +6: [2023-06-09 20:47:03] : LOG : Detected protein sequences. +6: [2023-06-09 20:47:03] : LOG : Read 4 sequences from /build/kalign-3.3.5/tests/data/BB11001.tfa. +6: [2023-06-09 20:47:03] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +6: [2023-06-09 20:47:03] : LOG : Calculating pairwise distances +6: [2023-06-09 20:47:03] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +6: [2023-06-09 20:47:03] : LOG : Building guide tree. +3: [2023-06-09 20:47:03] : LOG : CPU Time: 0.02u 00:00:00.01 Elapsed: 00:00:00.00 +6: [2023-06-09 20:47:03] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +6: [2023-06-09 20:47:03] : LOG : Aligning + 3/11 Test #3: edist_utest ...................... Passed 0.02 sec test 7 Start 7: kalign_itest_BB11001_EOF.msf 7: Test command: /build/kalign-3.3.5/obj-arm-linux-gnueabihf/src/kalign "/build/kalign-3.3.5/tests/data/BB11001_EOF.msf" 7: Working Directory: /build/kalign-3.3.5/tests 7: Test timeout computed to be: 1500 -6: [2023-06-08 18:44:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -6: [2023-06-08 18:44:32] : LOG : Building guide tree. -6: [2023-06-08 18:44:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -6: [2023-06-08 18:44:32] : LOG : Aligning -6: [2023-06-08 18:44:32] : LOG : CPU Time: 0.01u 00:00:00.00 Elapsed: 00:00:00.00 +5: Aligned: +5: ------GKGDPKKPRGKMSSYAFFVQTSREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMKTYIPP---------- +5: ------------MQDRVKRPMNAFIVWSRDQRRKMAL-EN-PRMR-NS-EISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREK---YPNYKYRP- +5: MKKLKKHPDFPKKPLTPYFRFFMEKRAKYAKLHPEMS--N-L-DLTKILSKKYKELPEKKKMKYIQDFQREKQEFERNLARFREDHPDLIQNA--- +5: ----------------MHIKKPLNAFMLYMKEMRANV-VA-ESTLKE-SA-AINQILGRRWHALSREEQAKYYELARKERQLHMQLYPGWSARDNY +6: [2023-06-09 20:47:03] : LOG : CPU Time: 0.01u 00:00:00.00 Elapsed: 00:00:00.00 6: >1aab_ 6: ---GKGDPKKPRGKMSSYAFFVQTSREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKG 6: KFEDMAKADKARYEREMKTYIPPKGE---------- @@ -1142,6 +1184,20 @@ 6: >2lef_A 6: --------MHIKKPLNAFMLYMKEMRANVVAESTLKE-SA-AINQILGRRWHALSREEQA 6: KYYELARKERQLHMQLYPGWSARDNYGKKKKRKREK + 4/11 Test #5: C++Lib ........................... Passed 0.02 sec +test 8 + Start 8: kalign_itest_BB12006.msf + +8: Test command: /build/kalign-3.3.5/obj-arm-linux-gnueabihf/src/kalign "/build/kalign-3.3.5/tests/data/BB12006.msf" +8: Working Directory: /build/kalign-3.3.5/tests +8: Test timeout computed to be: 1500 + 5/11 Test #6: kalign_itest_BB11001.tfa ......... Passed 0.02 sec +test 9 + Start 9: kalign_itest_BB12006.tfa + +9: Test command: /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 7: 7: Kalign (3.3.5) 7: @@ -1158,21 +1214,12 @@ 7: Bioinformatics (2019) 7: https://doi.org/10.1093/bioinformatics/btz795 7: -7: [2023-06-08 18:44:32] : LOG : Detected protein sequences. -7: [2023-06-08 18:44:32] : LOG : Read 4 sequences from /build/kalign-3.3.5/tests/data/BB11001_EOF.msf. -7: [2023-06-08 18:44:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -7: [2023-06-08 18:44:32] : LOG : Calculating pairwise distances - 5/11 Test #6: kalign_itest_BB11001.tfa ......... Passed 0.06 sec -test 8 - Start 8: kalign_itest_BB12006.msf - -8: Test command: /build/kalign-3.3.5/obj-arm-linux-gnueabihf/src/kalign "/build/kalign-3.3.5/tests/data/BB12006.msf" -8: Working Directory: /build/kalign-3.3.5/tests -8: Test timeout computed to be: 1500 -7: [2023-06-08 18:44:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -7: [2023-06-08 18:44:32] : LOG : Building guide tree. -7: [2023-06-08 18:44:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -7: [2023-06-08 18:44:32] : LOG : Aligning +7: [2023-06-09 20:47:03] : LOG : Detected protein sequences. +7: [2023-06-09 20:47:03] : LOG : Read 4 sequences from /build/kalign-3.3.5/tests/data/BB11001_EOF.msf. +7: [2023-06-09 20:47:03] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +7: [2023-06-09 20:47:03] : LOG : Calculating pairwise distances +7: [2023-06-09 20:47:03] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +7: [2023-06-09 20:47:03] : LOG : Building guide tree. 8: 8: Kalign (3.3.5) 8: @@ -1189,32 +1236,12 @@ 8: Bioinformatics (2019) 8: https://doi.org/10.1093/bioinformatics/btz795 8: -8: [2023-06-08 18:44:32] : LOG : Detected protein sequences. -8: [2023-06-08 18:44:32] : LOG : Read 4 sequences from /build/kalign-3.3.5/tests/data/BB12006.msf. -8: [2023-06-08 18:44:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -8: [2023-06-08 18:44:32] : LOG : Calculating pairwise distances -7: [2023-06-08 18:44:32] : 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 - 6/11 Test #7: kalign_itest_BB11001_EOF.msf ..... Passed 0.05 sec -test 9 - Start 9: kalign_itest_BB12006.tfa - -9: Test command: /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -8: [2023-06-08 18:44:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -8: [2023-06-08 18:44:32] : LOG : Building guide tree. +8: [2023-06-09 20:47:03] : LOG : Detected protein sequences. +8: [2023-06-09 20:47:03] : LOG : Read 4 sequences from /build/kalign-3.3.5/tests/data/BB12006.msf. +8: [2023-06-09 20:47:03] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +8: [2023-06-09 20:47:03] : LOG : Calculating pairwise distances +7: [2023-06-09 20:47:03] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +7: [2023-06-09 20:47:03] : LOG : Aligning 9: 9: Kalign (3.3.5) 9: @@ -1231,17 +1258,59 @@ 9: Bioinformatics (2019) 9: https://doi.org/10.1093/bioinformatics/btz795 9: -9: [2023-06-08 18:44:32] : LOG : Detected protein sequences. -9: [2023-06-08 18:44:32] : LOG : Read 4 sequences from /build/kalign-3.3.5/tests/data/BB12006.tfa. -9: [2023-06-08 18:44:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -9: [2023-06-08 18:44:32] : LOG : Calculating pairwise distances -8: [2023-06-08 18:44:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -8: [2023-06-08 18:44:32] : LOG : Aligning -9: [2023-06-08 18:44:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -9: [2023-06-08 18:44:32] : LOG : Building guide tree. -9: [2023-06-08 18:44:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -9: [2023-06-08 18:44:32] : LOG : Aligning -8: [2023-06-08 18:44:32] : LOG : CPU Time: 0.01u 00:00:00.00 Elapsed: 00:00:00.00 +9: [2023-06-09 20:47:03] : LOG : Detected protein sequences. +9: [2023-06-09 20:47:03] : LOG : Read 4 sequences from /build/kalign-3.3.5/tests/data/BB12006.tfa. +9: [2023-06-09 20:47:03] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +9: [2023-06-09 20:47:03] : LOG : Calculating pairwise distances +8: [2023-06-09 20:47:03] : LOG : CPU Time: 0.01u 00:00:00.00 Elapsed: 00:00:00.00 +8: [2023-06-09 20:47:03] : LOG : Building guide tree. +8: [2023-06-09 20:47:03] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +8: [2023-06-09 20:47:03] : LOG : Aligning +7: [2023-06-09 20:47:03] : LOG : CPU Time: 0.01u 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 + 6/11 Test #7: kalign_itest_BB11001_EOF.msf ..... Passed 0.02 sec +test 10 + Start 10: kalign_itest_BB30014.msf + +10: Test command: /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 +9: [2023-06-09 20:47:03] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +9: [2023-06-09 20:47:03] : LOG : Building guide tree. +10: +10: Kalign (3.3.5) +10: +10: Copyright (C) 2006,2019,2020,2021 Timo Lassmann +10: +10: This program comes with ABSOLUTELY NO WARRANTY; for details type: +10: `kalign -showw'. +10: This is free software, and you are welcome to redistribute it +10: under certain conditions; consult the COPYING file for details. +10: +10: Please cite: +10: Lassmann, Timo. +10: "Kalign 3: multiple sequence alignment of large data sets." +10: Bioinformatics (2019) +10: https://doi.org/10.1093/bioinformatics/btz795 +10: +10: [2023-06-09 20:47:03] : LOG : Detected protein sequences. +10: [2023-06-09 20:47:03] : LOG : Read 4 sequences from /build/kalign-3.3.5/tests/data/BB12006.tfa. +10: [2023-06-09 20:47:03] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +10: [2023-06-09 20:47:03] : LOG : Calculating pairwise distances +9: [2023-06-09 20:47:03] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +9: [2023-06-09 20:47:03] : LOG : Aligning +8: [2023-06-09 20:47:03] : LOG : CPU Time: 0.02u 00:00:00.01 Elapsed: 00:00:00.00 8: >1al2_ad 8: G-LPVMNTPGSNQYLTADNFQSPCALPEFDVTPPIDIPGEVKNMMELAEI-DTMIPFDLS 8: ATKKNTMEMYRVRLSDKPHTDDPILCLSLSPASDPRLSHTMLGEILNYYTHWAGSLKFTF @@ -1266,14 +1335,16 @@ 8: VFTGTAMMKGKFLIAYTPPGAGKPTSRDQAMQATYAIWDLGLNSSYSFTVPFISPTHFRM 8: VGTDQA--NITNVDGWVTVWQLTPLTYPPGCPTSAKILTMVSAGKDFSLKMPISPAPWSP 8: Q---- - 7/11 Test #8: kalign_itest_BB12006.msf ......... Passed 0.08 sec -test 10 - Start 10: kalign_itest_BB30014.msf + 7/11 Test #8: kalign_itest_BB12006.msf ......... Passed 0.03 sec +test 11 + Start 11: kalign_itest_BB30014.tfa -10: Test command: /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -9: [2023-06-08 18:44:32] : LOG : CPU Time: 0.01u 00:00:00.00 Elapsed: 00:00:00.00 +11: Test command: /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 +10: [2023-06-09 20:47:03] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +10: [2023-06-09 20:47:03] : LOG : Building guide tree. +9: [2023-06-09 20:47:03] : LOG : CPU Time: 0.02u 00:00:00.01 Elapsed: 00:00:00.00 9: >1al2_ad 9: G-LPVMNTPGSNQYLTADNFQSPCALPEFDVTPPIDIPGEVKNMMELAEI-DTMIPFDLS 9: ATKKNTMEMYRVRLSDKPHTDDPILCLSLSPASDPRLSHTMLGEILNYYTHWAGSLKFTF @@ -1298,33 +1369,8 @@ 9: VFTGTAMMKGKFLIAYTPPGAGKPTSRDQAMQATYAIWDLGLNSSYSFTVPFISPTHFRM 9: VGTDQA--NITNVDGWVTVWQLTPLTYPPGCPTSAKILTMVSAGKDFSLKMPISPAPWSP 9: Q---- - 8/11 Test #9: kalign_itest_BB12006.tfa ......... Passed 0.06 sec -test 11 - Start 11: kalign_itest_BB30014.tfa - -11: Test command: /build/kalign-3.3.5/obj-arm-linux-gnueabihf/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 -10: -10: Kalign (3.3.5) -10: -10: Copyright (C) 2006,2019,2020,2021 Timo Lassmann -10: -10: This program comes with ABSOLUTELY NO WARRANTY; for details type: -10: `kalign -showw'. -10: This is free software, and you are welcome to redistribute it -10: under certain conditions; consult the COPYING file for details. -10: -10: Please cite: -10: Lassmann, Timo. -10: "Kalign 3: multiple sequence alignment of large data sets." -10: Bioinformatics (2019) -10: https://doi.org/10.1093/bioinformatics/btz795 -10: -10: [2023-06-08 18:44:32] : LOG : Detected protein sequences. -10: [2023-06-08 18:44:32] : LOG : Read 4 sequences from /build/kalign-3.3.5/tests/data/BB12006.tfa. -10: [2023-06-08 18:44:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -10: [2023-06-08 18:44:32] : LOG : Calculating pairwise distances +10: [2023-06-09 20:47:03] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +10: [2023-06-09 20:47:03] : LOG : Aligning 11: 11: Kalign (3.3.5) 11: @@ -1341,15 +1387,12 @@ 11: Bioinformatics (2019) 11: https://doi.org/10.1093/bioinformatics/btz795 11: -11: [2023-06-08 18:44:32] : LOG : Detected protein sequences. -11: [2023-06-08 18:44:32] : LOG : Read 44 sequences from /build/kalign-3.3.5/tests/data/BB30014.tfa. -11: [2023-06-08 18:44:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -11: [2023-06-08 18:44:32] : LOG : Calculating pairwise distances -10: [2023-06-08 18:44:33] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:01.00 -10: [2023-06-08 18:44:33] : LOG : Building guide tree. -10: [2023-06-08 18:44:33] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 -10: [2023-06-08 18:44:33] : LOG : Aligning -10: [2023-06-08 18:44:33] : LOG : CPU Time: 0.01u 00:00:00.00 Elapsed: 00:00:00.00 +11: [2023-06-09 20:47:03] : LOG : Detected protein sequences. +11: [2023-06-09 20:47:03] : LOG : Read 44 sequences from /build/kalign-3.3.5/tests/data/BB30014.tfa. +11: [2023-06-09 20:47:03] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 +11: [2023-06-09 20:47:03] : LOG : Calculating pairwise distances + 8/11 Test #9: kalign_itest_BB12006.tfa ......... Passed 0.04 sec +10: [2023-06-09 20:47:03] : LOG : CPU Time: 0.02u 00:00:00.01 Elapsed: 00:00:00.00 10: >1al2_ad 10: G-LPVMNTPGSNQYLTADNFQSPCALPEFDVTPPIDIPGEVKNMMELAEI-DTMIPFDLS 10: ATKKNTMEMYRVRLSDKPHTDDPILCLSLSPASDPRLSHTMLGEILNYYTHWAGSLKFTF @@ -1374,18 +1417,18 @@ 10: VFTGTAMMKGKFLIAYTPPGAGKPTSRDQAMQATYAIWDLGLNSSYSFTVPFISPTHFRM 10: VGTDQA--NITNVDGWVTVWQLTPLTYPPGCPTSAKILTMVSAGKDFSLKMPISPAPWSP 10: Q---- - 9/11 Test #10: kalign_itest_BB30014.msf ......... Passed 0.08 sec -11: [2023-06-08 18:44:33] : LOG : CPU Time: 0.05u 00:00:00.04 Elapsed: 00:00:01.00 -11: [2023-06-08 18:44:33] : LOG : Building guide tree. -11: [2023-06-08 18:44:33] : LOG : CPU Time: 0.06u 00:00:00.06 Elapsed: 00:00:00.00 -11: [2023-06-08 18:44:33] : LOG : Aligning +11: [2023-06-09 20:47:03] : LOG : CPU Time: 0.04u 00:00:00.03 Elapsed: 00:00:00.00 +11: [2023-06-09 20:47:03] : LOG : Building guide tree. + 9/11 Test #10: kalign_itest_BB30014.msf ......... Passed 0.05 sec +11: [2023-06-09 20:47:03] : LOG : CPU Time: 0.06u 00:00:00.06 Elapsed: 00:00:00.00 +11: [2023-06-09 20:47:03] : LOG : Aligning 1: 0 6300 0 0 1: 0 0 6300 6300 1: 0 0 0 0 1: 0 0 0 0 1: -1: [2023-06-08 18:44:33] : LOG : Testing correctness of AVX bpm. -11: [2023-06-08 18:44:33] : LOG : CPU Time: 0.07u 00:00:00.07 Elapsed: 00:00:00.00 +1: [2023-06-09 20:47:03] : LOG : Testing correctness of AVX bpm. +11: [2023-06-09 20:47:03] : LOG : CPU Time: 0.19u 00:00:00.18 Elapsed: 00:00:00.00 11: >1ags_A 11: ----------------------------------AEKPKLHYFNARGRMESTRWLLAAAG 11: VEFEEKFIKSAEDLDKLRNDG--YLMFQQVPMVEI-----DG--MKLVQTRAILNYIA-- @@ -1694,29 +1737,29 @@ 11: ----KNPDLREEKFA-DIKKAYDNAEQLLT----GDFYS-GTSKPGFVDYLLYPNIQRAY 11: WAAHIVPDFPLEAESFPGPN-YPRLSKWYKAL-ESIPEVAAASQPTENGVGFFKDYLGGS 11: PNYDYGLTKLSETI -10/11 Test #11: kalign_itest_BB30014.tfa ......... Passed 0.29 sec +10/11 Test #11: kalign_itest_BB30014.tfa ......... Passed 0.21 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: [2023-06-08 18:44:51] : LOG : Timing DYN 256 -1: [2023-06-08 18:44:57] : LOG : 3.125949 - dyn -1: [2023-06-08 18:44:57] : LOG : 0.000000 - bpm -1: [2023-06-08 18:44:57] : LOG : 0.273332 - bpm_block2 -1: [2023-06-08 18:44:57] : LOG : 0.274507 - bpm_block -11/11 Test #1: bpm_utest ........................ Passed 25.17 sec +1: [2023-06-09 20:47:14] : LOG : Timing DYN 256 +1: [2023-06-09 20:47:18] : LOG : 3.573466 - dyn +1: [2023-06-09 20:47:18] : LOG : 0.000000 - bpm +1: [2023-06-09 20:47:18] : LOG : 0.271384 - bpm_block2 +1: [2023-06-09 20:47:18] : LOG : 0.283173 - bpm_block +11/11 Test #1: bpm_utest ........................ Passed 15.33 sec 100% tests passed, 0 tests failed out of 11 -Total Test time (real) = 25.18 sec +Total Test time (real) = 15.33 sec make[2]: Leaving directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' make[1]: Leaving directory '/build/kalign-3.3.5' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/kalign/ - cd obj-arm-linux-gnueabihf && make -j3 install DESTDIR=/build/kalign-3.3.5/debian/kalign AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" + cd obj-arm-linux-gnueabihf && make -j4 install DESTDIR=/build/kalign-3.3.5/debian/kalign AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/kalign-3.3.5/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/build/kalign-3.3.5 -B/build/kalign-3.3.5/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall @@ -1761,8 +1804,8 @@ dpkg-gencontrol: warning: Built-Using field of package kalign: substitution variable ${simde:Built-Using} used, but is not defined dh_md5sums dh_builddeb -dpkg-deb: building package 'kalign-dbgsym' in '../kalign-dbgsym_3.3.5-1_armhf.deb'. dpkg-deb: building package 'kalign' in '../kalign_3.3.5-1_armhf.deb'. +dpkg-deb: building package 'kalign-dbgsym' in '../kalign-dbgsym_3.3.5-1_armhf.deb'. dpkg-genbuildinfo --build=binary -O../kalign_3.3.5-1_armhf.buildinfo dpkg-genchanges --build=binary -O../kalign_3.3.5-1_armhf.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -1770,12 +1813,14 @@ 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/12248/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/12248/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/10623 and its subdirectories -I: Current time: Thu Jun 8 18:45:24 -12 2023 -I: pbuilder-time-stamp: 1686293124 +I: removing directory /srv/workspace/pbuilder/12248 and its subdirectories +I: Current time: Fri Jun 9 20:47:30 +14 2023 +I: pbuilder-time-stamp: 1686293250