I: pbuilder: network access will be disabled during build I: Current time: Thu May 30 18:36:33 +14 2024 I: pbuilder-time-stamp: 1717043793 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [kalign_3.4.0-1.dsc] I: copying [./kalign_3.4.0.orig.tar.gz] I: copying [./kalign_3.4.0-1.debian.tar.xz] I: Extracting source gpgv: Signature made Tue Apr 2 11:51:35 2024 gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./kalign_3.4.0-1.dsc: no acceptable signature found dpkg-source: info: extracting kalign in kalign-3.4.0 dpkg-source: info: unpacking kalign_3.4.0.orig.tar.gz dpkg-source: info: unpacking kalign_3.4.0-1.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/4214/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 May 30 04:36 /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/4214/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/4214/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="2" [2]="21" [3]="1" [4]="release" [5]="arm-unknown-linux-gnueabihf") BASH_VERSION='5.2.21(1)-release' BUILDDIR=/build/reproducible-path BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=armhf DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=4 ' DIRSTACK=() DISTRIBUTION=unstable EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=arm HOST_ARCH=armhf IFS=' ' INVOCATION_ID=2b06cc3022a94db599cf5e9f3bf913e3 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=4214 PS4='+ ' 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.WC2usAx6/pbuilderrc_9rIt --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.WC2usAx6/b2 --logfile b2/build.log kalign_3.4.0-1.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 i-capture-the-hostname 6.1.0-21-armmp-lpae #1 SMP Debian 6.1.90-1 (2024-05-03) armv7l GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 May 26 07:43 /bin -> usr/bin I: user script /srv/workspace/pbuilder/4214/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: armhf Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), libsimde-dev, cmake dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19462 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on libsimde-dev; however: Package libsimde-dev is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} cmake{a} cmake-data{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13t64{a} libbrotli1{a} libcom-err2{a} libcurl4t64{a} libdebhelper-perl{a} libelf1t64{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libgssapi-krb5-2{a} libicu72{a} libjsoncpp25{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap-2.5-0{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libpipeline1{a} libproc2-0{a} libpsl5t64{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsimde-dev{a} libssh2-1t64{a} libtool{a} libuchardet0{a} libuv1t64{a} libxml2{a} m4{a} man-db{a} po-debconf{a} procps{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules libssl3 lynx psmisc publicsuffix wget 0 packages upgraded, 54 newly installed, 0 to remove and 0 not upgraded. Need to get 29.7 MB of archives. After unpacking 119 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main armhf libproc2-0 armhf 2:4.0.4-4 [55.7 kB] Get: 2 http://deb.debian.org/debian unstable/main armhf procps armhf 2:4.0.4-4 [864 kB] Get: 3 http://deb.debian.org/debian unstable/main armhf sensible-utils all 0.0.22 [22.4 kB] Get: 4 http://deb.debian.org/debian unstable/main armhf libmagic-mgc armhf 1:5.45-3 [314 kB] Get: 5 http://deb.debian.org/debian unstable/main armhf libmagic1t64 armhf 1:5.45-3 [98.1 kB] Get: 6 http://deb.debian.org/debian unstable/main armhf file armhf 1:5.45-3 [42.0 kB] Get: 7 http://deb.debian.org/debian unstable/main armhf gettext-base armhf 0.21-14+b1 [157 kB] Get: 8 http://deb.debian.org/debian unstable/main armhf libuchardet0 armhf 0.0.8-1+b1 [65.7 kB] Get: 9 http://deb.debian.org/debian unstable/main armhf groff-base armhf 1.23.0-4 [1090 kB] Get: 10 http://deb.debian.org/debian unstable/main armhf bsdextrautils armhf 2.40.1-3 [86.1 kB] Get: 11 http://deb.debian.org/debian unstable/main armhf libpipeline1 armhf 1.5.7-2 [33.3 kB] Get: 12 http://deb.debian.org/debian unstable/main armhf man-db armhf 2.12.1-1 [1375 kB] Get: 13 http://deb.debian.org/debian unstable/main armhf m4 armhf 1.4.19-4 [264 kB] Get: 14 http://deb.debian.org/debian unstable/main armhf autoconf all 2.71-3 [332 kB] Get: 15 http://deb.debian.org/debian unstable/main armhf autotools-dev all 20220109.1 [51.6 kB] Get: 16 http://deb.debian.org/debian unstable/main armhf automake all 1:1.16.5-1.3 [823 kB] Get: 17 http://deb.debian.org/debian unstable/main armhf autopoint all 0.21-14 [496 kB] Get: 18 http://deb.debian.org/debian unstable/main armhf libicu72 armhf 72.1-4+b1 [9070 kB] Get: 19 http://deb.debian.org/debian unstable/main armhf libxml2 armhf 2.12.7+dfsg-2 [583 kB] Get: 20 http://deb.debian.org/debian unstable/main armhf libarchive13t64 armhf 3.7.2-2 [304 kB] Get: 21 http://deb.debian.org/debian unstable/main armhf libbrotli1 armhf 1.1.0-2+b3 [284 kB] Get: 22 http://deb.debian.org/debian unstable/main armhf libkrb5support0 armhf 1.20.1-6+b1 [30.6 kB] Get: 23 http://deb.debian.org/debian unstable/main armhf libcom-err2 armhf 1.47.1-1 [22.1 kB] Get: 24 http://deb.debian.org/debian unstable/main armhf libk5crypto3 armhf 1.20.1-6+b1 [75.5 kB] Get: 25 http://deb.debian.org/debian unstable/main armhf libkeyutils1 armhf 1.6.3-3 [7908 B] Get: 26 http://deb.debian.org/debian unstable/main armhf libkrb5-3 armhf 1.20.1-6+b1 [290 kB] Get: 27 http://deb.debian.org/debian unstable/main armhf libgssapi-krb5-2 armhf 1.20.1-6+b1 [112 kB] Get: 28 http://deb.debian.org/debian unstable/main armhf libsasl2-modules-db armhf 2.1.28+dfsg1-6 [18.0 kB] Get: 29 http://deb.debian.org/debian unstable/main armhf libsasl2-2 armhf 2.1.28+dfsg1-6 [50.1 kB] Get: 30 http://deb.debian.org/debian unstable/main armhf libldap-2.5-0 armhf 2.5.17+dfsg-1 [161 kB] Get: 31 http://deb.debian.org/debian unstable/main armhf libnghttp2-14 armhf 1.61.0-1+b1 [64.1 kB] Get: 32 http://deb.debian.org/debian unstable/main armhf libpsl5t64 armhf 0.21.2-1.1 [55.6 kB] Get: 33 http://deb.debian.org/debian unstable/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b4 [53.2 kB] Get: 34 http://deb.debian.org/debian unstable/main armhf libssh2-1t64 armhf 1.11.0-5 [199 kB] Get: 35 http://deb.debian.org/debian unstable/main armhf libcurl4t64 armhf 8.8.0-1 [394 kB] Get: 36 http://deb.debian.org/debian unstable/main armhf libexpat1 armhf 2.6.2-1 [83.5 kB] Get: 37 http://deb.debian.org/debian unstable/main armhf libjsoncpp25 armhf 1.9.5-6+b2 [69.9 kB] Get: 38 http://deb.debian.org/debian unstable/main armhf librhash0 armhf 1.4.3-3+b1 [143 kB] Get: 39 http://deb.debian.org/debian unstable/main armhf libuv1t64 armhf 1.48.0-4 [134 kB] Get: 40 http://deb.debian.org/debian unstable/main armhf cmake-data all 3.29.3-1 [2167 kB] Get: 41 http://deb.debian.org/debian unstable/main armhf cmake armhf 3.29.3-1+b2 [5216 kB] Get: 42 http://deb.debian.org/debian unstable/main armhf libdebhelper-perl all 13.15.3 [88.0 kB] Get: 43 http://deb.debian.org/debian unstable/main armhf libtool all 2.4.7-7 [517 kB] Get: 44 http://deb.debian.org/debian unstable/main armhf dh-autoreconf all 20 [17.1 kB] Get: 45 http://deb.debian.org/debian unstable/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 46 http://deb.debian.org/debian unstable/main armhf libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 47 http://deb.debian.org/debian unstable/main armhf dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 48 http://deb.debian.org/debian unstable/main armhf libelf1t64 armhf 0.191-1+b1 [183 kB] Get: 49 http://deb.debian.org/debian unstable/main armhf dwz armhf 0.15-1+b2 [106 kB] Get: 50 http://deb.debian.org/debian unstable/main armhf gettext armhf 0.21-14+b1 [1230 kB] Get: 51 http://deb.debian.org/debian unstable/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 52 http://deb.debian.org/debian unstable/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 53 http://deb.debian.org/debian unstable/main armhf debhelper all 13.15.3 [901 kB] Get: 54 http://deb.debian.org/debian unstable/main armhf libsimde-dev all 0.8.2-1 [465 kB] Fetched 29.7 MB in 1s (44.4 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 ... 19462 files and directories currently installed.) Preparing to unpack .../00-libproc2-0_2%3a4.0.4-4_armhf.deb ... Unpacking libproc2-0:armhf (2:4.0.4-4) ... Selecting previously unselected package procps. Preparing to unpack .../01-procps_2%3a4.0.4-4_armhf.deb ... Unpacking procps (2:4.0.4-4) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../02-sensible-utils_0.0.22_all.deb ... Unpacking sensible-utils (0.0.22) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../03-libmagic-mgc_1%3a5.45-3_armhf.deb ... Unpacking libmagic-mgc (1:5.45-3) ... Selecting previously unselected package libmagic1t64:armhf. Preparing to unpack .../04-libmagic1t64_1%3a5.45-3_armhf.deb ... Unpacking libmagic1t64:armhf (1:5.45-3) ... Selecting previously unselected package file. Preparing to unpack .../05-file_1%3a5.45-3_armhf.deb ... Unpacking file (1:5.45-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../06-gettext-base_0.21-14+b1_armhf.deb ... Unpacking gettext-base (0.21-14+b1) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../07-libuchardet0_0.0.8-1+b1_armhf.deb ... Unpacking libuchardet0:armhf (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../08-groff-base_1.23.0-4_armhf.deb ... Unpacking groff-base (1.23.0-4) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../09-bsdextrautils_2.40.1-3_armhf.deb ... Unpacking bsdextrautils (2.40.1-3) ... Selecting previously unselected package libpipeline1:armhf. Preparing to unpack .../10-libpipeline1_1.5.7-2_armhf.deb ... Unpacking libpipeline1:armhf (1.5.7-2) ... Selecting previously unselected package man-db. Preparing to unpack .../11-man-db_2.12.1-1_armhf.deb ... Unpacking man-db (2.12.1-1) ... Selecting previously unselected package m4. Preparing to unpack .../12-m4_1.4.19-4_armhf.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../13-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../14-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../15-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../16-autopoint_0.21-14_all.deb ... Unpacking autopoint (0.21-14) ... Selecting previously unselected package libicu72:armhf. Preparing to unpack .../17-libicu72_72.1-4+b1_armhf.deb ... Unpacking libicu72:armhf (72.1-4+b1) ... Selecting previously unselected package libxml2:armhf. Preparing to unpack .../18-libxml2_2.12.7+dfsg-2_armhf.deb ... Unpacking libxml2:armhf (2.12.7+dfsg-2) ... Selecting previously unselected package libarchive13t64:armhf. Preparing to unpack .../19-libarchive13t64_3.7.2-2_armhf.deb ... Unpacking libarchive13t64:armhf (3.7.2-2) ... Selecting previously unselected package libbrotli1:armhf. Preparing to unpack .../20-libbrotli1_1.1.0-2+b3_armhf.deb ... Unpacking libbrotli1:armhf (1.1.0-2+b3) ... Selecting previously unselected package libkrb5support0:armhf. Preparing to unpack .../21-libkrb5support0_1.20.1-6+b1_armhf.deb ... Unpacking libkrb5support0:armhf (1.20.1-6+b1) ... Selecting previously unselected package libcom-err2:armhf. Preparing to unpack .../22-libcom-err2_1.47.1-1_armhf.deb ... Unpacking libcom-err2:armhf (1.47.1-1) ... Selecting previously unselected package libk5crypto3:armhf. Preparing to unpack .../23-libk5crypto3_1.20.1-6+b1_armhf.deb ... Unpacking libk5crypto3:armhf (1.20.1-6+b1) ... Selecting previously unselected package libkeyutils1:armhf. Preparing to unpack .../24-libkeyutils1_1.6.3-3_armhf.deb ... Unpacking libkeyutils1:armhf (1.6.3-3) ... Selecting previously unselected package libkrb5-3:armhf. Preparing to unpack .../25-libkrb5-3_1.20.1-6+b1_armhf.deb ... Unpacking libkrb5-3:armhf (1.20.1-6+b1) ... Selecting previously unselected package libgssapi-krb5-2:armhf. Preparing to unpack .../26-libgssapi-krb5-2_1.20.1-6+b1_armhf.deb ... Unpacking libgssapi-krb5-2:armhf (1.20.1-6+b1) ... Selecting previously unselected package libsasl2-modules-db:armhf. Preparing to unpack .../27-libsasl2-modules-db_2.1.28+dfsg1-6_armhf.deb ... Unpacking libsasl2-modules-db:armhf (2.1.28+dfsg1-6) ... Selecting previously unselected package libsasl2-2:armhf. Preparing to unpack .../28-libsasl2-2_2.1.28+dfsg1-6_armhf.deb ... Unpacking libsasl2-2:armhf (2.1.28+dfsg1-6) ... Selecting previously unselected package libldap-2.5-0:armhf. Preparing to unpack .../29-libldap-2.5-0_2.5.17+dfsg-1_armhf.deb ... Unpacking libldap-2.5-0:armhf (2.5.17+dfsg-1) ... Selecting previously unselected package libnghttp2-14:armhf. Preparing to unpack .../30-libnghttp2-14_1.61.0-1+b1_armhf.deb ... Unpacking libnghttp2-14:armhf (1.61.0-1+b1) ... Selecting previously unselected package libpsl5t64:armhf. Preparing to unpack .../31-libpsl5t64_0.21.2-1.1_armhf.deb ... Unpacking libpsl5t64:armhf (0.21.2-1.1) ... Selecting previously unselected package librtmp1:armhf. Preparing to unpack .../32-librtmp1_2.4+20151223.gitfa8646d.1-2+b4_armhf.deb ... Unpacking librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b4) ... Selecting previously unselected package libssh2-1t64:armhf. Preparing to unpack .../33-libssh2-1t64_1.11.0-5_armhf.deb ... Unpacking libssh2-1t64:armhf (1.11.0-5) ... Selecting previously unselected package libcurl4t64:armhf. Preparing to unpack .../34-libcurl4t64_8.8.0-1_armhf.deb ... Unpacking libcurl4t64:armhf (8.8.0-1) ... Selecting previously unselected package libexpat1:armhf. Preparing to unpack .../35-libexpat1_2.6.2-1_armhf.deb ... Unpacking libexpat1:armhf (2.6.2-1) ... Selecting previously unselected package libjsoncpp25:armhf. Preparing to unpack .../36-libjsoncpp25_1.9.5-6+b2_armhf.deb ... Unpacking libjsoncpp25:armhf (1.9.5-6+b2) ... Selecting previously unselected package librhash0:armhf. Preparing to unpack .../37-librhash0_1.4.3-3+b1_armhf.deb ... Unpacking librhash0:armhf (1.4.3-3+b1) ... Selecting previously unselected package libuv1t64:armhf. Preparing to unpack .../38-libuv1t64_1.48.0-4_armhf.deb ... Unpacking libuv1t64:armhf (1.48.0-4) ... Selecting previously unselected package cmake-data. Preparing to unpack .../39-cmake-data_3.29.3-1_all.deb ... Unpacking cmake-data (3.29.3-1) ... Selecting previously unselected package cmake. Preparing to unpack .../40-cmake_3.29.3-1+b2_armhf.deb ... Unpacking cmake (3.29.3-1+b2) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../41-libdebhelper-perl_13.15.3_all.deb ... Unpacking libdebhelper-perl (13.15.3) ... Selecting previously unselected package libtool. Preparing to unpack .../42-libtool_2.4.7-7_all.deb ... Unpacking libtool (2.4.7-7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../43-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../44-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... 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Building tag database... -> Finished parsing the build-deps I: Building the package I: user script /srv/workspace/pbuilder/4214/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for unstable I: user script /srv/workspace/pbuilder/4214/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/kalign-3.4.0/ && 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_3.4.0-1_source.changes dpkg-buildpackage: info: source package kalign dpkg-buildpackage: info: source version 1:3.4.0-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Michael R. Crusoe dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/kalign-3.4.0' dh_auto_configure -- -DBUILD_SHARED_LIBS=OFF -DINSTALL_PREFIX=/usr -DENABLE_SSE=OFF -DENABLE_AVX=OFF -DENABLE_AVX2=OFF cd obj-arm-linux-gnueabihf && DEB_PYTHON_INSTALL_LAYOUT=deb cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/arm-linux-gnueabihf -DBUILD_SHARED_LIBS=OFF -DINSTALL_PREFIX=/usr -DENABLE_SSE=OFF -DENABLE_AVX=OFF -DENABLE_AVX2=OFF .. -- The C compiler identification is GNU 13.2.0 -- The CXX compiler identification is GNU 13.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Found OpenMP_C: -fopenmp (found version "4.5") -- Found OpenMP_CXX: -fopenmp (found version "4.5") -- Found OpenMP: TRUE (found version "4.5") -- OpenMP is enabled. -- Performing Test COMPILER_HAS_HIDDEN_VISIBILITY -- Performing Test COMPILER_HAS_HIDDEN_VISIBILITY - Success -- Performing Test COMPILER_HAS_HIDDEN_INLINE_VISIBILITY -- Performing Test COMPILER_HAS_HIDDEN_INLINE_VISIBILITY - Success -- Performing Test COMPILER_HAS_DEPRECATED_ATTR -- Performing Test COMPILER_HAS_DEPRECATED_ATTR - Success -- -- Configuration: -- -------------------------------------- -- Build type : None -- Compiler flags : -- Compiler c debug flags : -g -- Compiler c release flags : -O3 -DNDEBUG -- Compiler c min size flags : -Os -DNDEBUG -- Compiler c flags : -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -- OpenMP version : 4.5 -- OpenMP flags : -fopenmp -- Configuring done (4.0s) -- Generating done (0.2s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY FETCHCONTENT_FULLY_DISCONNECTED INSTALL_PREFIX -- Build files have been written to: 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/build/reproducible-path/kalign-3.4.0 /build/reproducible-path/kalign-3.4.0/lib /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib/CMakeFiles/alphabet_utest.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' make -f lib/CMakeFiles/tldevel.dir/build.make lib/CMakeFiles/tldevel.dir/build make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' make -f lib/CMakeFiles/alphabet_utest.dir/build.make lib/CMakeFiles/alphabet_utest.dir/build make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' make -f lib/CMakeFiles/kalign_OBJ.dir/build.make lib/CMakeFiles/kalign_OBJ.dir/build make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' make -f lib/CMakeFiles/bpm_utest.dir/build.make lib/CMakeFiles/bpm_utest.dir/build make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' [ 1%] Building C object lib/CMakeFiles/tldevel.dir/src/tldevel.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/lib/src -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 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[ 4%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/test.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib -I/build/reproducible-path/kalign-3.4.0/lib/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -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/reproducible-path/kalign-3.4.0/lib/src/test.c [ 5%] Building C object lib/CMakeFiles/bpm_utest.dir/src/tldevel.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -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/reproducible-path/kalign-3.4.0/lib/src/tldevel.c [ 6%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/tldevel.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib -I/build/reproducible-path/kalign-3.4.0/lib/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -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/reproducible-path/kalign-3.4.0/lib/src/tldevel.c [ 8%] Building C object lib/CMakeFiles/tldevel.dir/src/tlmisc.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/lib/src -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -MD -MT lib/CMakeFiles/tldevel.dir/src/tlmisc.c.o -MF CMakeFiles/tldevel.dir/src/tlmisc.c.o.d -o CMakeFiles/tldevel.dir/src/tlmisc.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/tlmisc.c [ 9%] Building C object lib/CMakeFiles/alphabet_utest.dir/src/alphabet.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -DUTEST_ALPHABET -Wall -Wextra -pedantic -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/reproducible-path/kalign-3.4.0/lib/src/alphabet.c [ 10%] Building C object lib/CMakeFiles/bpm_utest.dir/src/tlrng.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -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/reproducible-path/kalign-3.4.0/lib/src/tlrng.c [ 12%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/tlmisc.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib -I/build/reproducible-path/kalign-3.4.0/lib/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -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/reproducible-path/kalign-3.4.0/lib/src/tlmisc.c [ 13%] Building C object lib/CMakeFiles/tldevel.dir/src/tlrng.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/lib/src -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -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/reproducible-path/kalign-3.4.0/lib/src/tlrng.c [ 14%] Building C object lib/CMakeFiles/bpm_utest.dir/src/esl_stopwatch.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -MD -MT lib/CMakeFiles/bpm_utest.dir/src/esl_stopwatch.c.o -MF CMakeFiles/bpm_utest.dir/src/esl_stopwatch.c.o.d -o CMakeFiles/bpm_utest.dir/src/esl_stopwatch.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/esl_stopwatch.c [ 16%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/tlrng.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib -I/build/reproducible-path/kalign-3.4.0/lib/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/tlrng.c.o -MF CMakeFiles/kalign_OBJ.dir/src/tlrng.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/tlrng.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/tlrng.c [ 17%] Linking C executable alphabet_utest cd /build/reproducible-path/kalign-3.4.0/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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/alphabet_utest.dir/src/tldevel.c.o CMakeFiles/alphabet_utest.dir/src/alphabet.c.o -o alphabet_utest make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' [ 17%] Built target alphabet_utest make -f lib/CMakeFiles/edist_utest.dir/build.make lib/CMakeFiles/edist_utest.dir/depend make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/kalign-3.4.0 /build/reproducible-path/kalign-3.4.0/lib /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib/CMakeFiles/edist_utest.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' make -f lib/CMakeFiles/edist_utest.dir/build.make lib/CMakeFiles/edist_utest.dir/build make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' [ 18%] Building C object lib/CMakeFiles/edist_utest.dir/src/tldevel.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -DUTEST_EDIST -Wall -Wextra -pedantic -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/reproducible-path/kalign-3.4.0/lib/src/tldevel.c [ 20%] Building C object lib/CMakeFiles/bpm_utest.dir/src/alphabet.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -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/reproducible-path/kalign-3.4.0/lib/src/alphabet.c [ 21%] Building C object lib/CMakeFiles/tldevel.dir/src/esl_stopwatch.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/lib/src -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -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/reproducible-path/kalign-3.4.0/lib/src/esl_stopwatch.c [ 22%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/esl_stopwatch.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib -I/build/reproducible-path/kalign-3.4.0/lib/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -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/reproducible-path/kalign-3.4.0/lib/src/esl_stopwatch.c [ 24%] Linking C static library libtldevel.a cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cmake -P CMakeFiles/tldevel.dir/cmake_clean_target.cmake cd /build/reproducible-path/kalign-3.4.0/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[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' [ 24%] Built target tldevel make -f lib/CMakeFiles/task_utest.dir/build.make lib/CMakeFiles/task_utest.dir/depend [ 25%] Building C object lib/CMakeFiles/bpm_utest.dir/src/bpm.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -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/reproducible-path/kalign-3.4.0/lib/src/bpm.c make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/kalign-3.4.0 /build/reproducible-path/kalign-3.4.0/lib /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib/CMakeFiles/task_utest.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' make -f lib/CMakeFiles/task_utest.dir/build.make lib/CMakeFiles/task_utest.dir/build make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' [ 27%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_alloc.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib -I/build/reproducible-path/kalign-3.4.0/lib/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -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/reproducible-path/kalign-3.4.0/lib/src/msa_alloc.c [ 28%] Building C object lib/CMakeFiles/task_utest.dir/src/tldevel.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -DTASKWRITETEST -Wall -Wextra -pedantic -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/reproducible-path/kalign-3.4.0/lib/src/tldevel.c [ 29%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_op.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib -I/build/reproducible-path/kalign-3.4.0/lib/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -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/reproducible-path/kalign-3.4.0/lib/src/msa_op.c [ 31%] Building C object lib/CMakeFiles/bpm_utest.dir/src/bpm_test.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -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/reproducible-path/kalign-3.4.0/lib/src/bpm_test.c [ 32%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_io.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib -I/build/reproducible-path/kalign-3.4.0/lib/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -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/reproducible-path/kalign-3.4.0/lib/src/msa_io.c [ 33%] Building C object lib/CMakeFiles/edist_utest.dir/src/tlrng.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -DUTEST_EDIST -Wall -Wextra -pedantic -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/reproducible-path/kalign-3.4.0/lib/src/tlrng.c [ 35%] Linking C executable bpm_utest cd /build/reproducible-path/kalign-3.4.0/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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -Wl,-z,relro -Wl,-z,now 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 [ 36%] Building C object lib/CMakeFiles/edist_utest.dir/src/esl_stopwatch.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -DUTEST_EDIST -Wall -Wextra -pedantic -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/reproducible-path/kalign-3.4.0/lib/src/esl_stopwatch.c make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' [ 36%] Built target bpm_utest [ 37%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_misc.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib -I/build/reproducible-path/kalign-3.4.0/lib/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -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/reproducible-path/kalign-3.4.0/lib/src/msa_misc.c [ 39%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_check.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib -I/build/reproducible-path/kalign-3.4.0/lib/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -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/reproducible-path/kalign-3.4.0/lib/src/msa_check.c [ 40%] Building C object lib/CMakeFiles/edist_utest.dir/src/euclidean_dist.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -DUTEST_EDIST -Wall -Wextra -pedantic -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/reproducible-path/kalign-3.4.0/lib/src/euclidean_dist.c [ 41%] Building C object lib/CMakeFiles/task_utest.dir/src/tlrng.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -DTASKWRITETEST -Wall -Wextra -pedantic -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/reproducible-path/kalign-3.4.0/lib/src/tlrng.c /build/reproducible-path/kalign-3.4.0/lib/src/euclidean_dist.c: In function 'main': /build/reproducible-path/kalign-3.4.0/lib/src/euclidean_dist.c:58:15: warning: unused variable 'd2' [-Wunused-variable] 58 | float d2; | ^~ [ 43%] Linking C executable edist_utest cd /build/reproducible-path/kalign-3.4.0/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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -Wl,-z,relro -Wl,-z,now 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[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' [ 44%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_cmp.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib -I/build/reproducible-path/kalign-3.4.0/lib/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -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/reproducible-path/kalign-3.4.0/lib/src/msa_cmp.c [ 44%] Built target edist_utest [ 45%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_sort.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib -I/build/reproducible-path/kalign-3.4.0/lib/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/msa_sort.c.o -MF CMakeFiles/kalign_OBJ.dir/src/msa_sort.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/msa_sort.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/msa_sort.c [ 48%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/alphabet.c.o [ 48%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/task.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib -I/build/reproducible-path/kalign-3.4.0/lib/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -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/reproducible-path/kalign-3.4.0/lib/src/alphabet.c cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib -I/build/reproducible-path/kalign-3.4.0/lib/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -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/reproducible-path/kalign-3.4.0/lib/src/task.c [ 50%] Building C object lib/CMakeFiles/task_utest.dir/src/task.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -DTASKWRITETEST -Wall -Wextra -pedantic -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/reproducible-path/kalign-3.4.0/lib/src/task.c /build/reproducible-path/kalign-3.4.0/lib/src/task.c: In function 'read_tasks': /build/reproducible-path/kalign-3.4.0/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); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/kalign-3.4.0/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); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/kalign-3.4.0/lib/src/task.c: In function 'read_tasks': /build/reproducible-path/kalign-3.4.0/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); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/kalign-3.4.0/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); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 51%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/bisectingKmeans.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib -I/build/reproducible-path/kalign-3.4.0/lib/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -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/reproducible-path/kalign-3.4.0/lib/src/bisectingKmeans.c [ 52%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/sequence_distance.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib -I/build/reproducible-path/kalign-3.4.0/lib/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -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/reproducible-path/kalign-3.4.0/lib/src/sequence_distance.c [ 54%] Linking C executable task_utest cd /build/reproducible-path/kalign-3.4.0/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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -Wl,-z,relro -Wl,-z,now 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 [ 55%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/bpm.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib -I/build/reproducible-path/kalign-3.4.0/lib/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -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/reproducible-path/kalign-3.4.0/lib/src/bpm.c make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' [ 55%] Built target task_utest [ 56%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/euclidean_dist.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib -I/build/reproducible-path/kalign-3.4.0/lib/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -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/reproducible-path/kalign-3.4.0/lib/src/euclidean_dist.c [ 58%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/pick_anchor.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib -I/build/reproducible-path/kalign-3.4.0/lib/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -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/reproducible-path/kalign-3.4.0/lib/src/pick_anchor.c [ 59%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_wrap.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib -I/build/reproducible-path/kalign-3.4.0/lib/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -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/reproducible-path/kalign-3.4.0/lib/src/aln_wrap.c [ 60%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_param.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib 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-ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_run.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_run.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_run.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/aln_run.c [ 63%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_mem.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib -I/build/reproducible-path/kalign-3.4.0/lib/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_mem.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_mem.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_mem.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/aln_mem.c [ 64%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib -I/build/reproducible-path/kalign-3.4.0/lib/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 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/build/reproducible-path/kalign-3.4.0/lib/src/aln_profileprofile.c [ 71%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/weave_alignment.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib -I/build/reproducible-path/kalign-3.4.0/lib/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/weave_alignment.c.o -MF CMakeFiles/kalign_OBJ.dir/src/weave_alignment.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/weave_alignment.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/weave_alignment.c make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' [ 71%] Built target kalign_OBJ make -f lib/CMakeFiles/kalign.dir/build.make lib/CMakeFiles/kalign.dir/depend make -f lib/CMakeFiles/kalign_static.dir/build.make lib/CMakeFiles/kalign_static.dir/depend make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/kalign-3.4.0 /build/reproducible-path/kalign-3.4.0/lib /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib/CMakeFiles/kalign.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/kalign-3.4.0 /build/reproducible-path/kalign-3.4.0/lib /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib/CMakeFiles/kalign_static.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' make -f lib/CMakeFiles/kalign.dir/build.make lib/CMakeFiles/kalign.dir/build make -f lib/CMakeFiles/kalign_static.dir/build.make lib/CMakeFiles/kalign_static.dir/build make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' [ 74%] Linking C static library libkalign.a [ 74%] Linking C static library libkalign_static.a cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cmake -P CMakeFiles/kalign_static.dir/cmake_clean_target.cmake cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cmake -P CMakeFiles/kalign.dir/cmake_clean_target.cmake cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/kalign.dir/link.txt --verbose=1 cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/kalign_static.dir/link.txt --verbose=1 /usr/bin/ar qc libkalign_static.a CMakeFiles/kalign_OBJ.dir/src/test.c.o CMakeFiles/kalign_OBJ.dir/src/tldevel.c.o CMakeFiles/kalign_OBJ.dir/src/tlmisc.c.o CMakeFiles/kalign_OBJ.dir/src/tlrng.c.o CMakeFiles/kalign_OBJ.dir/src/esl_stopwatch.c.o CMakeFiles/kalign_OBJ.dir/src/msa_alloc.c.o CMakeFiles/kalign_OBJ.dir/src/msa_op.c.o CMakeFiles/kalign_OBJ.dir/src/msa_io.c.o CMakeFiles/kalign_OBJ.dir/src/msa_misc.c.o 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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/msa_sort.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 make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' [ 74%] Built target kalign_static make -f src/CMakeFiles/kalign-bin.dir/build.make src/CMakeFiles/kalign-bin.dir/depend make -f tests/CMakeFiles/largebench.dir/build.make tests/CMakeFiles/largebench.dir/depend [ 74%] Built target kalign make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/kalign-3.4.0 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'/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' make -f tests/CMakeFiles/kalign_io_test.dir/build.make tests/CMakeFiles/kalign_io_test.dir/build make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' [ 75%] Building C object src/CMakeFiles/kalign-bin.dir/run_kalign.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/src && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/lib/src -I/build/reproducible-path/kalign-3.4.0/lib/include -I/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -std=gnu11 -Wall -Wextra -pedantic -MD -MT 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-Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -std=gnu11 -Wall -Wextra -pedantic -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/reproducible-path/kalign-3.4.0/src/parameters.c [ 86%] Linking C executable largebench cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/largebench.dir/link.txt --verbose=1 [ 87%] Linking C executable kalignfmt cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/kalignfmt.dir/link.txt --verbose=1 /usr/bin/cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -Wl,-z,relro -Wl,-z,now CMakeFiles/largebench.dir/large_benchmark.c.o -o largebench ../lib/libtldevel.a ../lib/libkalign_static.a -lm /usr/lib/gcc/arm-linux-gnueabihf/13/libgomp.so /usr/lib/arm-linux-gnueabihf/libpthread.a /usr/bin/cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -Wl,-z,relro -Wl,-z,now CMakeFiles/kalignfmt.dir/run_reformat.c.o CMakeFiles/kalignfmt.dir/parameters.c.o -o kalignfmt ../lib/libtldevel.a ../lib/libkalign.a -lm /usr/lib/gcc/arm-linux-gnueabihf/13/libgomp.so /usr/lib/arm-linux-gnueabihf/libpthread.a [ 89%] Linking C executable kalign cd /build/reproducible-path/kalign-3.4.0/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 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -Wl,-z,relro -Wl,-z,now "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 /usr/lib/gcc/arm-linux-gnueabihf/13/libgomp.so /usr/lib/arm-linux-gnueabihf/libpthread.a [ 90%] Building C object tests/CMakeFiles/dssim.dir/dssim.c.o cd 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target largebench make -f tests/CMakeFiles/kalign_lib_test.dir/build.make tests/CMakeFiles/kalign_lib_test.dir/depend make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/kalign-3.4.0 /build/reproducible-path/kalign-3.4.0/tests /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/tests /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/tests/CMakeFiles/kalign_lib_test.dir/DependInfo.cmake "--color=" [ 90%] Built target kalignfmt make -f tests/CMakeFiles/kalign_cmp_test.dir/build.make tests/CMakeFiles/kalign_cmp_test.dir/depend make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/kalign-3.4.0 /build/reproducible-path/kalign-3.4.0/tests /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/tests /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/tests/CMakeFiles/kalign_cmp_test.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' make -f tests/CMakeFiles/kalign_lib_test.dir/build.make tests/CMakeFiles/kalign_lib_test.dir/build make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' make -f tests/CMakeFiles/kalign_cmp_test.dir/build.make tests/CMakeFiles/kalign_cmp_test.dir/build make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' [ 91%] Building C object tests/CMakeFiles/kalign_lib_test.dir/kalign_lib_test.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/tests && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/lib/include -I/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -std=gnu11 -Wall -Wextra -pedantic -MD -MT tests/CMakeFiles/kalign_lib_test.dir/kalign_lib_test.c.o -MF CMakeFiles/kalign_lib_test.dir/kalign_lib_test.c.o.d -o CMakeFiles/kalign_lib_test.dir/kalign_lib_test.c.o -c /build/reproducible-path/kalign-3.4.0/tests/kalign_lib_test.c [ 91%] Built target kalign-bin make -f tests/CMakeFiles/kaligncpp.dir/build.make tests/CMakeFiles/kaligncpp.dir/depend [ 93%] Building C object tests/CMakeFiles/kalign_cmp_test.dir/kalign_cmp_test.c.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/tests && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/lib/include -I/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -std=gnu11 -Wall -Wextra -pedantic -MD -MT tests/CMakeFiles/kalign_cmp_test.dir/kalign_cmp_test.c.o -MF CMakeFiles/kalign_cmp_test.dir/kalign_cmp_test.c.o.d -o CMakeFiles/kalign_cmp_test.dir/kalign_cmp_test.c.o -c /build/reproducible-path/kalign-3.4.0/tests/kalign_cmp_test.c make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/kalign-3.4.0 /build/reproducible-path/kalign-3.4.0/tests /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/tests /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/tests/CMakeFiles/kaligncpp.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' make -f tests/CMakeFiles/kaligncpp.dir/build.make tests/CMakeFiles/kaligncpp.dir/build make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' [ 94%] Building CXX object tests/CMakeFiles/kaligncpp.dir/kalign_lib_testCXX.cpp.o cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/tests && /usr/bin/c++ -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/lib/include -I/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -Wall -Wextra -pedantic -MD -MT tests/CMakeFiles/kaligncpp.dir/kalign_lib_testCXX.cpp.o -MF CMakeFiles/kaligncpp.dir/kalign_lib_testCXX.cpp.o.d -o CMakeFiles/kaligncpp.dir/kalign_lib_testCXX.cpp.o -c /build/reproducible-path/kalign-3.4.0/tests/kalign_lib_testCXX.cpp [ 95%] Linking C executable kalign_cmp_test cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/kalign_cmp_test.dir/link.txt --verbose=1 [ 97%] Linking C executable kalign_lib_test cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/kalign_lib_test.dir/link.txt --verbose=1 /usr/bin/cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -Wl,-z,relro -Wl,-z,now CMakeFiles/kalign_cmp_test.dir/kalign_cmp_test.c.o -o kalign_cmp_test ../lib/libkalign.a -lm /usr/lib/gcc/arm-linux-gnueabihf/13/libgomp.so /usr/lib/arm-linux-gnueabihf/libpthread.a /usr/bin/cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -Wl,-z,relro -Wl,-z,now CMakeFiles/kalign_lib_test.dir/kalign_lib_test.c.o -o kalign_lib_test ../lib/libkalign.a -lm /usr/lib/gcc/arm-linux-gnueabihf/13/libgomp.so /usr/lib/arm-linux-gnueabihf/libpthread.a make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' [ 97%] Built target kalign_cmp_test make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' [ 97%] Built target kalign_lib_test [ 98%] Linking C executable dssim cd /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/dssim.dir/link.txt --verbose=1 /usr/bin/cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -Wl,-z,relro -Wl,-z,now CMakeFiles/dssim.dir/dssim_test.c.o CMakeFiles/dssim.dir/dssim.c.o -o dssim ../lib/libtldevel.a ../lib/libkalign.a -lm /usr/lib/gcc/arm-linux-gnueabihf/13/libgomp.so /usr/lib/arm-linux-gnueabihf/libpthread.a make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' [ 98%] Built target dssim /build/reproducible-path/kalign-3.4.0/tests/kalign_lib_testCXX.cpp: In function 'int main()': /build/reproducible-path/kalign-3.4.0/tests/kalign_lib_testCXX.cpp:10:17: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 10 | "GKGDPKKPRGKMSSYAFFVQTSREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMKTYIPPKGE", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/kalign-3.4.0/tests/kalign_lib_testCXX.cpp:11:17: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 11 | "MQDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREKYPNYKYRPRRKAKMLPK", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/kalign-3.4.0/tests/kalign_lib_testCXX.cpp:12:17: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 12 | "MKKLKKHPDFPKKPLTPYFRFFMEKRAKYAKLHPEMSNLDLTKILSKKYKELPEKKKMKYIQDFQREKQEFERNLARFREDHPDLIQNAKK", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/kalign-3.4.0/tests/kalign_lib_testCXX.cpp:13:17: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 13 | "MHIKKPLNAFMLYMKEMRANVVAESTLKESAAINQILGRRWHALSREEQAKYYELARKERQLHMQLYPGWSARDNYGKKKKRKREK", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [100%] Linking CXX executable kaligncpp cd /build/reproducible-path/kalign-3.4.0/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/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -Wl,-z,relro -Wl,-z,now CMakeFiles/kaligncpp.dir/kalign_lib_testCXX.cpp.o -o kaligncpp ../lib/libkalign.a -lm /usr/lib/gcc/arm-linux-gnueabihf/13/libgomp.so /usr/lib/arm-linux-gnueabihf/libpthread.a make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' [100%] Built target kaligncpp make[2]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' dh_auto_test cd obj-arm-linux-gnueabihf && make -j4 test ARGS\+=--verbose ARGS\+=-j4 make[1]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' Running tests... /usr/bin/ctest --force-new-ctest-process --verbose -j4 UpdateCTestConfiguration from :/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/DartConfiguration.tcl Parse Config file:/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/DartConfiguration.tcl UpdateCTestConfiguration from :/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/DartConfiguration.tcl Parse Config file:/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/DartConfiguration.tcl Test project /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf Constructing a list of tests Done constructing a list of tests Updating test list for fixtures Added 0 tests to meet fixture requirements Checking test dependency graph... Checking test dependency graph end test 1 Start 1: bpm_utest 1: Test command: /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib/bpm_utest 1: Working Directory: /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib 1: Test timeout computed to be: 1500 test 2 Start 2: alphabet_utest 2: Test command: /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib/alphabet_utest 2: Working Directory: /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib 2: Test timeout computed to be: 1500 test 3 Start 3: edist_utest 3: Test command: /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib/edist_utest 3: Working Directory: /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib 3: Test timeout computed to be: 1500 test 4 Start 4: task_utest 4: Test command: /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib/task_utest 4: Working Directory: /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/lib 4: Test timeout computed to be: 1500 1: LEN: 256 1: [2024-05-30 04:37:49] : LOG : Testing correctness of serial bpm. 2: LEN: 21 2: @ -1 2: A 0 2: B 20 2: C 1 2: D 2 2: E 3 2: F 4 2: G 5 2: H 6 2: I 7 2: J -1 2: K 8 2: L 9 2: M 10 2: N 11 2: O -1 2: P 12 2: Q 13 2: R 14 2: S 15 2: T 16 2: U 20 2: V 17 2: W 18 2: X 20 2: Y 19 2: Z 20 2: [ -1 2: \ -1 2: ] -1 2: ^ -1 2: _ -1 2: LEN: 13 2: @ -1 2: A 0 2: B 2 2: C 1 2: D 2 2: E 3 2: F 4 2: G 5 2: H 6 2: I 7 2: J -1 2: K 8 2: L 9 2: M 9 2: N 2 2: O -1 2: P 10 2: Q 3 2: R 8 2: S 0 2: T 0 2: U -1 2: V 7 2: W 11 2: X 12 2: Y 4 2: Z 3 2: [ -1 2: \ -1 2: ] -1 2: ^ -1 2: _ -1 2: LEN: 5 2: @ -1 2: A 0 2: B 4 2: C 1 2: D 4 2: E -1 2: F -1 2: G 2 2: H 4 2: I -1 2: J -1 2: K 4 2: L -1 2: M 4 2: N 4 2: O -1 2: P -1 2: Q -1 2: R 4 2: S 4 2: T 3 2: U 3 2: V 4 2: W 4 2: X -1 2: Y 4 2: Z -1 2: [ -1 2: \ -1 2: ] -1 2: ^ -1 2: _ -1 2: LEN: 6 2: @ -1 2: A 0 2: B 5 2: C 1 2: D 2 2: E 2 2: F 1 2: G 3 2: H 3 2: I 1 2: J -1 2: K 2 2: L 4 2: M 0 2: N 2 2: O -1 2: P 2 2: Q 2 2: R 2 2: S 3 2: T 3 2: U -1 2: V 1 2: W 4 2: X 5 2: Y 4 2: Z 5 2: [ -1 2: \ -1 2: ] -1 2: ^ -1 2: _ -1 3: [2024-05-30 04:37:49] : LOG : Check for correctness. 3: [2024-05-30 04:37:49] : LOG : Timing serial 1/12 Test #2: alphabet_utest ................... Passed 0.02 sec test 5 Start 5: C++Lib 5: Test command: /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/tests/kaligncpp 5: Working Directory: /build/reproducible-path/kalign-3.4.0/tests 5: Test timeout computed to be: 1500 4: 862 688 732 733 512 4: 400 600 795 356 34 4: 131 106 50 945 333 4: 336 861 414 113 756 4: 319 778 610 461 233 4: 868 608 393 403 737 4: 963 119 54 907 653 4: 180 306 226 666 470 4: 9 37 736 528 145 4: 1 673 574 33 998 4: 659 321 494 661 567 4: 959 924 249 898 750 4: 441 755 123 333 507 4: 197 916 504 197 392 4: 861 313 819 887 464 4: 102 197 178 726 191 4: 600 731 660 554 606 4: 605 207 79 297 987 4: 321 397 57 951 642 4: 417 95 399 791 541 4: 779 605 512 707 512 4: 744 192 651 760 260 4: 211 312 605 159 531 4: 907 223 554 147 110 4: 847 801 65 387 693 4: 650 455 388 710 725 4: 887 221 387 481 495 4: 299 766 458 68 221 4: 404 842 876 340 162 4: 650 915 960 276 150 4: 25 0 864 983 468 4: 4 261 300 764 141 4: 686 777 373 830 529 4: 614 423 399 443 650 4: 687 796 45 504 92 4: 931 709 787 341 150 4: 697 919 399 631 438 4: 396 305 513 554 996 4: 732 52 78 864 413 4: 347 105 832 655 229 4: 964 306 56 256 164 4: 384 854 627 393 440 4: 284 732 874 292 535 4: 494 614 264 645 351 4: 706 616 864 595 498 4: 466 514 333 595 536 4: 786 862 165 128 378 4: 203 918 64 191 419 4: 622 299 881 697 928 4: 998 278 980 592 161 4: 140 786 46 506 941 4: 194 284 622 466 941 4: 468 484 769 928 858 4: 335 645 973 766 848 2/12 Test #4: task_utest ....................... Passed 0.02 sec test 6 Start 6: kalign_itest_BB11001.tfa 6: Test command: /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/src/kalign "/build/reproducible-path/kalign-3.4.0/tests/data/BB11001.tfa" 6: Working Directory: /build/reproducible-path/kalign-3.4.0/tests 6: Test timeout computed to be: 1500 3: [2024-05-30 04:37:49] : LOG : CPU Time: 0.02u 00:00:00.01 Elapsed: 00:00:00.00 3/12 Test #3: edist_utest ...................... Passed 0.03 sec test 7 Start 7: kalign_itest_BB11001_EOF.msf 7: Test command: /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/src/kalign "/build/reproducible-path/kalign-3.4.0/tests/data/BB11001_EOF.msf" 7: Working Directory: /build/reproducible-path/kalign-3.4.0/tests 7: Test timeout computed to be: 1500 5: Aligned: 5: ---GKGDPKKPRGKMSSYAFFVQTSREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMKTYIPPKGE---------- 5: ------MQDRVKRPMNAFIVWSRDQRRKMALENPRMR-NS-EISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREKYPNYKYRP---RRKAKMLPK 5: MKKLKKHPDFPKKPLTPYFRFFMEKRAKYAKLHPEMS-NL-DLTKILSKKYKELPEKKKMKYIQDFQREKQEFERNLARFREDHPDLIQNAKK--- 5: --------MHIKKPLNAFMLYMKEMRANVVAESTLKE-SA-AINQILGRRWHALSREEQAKYYELARKERQLHMQLYPGWSARDNYGKKKKRKREK 6: 6: Kalign (3.4.0) 6: 6: Copyright (C) 2006,2019,2020,2021,2023 Timo Lassmann 6: 6: This program comes with ABSOLUTELY NO WARRANTY; for details type: 6: `kalign -showw'. 6: This is free software, and you are welcome to redistribute it 6: under certain conditions; consult the COPYING file for details. 6: 6: Please cite: 6: Lassmann, Timo. 6: "Kalign 3: multiple sequence alignment of large data sets." 6: Bioinformatics (2019) 6: https://doi.org/10.1093/bioinformatics/btz795 6: 6: [2024-05-30 04:37:49] : LOG : Detected protein sequences. 6: [2024-05-30 04:37:49] : LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB11001.tfa. 6: [2024-05-30 04:37:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 6: [2024-05-30 04:37:49] : LOG : Calculating pairwise distances 4/12 Test #5: C++Lib ........................... Passed 0.02 sec test 8 Start 8: kalign_itest_BB12006.msf 8: Test command: /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/src/kalign "/build/reproducible-path/kalign-3.4.0/tests/data/BB12006.msf" 8: Working Directory: /build/reproducible-path/kalign-3.4.0/tests 8: Test timeout computed to be: 1500 6: [2024-05-30 04:37:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 6: [2024-05-30 04:37:49] : LOG : Building guide tree. 6: [2024-05-30 04:37:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 6: [2024-05-30 04:37:49] : LOG : Aligning 6: [2024-05-30 04:37:49] : LOG : CPU Time: 0.01u 00:00:00.00 Elapsed: 00:00:00.00 6: >1aab_ 6: ---GKGDPKKPRGKMSSYAFFVQTSREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKG 6: KFEDMAKADKARYEREMKTYIPPKGE---------- 6: >1j46_A 6: ------MQDRVKRPMNAFIVWSRDQRRKMALENPRMR-NS-EISKQLGYQWKMLTEAEKW 6: PFFQEAQKLQAMHREKYPNYKYRP---RRKAKMLPK 6: >1k99_A 6: MKKLKKHPDFPKKPLTPYFRFFMEKRAKYAKLHPEMS-NL-DLTKILSKKYKELPEKKKM 6: KYIQDFQREKQEFERNLARFREDHPDLIQNAKK--- 6: >2lef_A 6: --------MHIKKPLNAFMLYMKEMRANVVAESTLKE-SA-AINQILGRRWHALSREEQA 6: KYYELARKERQLHMQLYPGWSARDNYGKKKKRKREK 7: 7: Kalign (3.4.0) 7: 7: Copyright (C) 2006,2019,2020,2021,2023 Timo Lassmann 7: 7: This program comes with ABSOLUTELY NO WARRANTY; for details type: 7: `kalign -showw'. 7: This is free software, and you are welcome to redistribute it 7: under certain conditions; consult the COPYING file for details. 7: 7: Please cite: 7: Lassmann, Timo. 7: "Kalign 3: multiple sequence alignment of large data sets." 7: Bioinformatics (2019) 7: https://doi.org/10.1093/bioinformatics/btz795 7: 7: [2024-05-30 04:37:49] : LOG : Detected protein sequences. 7: [2024-05-30 04:37:49] : LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB11001_EOF.msf. 7: [2024-05-30 04:37:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 7: [2024-05-30 04:37:49] : LOG : Calculating pairwise distances 7: [2024-05-30 04:37:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 7: [2024-05-30 04:37:49] : LOG : Building guide tree. 8: 8: Kalign (3.4.0) 8: 8: Copyright (C) 2006,2019,2020,2021,2023 Timo Lassmann 8: 8: This program comes with ABSOLUTELY NO WARRANTY; for details type: 8: `kalign -showw'. 8: This is free software, and you are welcome to redistribute it 8: under certain conditions; consult the COPYING file for details. 8: 8: Please cite: 8: Lassmann, Timo. 8: "Kalign 3: multiple sequence alignment of large data sets." 8: Bioinformatics (2019) 8: https://doi.org/10.1093/bioinformatics/btz795 8: 8: [2024-05-30 04:37:49] : LOG : Detected protein sequences. 8: [2024-05-30 04:37:49] : LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB12006.msf. 8: [2024-05-30 04:37:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 8: [2024-05-30 04:37:49] : LOG : Calculating pairwise distances 5/12 Test #6: kalign_itest_BB11001.tfa ......... Passed 0.03 sec test 9 Start 9: kalign_itest_BB12006.tfa 9: Test command: /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/src/kalign "/build/reproducible-path/kalign-3.4.0/tests/data/BB12006.tfa" 9: Working Directory: /build/reproducible-path/kalign-3.4.0/tests 9: Test timeout computed to be: 1500 7: [2024-05-30 04:37:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 7: [2024-05-30 04:37:49] : LOG : Aligning 7: [2024-05-30 04:37:49] : 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 8: [2024-05-30 04:37:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 8: [2024-05-30 04:37:49] : LOG : Building guide tree. 8: [2024-05-30 04:37:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 8: [2024-05-30 04:37:49] : LOG : Aligning 6/12 Test #7: kalign_itest_BB11001_EOF.msf ..... Passed 0.04 sec test 10 Start 10: kalign_itest_BB30014.msf 10: Test command: /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/src/kalign "/build/reproducible-path/kalign-3.4.0/tests/data/BB12006.tfa" 10: Working Directory: /build/reproducible-path/kalign-3.4.0/tests 10: Test timeout computed to be: 1500 8: [2024-05-30 04:37:49] : LOG : CPU Time: 0.02u 00:00:00.01 Elapsed: 00:00:00.00 8: >1al2_ad 8: G-LPVMNTPGSNQYLTADNFQSPCALPEFDVTPPIDIPGEVKNMMELAEI-DTMIPFDLS 8: ATKKNTMEMYRVRLSDKPHTDDPILCLSLSPASDPRLSHTMLGEILNYYTHWAGSLKFTF 8: LFCGSMMATGKLLVSYAPPGADPPKKRKEAMLGTHVIWDIGLQSSCTMVVPWISNTTYRQ 8: TIDD-----SFTEGGYISVFYQTRIVVPLSTPREMDILGFVSACNDFSVRLLRDTTHIEQ 8: KA--- 8: >1bbt_ac 8: GIFPVACSDGYGGLVTTDPKTADPVYGKVFNPPRNQLPGRFTNLLDVAEACPTFL--R-- 8: ---FEGGVPYVTTKTDSDRV---LAQFDMSLAAK-HMSNTFLAGLAQYYTQYSGTINLHF 8: MFTGPTDAKARYMVAYAPPGMEPPKTPEAAAHCIHAEWDTGLNSKFTFSIPYLSAADYTY 8: TASDVA--ETTNVQGWVCLFQITH-----GKADGDALVVLASAGKDFELRLPVDARAE-- 8: ----- 8: >1bev_ac 8: G-LPTKPGPGSYQFMTTDEDCSPCILPDFQPTPEIFIPGKVNNLLEIAQV-ESILEAN-N 8: REGVEGVERYVIPVSVQDALDAQIYALRLELGGSGPLSSSLLGTLAKHYTQWSGSVEITC 8: MFTGTFMTTGKVLLAYTPPGGDMPRNREEAMLGTHVIWDFGLQSSITLVIPWISASHFRG 8: VSNDDVLNYQYYAAGHVTIWYQTNMVIPPGFPNTAGIIMMIAAQPNFSFRIQKDREDMTQ 8: TAILQ 8: >1mec_ac 8: SPIPVTIREHAGTWYSTLPDSTVPIYGKTPVAPANYMVGEYKDFLEIAQI-PTFIGNK-- 8: ---MPNAVPYIEASNTAVKTQ-PLAVYQVTLSCS-CLANTFLAALSRNFAQYRGSLVYTF 8: VFTGTAMMKGKFLIAYTPPGAGKPTSRDQAMQATYAIWDLGLNSSYSFTVPFISPTHFRM 8: VGTDQA--NITNVDGWVTVWQLTPLTYPPGCPTSAKILTMVSAGKDFSLKMPISPAPWSP 8: Q---- 9: 9: Kalign (3.4.0) 9: 9: Copyright (C) 2006,2019,2020,2021,2023 Timo Lassmann 9: 9: This program comes with ABSOLUTELY NO WARRANTY; for details type: 9: `kalign -showw'. 9: This is free software, and you are welcome to redistribute it 9: under certain conditions; consult the COPYING file for details. 9: 9: Please cite: 9: Lassmann, Timo. 9: "Kalign 3: multiple sequence alignment of large data sets." 9: Bioinformatics (2019) 9: https://doi.org/10.1093/bioinformatics/btz795 9: 9: [2024-05-30 04:37:49] : LOG : Detected protein sequences. 9: [2024-05-30 04:37:49] : LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB12006.tfa. 9: [2024-05-30 04:37:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 9: [2024-05-30 04:37:49] : LOG : Calculating pairwise distances 7/12 Test #8: kalign_itest_BB12006.msf ......... Passed 0.05 sec test 11 Start 11: kalign_itest_BB30014.tfa 11: Test command: /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/src/kalign "/build/reproducible-path/kalign-3.4.0/tests/data/BB30014.tfa" 11: Working Directory: /build/reproducible-path/kalign-3.4.0/tests 11: Test timeout computed to be: 1500 9: [2024-05-30 04:37:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 9: [2024-05-30 04:37:49] : LOG : Building guide tree. 9: [2024-05-30 04:37:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 9: [2024-05-30 04:37:49] : LOG : Aligning 10: 10: Kalign (3.4.0) 10: 10: Copyright (C) 2006,2019,2020,2021,2023 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: [2024-05-30 04:37:49] : LOG : Detected protein sequences. 10: [2024-05-30 04:37:49] : LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB12006.tfa. 10: [2024-05-30 04:37:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 10: [2024-05-30 04:37:49] : LOG : Calculating pairwise distances 10: [2024-05-30 04:37:49] : LOG : CPU Time: 0.01u 00:00:00.00 Elapsed: 00:00:00.00 10: [2024-05-30 04:37:49] : LOG : Building guide tree. 10: [2024-05-30 04:37:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 10: [2024-05-30 04:37:49] : LOG : Aligning 9: [2024-05-30 04:37:49] : LOG : CPU Time: 0.02u 00:00:00.01 Elapsed: 00:00:00.00 9: >1al2_ad 9: G-LPVMNTPGSNQYLTADNFQSPCALPEFDVTPPIDIPGEVKNMMELAEI-DTMIPFDLS 9: ATKKNTMEMYRVRLSDKPHTDDPILCLSLSPASDPRLSHTMLGEILNYYTHWAGSLKFTF 9: LFCGSMMATGKLLVSYAPPGADPPKKRKEAMLGTHVIWDIGLQSSCTMVVPWISNTTYRQ 9: TIDD-----SFTEGGYISVFYQTRIVVPLSTPREMDILGFVSACNDFSVRLLRDTTHIEQ 9: KA--- 9: >1bbt_ac 9: GIFPVACSDGYGGLVTTDPKTADPVYGKVFNPPRNQLPGRFTNLLDVAEACPTFL--R-- 9: ---FEGGVPYVTTKTDSDRV---LAQFDMSLAAK-HMSNTFLAGLAQYYTQYSGTINLHF 9: MFTGPTDAKARYMVAYAPPGMEPPKTPEAAAHCIHAEWDTGLNSKFTFSIPYLSAADYTY 9: TASDVA--ETTNVQGWVCLFQITH-----GKADGDALVVLASAGKDFELRLPVDARAE-- 9: ----- 9: >1bev_ac 9: G-LPTKPGPGSYQFMTTDEDCSPCILPDFQPTPEIFIPGKVNNLLEIAQV-ESILEAN-N 9: REGVEGVERYVIPVSVQDALDAQIYALRLELGGSGPLSSSLLGTLAKHYTQWSGSVEITC 9: MFTGTFMTTGKVLLAYTPPGGDMPRNREEAMLGTHVIWDFGLQSSITLVIPWISASHFRG 9: VSNDDVLNYQYYAAGHVTIWYQTNMVIPPGFPNTAGIIMMIAAQPNFSFRIQKDREDMTQ 9: TAILQ 9: >1mec_ac 9: SPIPVTIREHAGTWYSTLPDSTVPIYGKTPVAPANYMVGEYKDFLEIAQI-PTFIGNK-- 9: ---MPNAVPYIEASNTAVKTQ-PLAVYQVTLSCS-CLANTFLAALSRNFAQYRGSLVYTF 9: VFTGTAMMKGKFLIAYTPPGAGKPTSRDQAMQATYAIWDLGLNSSYSFTVPFISPTHFRM 9: VGTDQA--NITNVDGWVTVWQLTPLTYPPGCPTSAKILTMVSAGKDFSLKMPISPAPWSP 9: Q---- 8/12 Test #9: kalign_itest_BB12006.tfa ......... Passed 0.05 sec test 12 Start 12: DSSIM_takes_a_min 12: Test command: /build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf/tests/dssim 12: Working Directory: /build/reproducible-path/kalign-3.4.0/tests 12: Test timeout computed to be: 1500 11: 11: Kalign (3.4.0) 11: 11: Copyright (C) 2006,2019,2020,2021,2023 Timo Lassmann 11: 11: This program comes with ABSOLUTELY NO WARRANTY; for details type: 11: `kalign -showw'. 11: This is free software, and you are welcome to redistribute it 11: under certain conditions; consult the COPYING file for details. 11: 11: Please cite: 11: Lassmann, Timo. 11: "Kalign 3: multiple sequence alignment of large data sets." 11: Bioinformatics (2019) 11: https://doi.org/10.1093/bioinformatics/btz795 11: 11: [2024-05-30 04:37:49] : LOG : Detected protein sequences. 11: [2024-05-30 04:37:49] : LOG : Read 44 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB30014.tfa. 11: [2024-05-30 04:37:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 11: [2024-05-30 04:37:49] : LOG : Calculating pairwise distances 10: [2024-05-30 04:37:49] : LOG : CPU Time: 0.02u 00:00:00.01 Elapsed: 00:00:00.00 10: >1al2_ad 10: G-LPVMNTPGSNQYLTADNFQSPCALPEFDVTPPIDIPGEVKNMMELAEI-DTMIPFDLS 10: ATKKNTMEMYRVRLSDKPHTDDPILCLSLSPASDPRLSHTMLGEILNYYTHWAGSLKFTF 10: LFCGSMMATGKLLVSYAPPGADPPKKRKEAMLGTHVIWDIGLQSSCTMVVPWISNTTYRQ 10: TIDD-----SFTEGGYISVFYQTRIVVPLSTPREMDILGFVSACNDFSVRLLRDTTHIEQ 10: KA--- 10: >1bbt_ac 10: GIFPVACSDGYGGLVTTDPKTADPVYGKVFNPPRNQLPGRFTNLLDVAEACPTFL--R-- 10: ---FEGGVPYVTTKTDSDRV---LAQFDMSLAAK-HMSNTFLAGLAQYYTQYSGTINLHF 10: MFTGPTDAKARYMVAYAPPGMEPPKTPEAAAHCIHAEWDTGLNSKFTFSIPYLSAADYTY 10: TASDVA--ETTNVQGWVCLFQITH-----GKADGDALVVLASAGKDFELRLPVDARAE-- 10: ----- 10: >1bev_ac 10: G-LPTKPGPGSYQFMTTDEDCSPCILPDFQPTPEIFIPGKVNNLLEIAQV-ESILEAN-N 10: REGVEGVERYVIPVSVQDALDAQIYALRLELGGSGPLSSSLLGTLAKHYTQWSGSVEITC 10: MFTGTFMTTGKVLLAYTPPGGDMPRNREEAMLGTHVIWDFGLQSSITLVIPWISASHFRG 10: VSNDDVLNYQYYAAGHVTIWYQTNMVIPPGFPNTAGIIMMIAAQPNFSFRIQKDREDMTQ 10: TAILQ 10: >1mec_ac 10: SPIPVTIREHAGTWYSTLPDSTVPIYGKTPVAPANYMVGEYKDFLEIAQI-PTFIGNK-- 10: ---MPNAVPYIEASNTAVKTQ-PLAVYQVTLSCS-CLANTFLAALSRNFAQYRGSLVYTF 10: VFTGTAMMKGKFLIAYTPPGAGKPTSRDQAMQATYAIWDLGLNSSYSFTVPFISPTHFRM 10: VGTDQA--NITNVDGWVTVWQLTPLTYPPGCPTSAKILTMVSAGKDFSLKMPISPAPWSP 10: Q---- 12: [2024-05-30 04:37:49] : LOG : DSSim - a simplistic sequence simulator. 12: [2024-05-30 04:37:49] : LOG : Protein alignments - 20 seq 9/12 Test #10: kalign_itest_BB30014.msf ......... Passed 0.06 sec 11: [2024-05-30 04:37:49] : LOG : CPU Time: 0.04u 00:00:00.04 Elapsed: 00:00:00.00 11: [2024-05-30 04:37:49] : LOG : Building guide tree. 11: [2024-05-30 04:37:50] : LOG : CPU Time: 0.06u 00:00:00.06 Elapsed: 00:00:01.00 11: [2024-05-30 04:37:50] : LOG : Aligning 1: 0 6300 0 0 1: 0 0 6300 6300 1: 0 0 0 0 1: 0 0 0 0 1: 1: [2024-05-30 04:37:50] : LOG : Testing correctness of AVX bpm. 11: [2024-05-30 04:37:50] : LOG : CPU Time: 0.20u 00:00:00.19 Elapsed: 00:00:00.00 11: >1ags_A 11: ----------------------------------AEKPKLHYFNARGRMESTRWLLAAAG 11: VEFEEKFIKSAEDLDKLRNDG--YLMFQQVPMVEI-----DG--MKLVQTRAILNYIA-- 11: SKYNLY-RKDIKEK--------ALIDMYIE-GIADLGEMILLLPFTQ------------- 11: -PEEQDAKLALIKEK-IKNRYFPAFEKVLKSH--GQDYL-VGNKLSRADIHLVELLYY-- 11: -----VEE--LDSSLIS--S-FPLLKALKTRI-SNLPTVKKFLQPGSPRKPPMDEKSLEE 11: ARKIFRF------- 11: >GTA1_BOVIN 11: ----------------------------------AGKPTLHYFNGRGRMECIRWLLAAAG 11: VEFEEKFIEKPEDLDKLKNDG--SLMFQQVPMVEI-----DG--MKLVQTRAILNYIA-- 11: TKYNLY-GKDMKER--------ALIDMYSE-GVADLGEMIMHFPLCP------------- 11: -PAEKDAKLTLIREK-TTNRYLPAFENVLKSH--GQDYL-VGNKLSRADIHLVELLYY-- 11: -----VEE--LDPSLLA--N-FPLLKALKARV-SSLPAVKKFLQPGSQRKPPTDEKKIEE 11: ARKVFKF------- 11: >GTA1_MOUSE 11: ----------------------------------AGKPVLHYFNARGRMECIRWLLAAAG 11: VEFEEKFIQSPEDLEKLKKDG--NLMFDQVPMVEI-----DG--MKLAQTRAILNYIA-- 11: TKYDLY-GKDMKER--------ALIDMYSE-GILDLTEMIGQLVLCP------------- 11: -PDQREAKTALAKDR-TKNRYLPAFEKVLKSH--GQDYL-VGNRLTRVDIHLLEVLLY-- 11: -----VEE--FDASLLT--P-FPLLKAFKSRI-SSLPNVKKFLQPGSQRKPPMDAKQIQE 11: ARKAFKIQ------ 11: >GTC1_RAT 11: ----------------------------------PGKPVLHYFDGRGRMEPIRWLLAAAG 11: VEFEEQFLKTRDDLARLRNDG--SLMFQQVPMVEI-----DG--MKLVQTRAILNYIA-- 11: TKYNLY-GKDMKER--------ALIDMYAE-GVADLDEIVLHYPYIP------------- 11: -PGEKEASLAKIKDK-ARNRYFPAFEKVLKSH--GQDYL-VGNRLSRADVYLVQVLYH-- 11: -----VEE--LDPSALA--N-FPLLKALRTRV-SNLPTVKKFLQPGSQRKPLEDEKCVES 11: AVKIFS-------- 11: >GTC_RABIT 11: ----------------------------------AGKPKLHYFNARGRMESIRWLLTAAG 11: VEFEEKCMKTREDLEKLRKDG--VLMFQQVPMVEI-----DG--MKLVQTRAIFNYIA-- 11: DKHNLY-GKDIKER--------ALIDMYTE-GIVDLNELILTRPFLP------------- 11: -PEEQEAKLAQIKDK-AKNRYFPAFEKVLKSH--GQDYL-VGNKLSKADILLVELLYN-- 11: -----VEE--LNPGATA--S-FPLLQALKTRI-SNLPTVKKFLQPGSQRNPPDDEKCREE 11: AKIIFH-------- 11: >GTA1_RABIT 11: ---------------------------------MARKPLLHYFNGRGRMESIRWLLAAAG 11: EEFDEKFMETAEDLDKLRNDG--SLMYQQVPMVEI-----DG--MKLVQTRAILNYVA-- 11: NKHNLY-GKDMKER--------ALIDMYTE-GVADLYELVLLLPLCP------------- 11: -PEQKDAKVDFIKEK-IRTRYFPAFEKVLKSH--GQDYL-VGNRLSKADILLVELLYN-- 11: -----VEE--LDPSAIA--S-FPLLKALKTRI-SSLPTVKKFLQPGSQRKPPMDEKNLEK 11: AKKIFKIP------ 11: >GTA1_CAVPO 11: ----------------------------------SGKPVLHYFNVQGRMESIRWLLAAAG 11: VEFEEKLIMCQEDLDKLKNDG--LLMFQQVPMVEM-----DG--MKMVQSRAILNYIA-- 11: TKYNLY-GKDTKER--------LLIDMYTE-GMTDLYELFFKVILAP------------- 11: -PEEKDAAKSLIKDR-AKNRFLPAFEKVLKSH--GQGYL-VGNKLSKADILLTELLYM-- 11: -----VEE--FDASLLA--N-FTLLQALKTRV-SNLPNVKKFLQPGSQRKPFPTQEMFEE 11: MRKF---------- 11: >GTA3_RAT 11: ---------------------------------MEVKPKLYYFQGRGRMESIRWLLATAG 11: VEFEEEFLETREQYEKLQKDG--CLLFGQVPLVEI-----DG--MLLTQTRAILSYLA-- 11: AKYNLY-GKDLKER--------VRIDMYAD-GTQDLMMMIIGAPFKA------------- 11: -PQEKEESLALAVKR-AKNRYFPVFEKILKDH--GEAFL-VGNQLSWADIQLLEAILM-- 11: -----VEE--VSAPVLS--D-FPLLQAFKTRI-SNIPTIKKFLQPGSQRKPPPDGHYVDV 11: VRTVLKF------- 11: >GTA3_CHICK 11: ----------------------------------AAKPVLYYFNGRGKMESIRWLLAAAG 11: VEFEEVFLETREQYEKLLQSG--ILMFQQVPMVEI-----DG--MKLVQTRAILNYIA-- 11: GKYNLY-GKDLKER--------ALIDMYVG-GTDDLMGFLLSFPFLS------------- 11: -AEDKVKQCAFVVEK-ATSRYFPAYEKVLKDH--GQDFL-VGNRLSWADIHLLEAILM-- 11: -----VEE--KKSDALS--G-FPLLQAFKKRI-SSIPTIKKFLAPGSKRKPISDDKYVET 11: VRRVLRMYYDVKPH 11: >GTA2_CHICK 11: ---------------------------------MAGKPKLHYTRGRGKMESIRWLLAAAG 11: VEFEEEFIEKKEDLEKLRNDG--SLLFQQVPMVEI-----DG--MKMVQSRAILCYIA-- 11: GKYNLY-GKDLKER--------AWIDMYVE-GTTDLMGMIMALPFQA------------- 11: -ADVKEKNIALITER-ATTRYFPVYEKALKDH--GQDYL-VGNKLSWADIHLLEAILM-- 11: -----TEE--LKSDILS--A-FPLLQAFKGRM-SNVPTIKKFLQPGSQRKPPLDEKSIAN 11: VRKIFSF------- 11: >GTA1_CHICK 11: ---------------------------------MSGKPVLHYANTRGRMESVRWLLAAAG 11: VEFEEKFLEKKEDLQKLKSDG--SLLFQQVPMVEI-----DG--MKMVQTRAILNYIA-- 11: GKYNLY-GKDLKER--------ALIDMYVE-GLADLYELIMMNVVQP------------- 11: -ADKKEEHLANALDK-AANRYFPVFEKVLKDH--GHDFL-VGNKLSRADVHLLETILA-- 11: -----VEE--SKPDALA--K-FPLLQSFKART-SNIPNIKKFLQPGSQRKPRLEEKDIPR 11: LMAIFH-------- 11: >GTA1_ANTST 11: ---------------------------------MAGEQNIKYFNIKGRMEAIRWLLAVAG 11: VEFEEKFFETKEQLQKLKET---VLLFQQVPMVEI-----DG--MKLVQTRAILHYIA-- 11: EKYNLL-GKDMKEH--------AQIIMYSE-GTMDLMELIMIYPFLK------------- 11: -GEEKKQRLVEIANK-AKGRYFPAFENVLKTH--GQNFL-VGNQLSMADVQLFEAILM-- 11: -----VEE--KVPDALS--G-FPLLQAFKTRI-SNIPTVKTFLAPGSKRKPVPDAKYVED 11: IIKIFYF------- 11: >GTA4_HUMAN 11: ---------------------------------MAARPKLHYPNGRGRMESVRWVLAAAG 11: VEFDEEFLETKEQLYKLQDGN--HLLFQQVPMVEI-----DG--MKLVQTRSILHYIA-- 11: DKHNLF-GKNLKER--------TLIDMYVE-GTLDLLELLIMHPFLK------------- 11: -PDDQQKEVVNMAQK-AIIRYFPVFEKILRGH--GQSFL-VGNQLSLADVILLQTILA-- 11: -----LEE--KIPNILS--A-FPFLQEYTVKL-SNIPTIKRFLEPGSKKKPPPDEIYVRT 11: VYNIFRP------- 11: >1oe7_A 11: -----------------------------------DHIKVIYFNGRGRAESIRMTLVAAG 11: VNYEDERISF-QDWPKIKP----TIPGGRLPAVKITDNHGHV--KWMVESLAIARYMA-- 11: KKHHMM-GGTEEEY--------YNVEKLIG-QAEDLEHEYYKTLMKP------------- 11: -EEEKQKIIKEILNG-KVPVLLDIICESLKAS--TGKLA-VGDKVTLADLVLIAVIDH-- 11: -----VTD--LDKEFLT--GKYPEIHKHRENLLASSPRLAKYL---SDRA---------- 11: -------------- 11: >GTP1_BUFBU 11: -----------------------------------PEYTIIYFNARGRCEAMRMLMADQG 11: AQWKEEVVTS-DDWQKGDLKK--AAVYGQLPGFK------DGD-FTLYQSNAMLRLLA-- 11: RNHDLY-GKNPREA--------SLIDMVND-GVEDLRLKYLKMIYQN------------- 11: -YENGKDDYV----K-ALPTNLGHFERLLASNNEGKGFV-VGAHISFADYNLVDLLHN-- 11: -----HLV--LAPDCLS--G-FPLLCAYVKRI-SSRPKLEAYLSSDAHKKRPINGNGKQQ 11: -------------- 11: >GT28_SCHJA 11: -------------------------------------VKLIYFNGRGRAEPIRMILVAAG 11: VEFEDERIEF-QDWPKIKP----TIPGGRLPIVKITDKRGDV--KTMSESLAIARFIA-- 11: RKHNMM-GDTDDEY--------YIIEKMIG-QVEDVESEYHKTLIKP------------- 11: -PEEKEKISKEILNG-KVPILLQAICETLKES--TGNLT-VGDKVTLADVVLIASIDH-- 11: -----ITD--LDKEFLT--GKYPEIHKHRKHLLATSPKLAKYL---SERHATAF------ 11: -------------- 11: >GTS1_ASCSU 11: -----------------------------------PQYKLTYFDIRGLGEGARLIFHQAG 11: VKFEDNRLKR-EDWPALKP----KTPFGQLPLLEV-----DGE--VLAQSAAIYRYLG-- 11: RQFGLA-GKTPMEE--------AQVDSIFD-QFKDFMAELRPC-FRV-----LAGFE--- 11: -EGDKEKVLKEVAVP-ARDKHLPLLEKFLA--KSGSEYM-VGKSVTWADLVITDSLAS-- 11: -----WES--LIPDFLS--G-HLQLKKYIEHV-RELPNIKKWIAERPKTPY--------- 11: -------------- 11: >GTS9_CAEEL 11: ----------------------------------MVSYKLIYFQSRGNGEIARQVFAFAG 11: QEFIDERISK-EQWAEIKN----MTPFGQVPVLEV-----DGR--QLAQSITIVRYLS-- 11: KQFGIS-GKSSWEE--------AQVDALGD-QFKDYRVEARPF-FRA-----KMGFS--- 11: -DGDVDQLYKDLFVP-AFNKMYSIFTESLK--SSGSGFL-VGDSLTWMDLAIAQHSAD-- 11: -----LLE--ADGKILD--T-FLEMKDHQKKI-HSIPNVKKWIEKRPVTSR--------- 11: -------------- 11: >GTS3_CAEEL 11: ----------------------------------MVHYKLTYFNARGLAEISRQLFHMAG 11: VEFEDERINE-EKFSQLKP----TFPSGQVPILCI-----DGA--QFSQSTAIARYLA-- 11: RKFGFV-GQTAEEE--------LQADEVVD-TFKDFIESFRKFVIAV-----LSGES--- 11: -EEILKNIREEVIKP-AVKTYTAYLKAILE--KSSSGYL-VGNELTWADLVIADNLTT-- 11: -----LIN--AELLDIE--N-DKLLKEFREKI-IETPKLKEWLAKRPETRF--------- 11: -------------- 11: >GTS5_CAEEL 11: ----------------------------------MVSYKLTYFNGRGAGEVSRQIFAYAG 11: QQYEDNRVTQ-EQWPALKETC--AAPFGQLPFLEV-----DGK--KLAQSHAIARFLA-- 11: REFKLN-GKTAWEE--------AQVNSLAD-QYKDYSSEARPY-FYA-----VMGFG--- 11: -PGDVETLKKDIFLP-AFEKFYGFLVNFLK--ASGSGFL-VGDSLTWIDLAIAQHSAD-- 11: -----LI---AKGGDFS--K-FPELKAHAEKI-QAIPQIKKWIETRPVTPF--------- 11: -------------- 11: >GTS6_CAEEL 11: ----------------------------------MVHYKLVYFPLRARAEIARQIFAYAG 11: QDYSEENLSF-EQWPARKN----NTPFGQLPILEV-----DGK--PLGQSYAIARYLA-- 11: REFGIA-GQNDTEA--------AEVDAIAD-QFKDYLNDVSPY-LTV-----LAGFK--- 11: -PGDKDQLRTDVFVP-AFKKNFEFFENILA--SNHSGFF-VGNSLTWVDLLISQHVQD-- 11: -----ILD--KDLAVVE--E-FKKVLAHRKKV-QSIDRIQKYIANRPDYPF--------- 11: -------------- 11: >GTS4_CAEEL 11: ----------------------------------MPNYKLLYFDARALAEPIRIMFAMLN 11: VPYEDYRVSV-EEWSKLKP----TTPFGQLPILQV-----DGE--QFGQSMSITRYLA-- 11: RKFGLA-GKTAEEE--------AYADSIVD-QYRDFIFFFRQFTSSV-----FYGSD--- 11: -ADHINKVRFEVVEP-ARDDFLAIINKFLA--KSKSGFL-VGDSLTWADIVIADNLTS-- 11: -----LLK--NGFLDFN--K-EKKLEEFYNKI-HSIPEIKNYVATRKDSIV--------- 11: -------------- 11: >GTS2_CAEEL 11: ----------------------------------MVHYKLMCFDVRGLGEVIRQLFYLGD 11: VSFEDFRVSR-EEFKSLKS----NLPSGQLPVLEI-----DGV--MISQSASIGRFLA-- 11: RQYGYS-GKTPTEE--------MQVDSIID-LFKDFMLTFRQFFFAV-----IHGYP--- 11: -EYEKERMKRDIVKP-AIKNYFIALNKILL--RSKSGFL-VGDDLTWADLQIADNLST-- 11: -----LIN--IRLF-AE--K-EPHLNVFIRKL---------------------------- 11: -------------- 11: >GTS1_CAEEL 11: ----------------------------------MPHFKFYYFDVRGRGEAIRLLFHLAD 11: EKFDDERFGM-EQWGVLKS----EMPLGQVPVLEI-----DGV--KISQTTAIARYLG-- 11: HQFHRA-GTNAVDC--------ARLDMIAE-VIQEFMSSSGMGKFSR----VLLGMI--- 11: -QANKEQFFKENVLP-DVEKYAPIVEKFLL-ENGNNGLL-LGDRETWVDVFAAESFSK-- 11: -----LIDY-GSPDALD--A-YPHILALINRV-FNHPNIKKYVSQRKATPA--------- 11: -------------- 11: >GTS_ANOGA 11: -------------------LSSSSISRSSLKCNIMPDYKVYYFNVKALGEPLRFLLSYGN 11: LPFDDVRITR-EEWPALKP----TMPMRQMPVLEV-----DGK--RVHQSLAMCRYVA-- 11: KQINLA-GDNPLEA--------LQIDAIVD-TINDFRLKIAIVAYEP------DDMV--- 11: -KEKKMVTLNNEVIPFYLTKLNVIAKE-------NNGHL-VLGKPTWADVYFAGILDY-- 11: -----L-NYLTKTNLLE--N-FPNLQEVVQKV-LDNENVKAYIAKRPITEV--------- 11: -------------- 11: >GTS2_MANSE 11: ----------------------------------MPKVVFHYFGAKGWARP-TMLLAYGG 11: QEFEDHRVEY-EQWPEFKP----NTPFGQMPVLEI-----DGK--KYAQSLAISRYLG-- 11: RKYGLA-GNDIEED--------FEIDQIVD-FVNDIRASAASVEYEQ------DAAN--- 11: -KEVKHEENMKNKYPFQLNKLSEIITK-------NNGFL-ALGRLTWADFVFVGMFDY-- 11: -----LKKMLRMPDLEE--Q-YPIFKKPIETV-LSNPKLKAYLDSAPKKEF--------- 11: -------------- 11: >GT1_ONCVO 11: FITMNFVVEAASSNANQAITSENSIKPKGKLQPQMEKYTLTYFNGRGRAEVIRLLFALAN 11: VSYEDNRITR-DEWKYLKP----RTPFGHVPMLNV-----SGN--VLGESHAIELLLG-- 11: GRFGLL-GTNDWEE--------AKIMAVVL-NIDELFQKLIPWTHEK-----NTTKK--- 11: -AELFRNLSESDVMP-FLGRY----EKFLK--ESTTGHI-VGNKVSVADLTVFNMLMT-- 11: -----L----DDEVKLE--E-YPQLASFVNKI-GQMPGIKEWIKKRPKTYF--------- 11: -------------- 11: >SC11_OMMSL 11: ----------------------------------MPSYTLYYFNGRGRAEICRMLFAVAS 11: VQYQDKRIEL-AEWTQFKT----KMPCHMLPILEI-----DTE-TQVPQSMAISRYLA-- 11: REFGFY-GKNNMDM--------FKVDCLCD-SLFELFNDYMAVYNEK------------- 11: -DAAKKTELQKRFQN-TCLRVLPYMEKTLEANKGGAGWF-IGDQILLCDMMTHAALEN-- 11: -----PIQ--ENANLLK--E-YPKLAALRTRV-AAHPKIAAYIKKRNNTAF--------- 11: -------------- 11: >SC2_OCTDO 11: ----------------------------------MPSYTLNYFNHRGRAEICRMLFAAAG 11: VQYNDRRIET-SEWSNMRS----KMPCSMMPMLDI-----DNR-HQIPQTMAIARYLA-- 11: REFGFH-GKNNMEM--------ARVEYISD-CFYDILDDYLRMYQDDNCRMMFQRSG--- 11: -DRNGSSEKRTRYQE-TLRRILPFMERTLEMYKSGGQFF-MGDQMTMADMMCYCALEN-- 11: -----PIM--EESSLLN--S-YPKLQALRTRV-MSHLKMSPYLKKRSSTEF--------- 11: -------------- 11: >1aw9_ 11: ----------------------------------AP-LKLYGMPLSPNVVRVATVLNEKG 11: LDFEIVPVDLTTGAHKQPDFL-ALNPFGQIPALV------DGD-EVLFESRAINRYIA-- 11: SKYASE-GTDLLPATASA----AKLEVWLEVESHHFYPNASPLVFQL----LVRPLL--- 11: -GGAPDAAVVDKHAE-QLAKVLDVYEAHLA----RNKYL-AGDEFTLADANHASYLLY-- 11: -----L-SKTPKAGLVA--A-RPHVKAWWEAI-VARPAFQKTVAAIPLPPPP-------- 11: -------------- 11: >GTH3_ARATH 11: -----------------------------------V-LTIYA-PLFASSKRAVVTLVEKG 11: VSFETVNVDLMKGEQRQPEYL-AIQPFGKIPVLV------DGD-YKIFESRAIMRYIA-- 11: EKYRSQ-GPDLLGKTIEER---GQVEQWLDVEATSYHPPLLALTLNI----VFAPLM--- 11: -GFPADEKVIKESEE-KLAEVLDVYEAQLS----KNEYL-AGDFVSLADLAHLPFTEY-- 11: -----LVGPIGKAHLIK--D-RKHVSAWWDKI-SSRAAWKEVSAKYSLPV---------- 11: -------------- 11: >GTH7_ARATH 11: ----------------------------------MV-VKVYGQIKAANPQRVLLCFLEKD 11: IEFEVIHVDLDKLEQKKPQHL-LRQPFGQVPAIE------DGY-LKLFESRAIARYYA-- 11: TKYADQ-GTDLLGKTLEGR---AIVDQWVEVENNYFYAVALPLVMNV----VFKPKS--- 11: -GKPCDVALVEELKV-KFDKVLDVYENRLA----TNRYL-GGDEFTLADLSHMPGMRY-- 11: -----IMNETSLSGLVT--S-RENLNRWWNEI-SARPAWKKLMELAAY------------ 11: -------------- 11: >GTH6_ARATH 11: ---------------------------------MAS-IKVHGVPMSTATMRVLATLYEKD 11: LQFELIPVDMRAGAHKQEAHL-ALNPFGQIPALE------DGD-LTLFESRAITQYLA-- 11: EEYSEK-GEKLISQDCKKVK--ATTNVWLQVEGQQFDPNASKLAFER----VFKGMF--- 11: -GMTTDPAAVQELEG-KLQKVLDVYEARLA----KSEFL-AGDSFTLADLHHLPAIHY-- 11: -----LLGTDSKV-LFD--S-RPKVSEWIKKI-SARPAWAKVIDLQKQ------------ 11: -------------- 11: >GTH_SILCU 11: -----------------------------------T-IKVHGNPRSTATQRVLVALYEKH 11: LEFEFVPIDMGAGGHKQPSYL-ALNPFGQVPALE------DGE-IKLFESRAITKYLAYT 11: HDHQNE-GTSLIHKE-KHEM--AAQLVWEEVEAHQFDPVASKLAWEL----VFKGIF--- 11: -GMQTDTTVVEENEA-KLAKVLDVYEARLT----ESEYLGANDSFTLVDLHHLPLLGY-- 11: -----LMGTQVKK-LFE--E-RAHVSAWCKKI-LARPSWEKTLALQKQA----------- 11: -------------- 11: >GTH1_ARATH 11: ---------------------------------MAG-IKVFGHPASTATRRVLIALHEKN 11: VDFEFVHVELKDGEHKKEPFI-LRNPFGKVPAFE------DGD-FKIFESRAITQYIA-- 11: HEFSDK-GNNLLST-GKDM---AIIAMGIEIESHEFDPVGSKLVWEQ----VLKPLY--- 11: -GMTTDKTVVEEEEA-KLAKVLDVYEHRLG----ESKYL-ASDHFTLVDLHTIPVIQY-- 11: -----LLGTPTKK-LFD--E-RPHVSAWVADI-TSRPSAQKVL----------------- 11: -------------- 11: >GTH4_ARATH 11: ----------------------------------AG-IKVFGHPASIATRRVLIALHEKN 11: LDFELVHVELKDGEHKKEPFL-SRNPFGQVPAFE------DGD-LKLFESRAITQYIA-- 11: HRYENQ-GTNLLQTDSKNISQYAIMAIGMQVEDHQFDPVASKLAFEQ----IFKSIY--- 11: -GLTTDEAVVAEEEA-KLAKVLDVYEARLK----EFKYL-AGETFTLTDLHHIPAIQY-- 11: -----LLGTPTKK-LFT--E-RPRVNEWVAEI-TKRPASEKVQ----------------- 11: -------------- 11: >GTH4_MAIZE 11: ---------------------------------ATPAVKVYGWAISPFVSRALLALEEAG 11: VDYELVPMSRQDGDHRRPEHL-ARNPFGKVPVLE------DGD-LTLFESRAIARHVL-- 11: RKHKP----ELLGGGR-LEQT-AMVDVWLEVEAHQLSPPAIAIVVEC----VFAPFL--- 11: -GRERNQAVVDENVE-KLKKVLEVYEARLA----TCTYL-AGDFLSLADLSPFTIMHC-- 11: -----LMATEYAA-LVH--A-LPHVSAWWQGL-AARPAANKVAQFMPVGAGAPKEQE--- 11: -------------- 11: >GTH1_MAIZE 11: ---------------------------------A-P-MKLYGAVMSWNLTRCATALEEAG 11: SDYEIVPINFATAEHKSPEHL-VRNPFGQVPALQ------DGD-LYLFESRAICKYAA-- 11: RKNKP----ELLREGN-LEEA-AMVDVWIEVEANQYTAALNPILFQV----LISPML--- 11: -GGTTDQKVVDENLE-KLKKVLEVYEARLT----KCKYL-AGDFLSLADLNHVSVTLC-- 11: -----LFATPYAS-VLD--A-YPHVKAWWSGL-MERPSVQKVAALMKPSA---------- 11: -------------- 11: >GTH1_WHEAT 11: ---------------------------------MSP-VKVFGHPMLTNVARVLLFLEEVG 11: AEYELVPMDFVAGEHKRPQHV-QLNPFAKMPGFQ------DGD-LVLFESRAIAKYIL-- 11: RKYGGTAGLDLLGENSGIEEL-AMVDVWTEVEAQQYYPAISPVVFEC----IIIPFIIPG 11: GGAAPNQTVVDESLE-RLRGVLGIYEARLE----KSRYL-AGDSITFADLNHIPFTFY-- 11: -----FMTTPYAK-VFD--D-YPKVKAWWEML-MARPAVQRVCKHMPTEFKLGAQY---- 11: -------------- 11: >GTH5_ARATH 11: ---------------------------------MVT-VKLYGMAYSTCTKRVYTTAKEIG 11: VDVKIVPVDLMKGEHKEPAYLDNYHPFGVIPVLE------DEDGTKIYESRAISRYLV-- 11: AKYGK--GSSLLPSPSDPKAY-GLFEQAASVEYSSFDPPASSLAYER----VFAGMR--- 11: -GLKTNEELAKKYVD-TLNAKMDGYERILS----KQKYL-AGNDFTLADLFHLPY-GA-- 11: -----MVAQLEPT-VLD--S-KPHVKAWWAA--SLRVIPGRLLRNSSKEFM--------- 11: -------------- 11: >1eem_A 11: ---------------SARSLGKGSAPPGPV---PEGSIRIYSMRFCPFAERTRLVLKAKG 11: IRHEVININLKNKPEWFFK----KNPFGLVPVLENS----QGQ--LIYESAITCEYLD-- 11: EAYP---GKKLLPDDPYEK---ACQKMILE-LFSKVPSLVGSFIRSQ------------- 11: -N-KEDYAGLKE----EFRKEFTKLEEVLTNK--KTTFF-GGNSISMIDYLIWPWFER-- 11: -----LEAM-KLNECVD--H-TPKLKLWMAAM-KEDPTVSALLTSEKDWQGFLE-LYLQN 11: SPEACDYGL----- 11: >GTO1_MOUSE 11: -----------MSGESSRSLGKGSAPPGPV---PEGQIRVYSMRFCPFAQRTLMVLKAKG 11: IRHEVININLKNKPEWFFE----KNPLGLVPVLENS----QGH--LVTESVITCEYLD-- 11: EAYP---EKKLFPDDPYKK---ARQKMTLE-SFSKVPPLIASFVRSK------------- 11: -R-KEDSPNLRE----ALENEFKKLEEGMDNY--K-SFL-GGDSPSMVDYLTWPWFQR-- 11: -----LEAL-ELKECLA--H-TPKLKLWMAAM-QQDPVASSHKIDAKTYREYLN-LYLQD 11: SPEACDYGL----- 11: >GTO2_HUMAN 11: -----------MSGDATRTLGKGSQPPGPV---PEGLIRIYSMRFCPYSHRTRLVLKAKD 11: IRHEVVNINLRNKPEWYYT----KHPFGHIPVLETS----QCQ--LIYESVIACEYLD-- 11: DAYP---GRKLFPYDPYER---ARQKMLLE-LFCKVPHLTKECLVAL------------- 11: -RCGRECTNLKA----ALRQEFSNLEEILEYQ--NTTFF-GGTCISMIDYLLWPWFER-- 11: -----LDVY-GILDCVS--H-TPALRLWISAM-KWDPTVCALLMDKSIFQGFLN-LYFQN 11: NPNAFDFGLC---- 11: >YKJ3_CAEEL 11: -------------------MTVLAGVNSKIVKNGCWNHSYLQHAILPVAQRALIYASVKN 11: IPSDVINVHLQEKPDWYFS----KHYKGQVPTLEHD----EGK-KHVIESAVIPEYLD-- 11: DIYP---ETRILPTDPYEK---VQQKLLLDRISGQVSPAFYGVVQAV------------- 11: ----KNPDLREEKFA-DIKKAYDNAEQLLT----GDFYS-GTSKPGFVDYLLYPNIQRAY 11: WAAHIVPDFPLEAESFPGPN-YPRLSKWYKAL-ESIPEVAAASQPTENGVGFFKDYLGGS 11: PNYDYGLTKLSETI 10/12 Test #11: kalign_itest_BB30014.tfa ......... Passed 0.30 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: [2024-05-30 04:38:04] : LOG : Timing DYN 256 1: [2024-05-30 04:38:09] : LOG : 3.565782 - dyn 1: [2024-05-30 04:38:09] : LOG : 0.000000 - bpm 1: [2024-05-30 04:38:09] : LOG : 0.253590 - bpm_block2 1: [2024-05-30 04:38:09] : LOG : 0.282825 - bpm_block 11/12 Test #1: bpm_utest ........................ Passed 19.57 sec 12: [ ] 0% [ ] 0% [ ] 0% [ ] 0% [ ] 0% [ ] 1% [ ] 1% [ ] 1% [ ] 1% [ ] 1% [= ] 1% [= ] 1% [= ] 1% [= ] 1% [= ] 1% [= ] 2% [= ] 2% [= ] 2% [= ] 2% [= ] 2% [= ] 2% [= ] 2% [= ] 2% [= ] 2% [= ] 2% [= ] 3% [= ] 3% [= ] 3% [= ] 3% [= ] 3% [== ] 3% [== ] 3% [== ] 3% [== ] 3% [== ] 3% [== ] 4% [== ] 4% [== ] 4% [== ] 4% [== ] 4% [== ] 4% [== ] 4% [== ] 4% [== ] 4% [== ] 4% [== ] 5% [== ] 5% [== ] 5% [== ] 5% [== ] 5% [=== ] 5% [=== ] 5% [=== ] 5% [=== ] 5% [=== ] 5% [=== ] 6% [=== ] 6% [=== ] 6% [=== ] 6% [=== ] 6% [=== ] 6% [=== ] 6% [=== ] 6% [=== ] 6% [=== ] 6% [=== ] 7% [=== ] 7% [=== ] 7% [=== ] 7% [=== ] 7% [==== ] 7% [==== ] 7% [==== ] 7% [==== ] 7% [==== ] 7% [==== ] 8% [==== ] 8% [==== ] 8% [==== ] 8% [==== ] 8% [==== ] 8% [==== ] 8% [==== ] 8% [==== ] 8% [==== ] 8% [==== ] 9% [==== ] 9% [==== ] 9% [==== ] 9% [==== ] 9% [===== ] 9% [===== ] 9% [===== ] 9% [===== ] 9% [===== ] 9% [===== ] 10% [===== ] 10% [===== ] 10% [===== ] 10% [===== ] 10% [===== ] 10% [===== ] 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[==================================================] 100% [==================================================] 100% [==================================================] 100% [==================================================] 100% [==================================================] 100% [==================================================] 100% 12: [2024-05-30 04:38:20] : LOG : Protein alignments - 1000 seq 12: [ ] 0% [===== ] 10% [========== ] 20% [=============== ] 30% [==================== ] 40% [========================= ] 50% [============================== ] 60% [=================================== ] 70% [======================================== ] 80% [============================================= ] 90% [==================================================] 100% 12: [2024-05-30 04:39:04] : LOG : Protein alignments - 10000 seq 12: [ ] 0% [========================= ] 50% [==================================================] 100% 12: [2024-05-30 04:39:47] : LOG : DNA alignments - 20 seq 12: [ ] 0% [ ] 0% [ ] 0% [ ] 0% [ ] 0% [ ] 1% [ ] 1% [ ] 1% [ ] 1% [ ] 1% [= ] 1% [= ] 1% [= ] 1% [= ] 1% [= ] 1% [= ] 2% [= ] 2% [= ] 2% [= ] 2% [= ] 2% [= ] 2% [= ] 2% [= ] 2% [= ] 2% [= ] 2% [= ] 3% [= ] 3% [= ] 3% [= ] 3% [= ] 3% [== ] 3% [== ] 3% [== ] 3% [== ] 3% [== ] 3% [== ] 4% [== ] 4% [== ] 4% [== ] 4% [== ] 4% [== ] 4% [== ] 4% [== ] 4% [== ] 4% [== ] 4% [== ] 5% [== ] 5% [== ] 5% [== ] 5% [== ] 5% [=== ] 5% [=== ] 5% [=== ] 5% [=== ] 5% [=== ] 5% [=== ] 6% [=== ] 6% [=== ] 6% [=== ] 6% [=== ] 6% [=== ] 6% [=== ] 6% [=== ] 6% [=== ] 6% [=== ] 6% [=== ] 7% [=== ] 7% [=== ] 7% [=== ] 7% [=== ] 7% [==== ] 7% [==== ] 7% [==== ] 7% [==== ] 7% [==== ] 7% [==== ] 8% [==== ] 8% [==== ] 8% [==== ] 8% [==== ] 8% [==== ] 8% [==== ] 8% [==== ] 8% [==== ] 8% [==== ] 8% [==== ] 9% [==== ] 9% [==== ] 9% [==== ] 9% [==== ] 9% [===== ] 9% [===== ] 9% [===== ] 9% [===== ] 9% [===== ] 9% [===== ] 10% [===== ] 10% [===== ] 10% [===== ] 10% [===== ] 10% [===== ] 10% [===== ] 10% [===== ] 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Passed 235.34 sec 100% tests passed, 0 tests failed out of 12 Total Test time (real) = 235.46 sec make[1]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/kalign/ cd obj-arm-linux-gnueabihf && make -j4 install DESTDIR=/build/reproducible-path/kalign-3.4.0/debian/kalign AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/build/reproducible-path/kalign-3.4.0 -B/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/reproducible-path/kalign-3.4.0/debian/kalign/usr/lib/arm-linux-gnueabihf/libkalign.a -- Installing: /build/reproducible-path/kalign-3.4.0/debian/kalign/usr/include/kalign/kalign.h -- Installing: /build/reproducible-path/kalign-3.4.0/debian/kalign/usr/include/kalign/kalign_export.h -- Installing: /build/reproducible-path/kalign-3.4.0/debian/kalign/usr/lib/arm-linux-gnueabihf/cmake/kalign/kalignTargets.cmake -- Installing: /build/reproducible-path/kalign-3.4.0/debian/kalign/usr/lib/arm-linux-gnueabihf/cmake/kalign/kalignTargets-none.cmake -- Installing: /build/reproducible-path/kalign-3.4.0/debian/kalign/usr/lib/arm-linux-gnueabihf/cmake/kalign/kalignConfig.cmake -- Installing: /build/reproducible-path/kalign-3.4.0/debian/kalign/usr/lib/arm-linux-gnueabihf/cmake/kalign/kalignConfigVersion.cmake -- Installing: /build/reproducible-path/kalign-3.4.0/debian/kalign/usr/bin/kalign make[1]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-arm-linux-gnueabihf' debian/rules execute_after_dh_install make[1]: Entering directory '/build/reproducible-path/kalign-3.4.0' rm -rf debian/kalign/usr/lib/arm-linux-gnueabihf/ dh_install obj-arm-linux-gnueabihf/src/kalignfmt usr/bin make[1]: Leaving directory '/build/reproducible-path/kalign-3.4.0' dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb debian/rules override_dh_gencontrol make[1]: Entering directory '/build/reproducible-path/kalign-3.4.0' dh_gencontrol -- -Vsimde:Built-Using="simde (= 0.8.2-1), " make[1]: Leaving directory '/build/reproducible-path/kalign-3.4.0' dh_md5sums dh_builddeb dpkg-deb: building package 'kalign' in '../kalign_3.4.0-1_armhf.deb'. dpkg-deb: building package 'kalign-dbgsym' in '../kalign-dbgsym_3.4.0-1_armhf.deb'. dpkg-genbuildinfo --build=binary -O../kalign_3.4.0-1_armhf.buildinfo dpkg-genchanges --build=binary -O../kalign_3.4.0-1_armhf.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . 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/4214/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/4214/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/4214 and its subdirectories I: Current time: Thu May 30 18:42:10 +14 2024 I: pbuilder-time-stamp: 1717044130