I: pbuilder: network access will be disabled during build I: Current time: Fri Apr 25 07:50:58 -12 2025 I: pbuilder-time-stamp: 1745610658 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-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 dpkg-source: warning: cannot verify inline signature for ./kalign_3.4.0-1.dsc: unsupported subcommand 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/146242/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=40 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='7153c8cb29e743fc854b451b23cef676' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='146242' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.fXjeNJyn/pbuilderrc_QMSI --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.fXjeNJyn/b1 --logfile b1/build.log kalign_3.4.0-1.dsc' SUDO_GID='110' SUDO_UID='105' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://46.16.76.132:3128' I: uname -a Linux ionos1-amd64 6.1.0-33-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.133-1 (2025-04-10) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Mar 4 11:20 /bin -> usr/bin I: user script /srv/workspace/pbuilder/146242/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: amd64 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 ... 19840 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} libffi8{a} libfile-stripnondeterminism-perl{a} libgnutls30t64{a} libgssapi-krb5-2{a} libidn2-0{a} libjsoncpp26{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap2{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp3-9{a} libp11-kit0{a} libpipeline1{a} libproc2-0{a} libpsl5t64{a} librhash1{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsimde-dev{a} libssh2-1t64{a} libtasn1-6{a} libtool{a} libuchardet0{a} libunistring5{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 linux-sysctl-defaults lynx psmisc publicsuffix wget 0 packages upgraded, 60 newly installed, 0 to remove and 0 not upgraded. Need to get 31.8 MB of archives. After unpacking 122 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main amd64 libproc2-0 amd64 2:4.0.4-8 [65.4 kB] Get: 2 http://deb.debian.org/debian trixie/main amd64 procps amd64 2:4.0.4-8 [881 kB] Get: 3 http://deb.debian.org/debian trixie/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 4 http://deb.debian.org/debian trixie/main amd64 libmagic-mgc amd64 1:5.46-5 [338 kB] Get: 5 http://deb.debian.org/debian trixie/main amd64 libmagic1t64 amd64 1:5.46-5 [109 kB] Get: 6 http://deb.debian.org/debian trixie/main amd64 file amd64 1:5.46-5 [43.6 kB] Get: 7 http://deb.debian.org/debian trixie/main amd64 gettext-base amd64 0.23.1-1 [243 kB] Get: 8 http://deb.debian.org/debian trixie/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 9 http://deb.debian.org/debian trixie/main amd64 groff-base amd64 1.23.0-7 [1185 kB] Get: 10 http://deb.debian.org/debian trixie/main amd64 bsdextrautils amd64 2.41-4 [94.6 kB] Get: 11 http://deb.debian.org/debian trixie/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 12 http://deb.debian.org/debian trixie/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 13 http://deb.debian.org/debian trixie/main amd64 m4 amd64 1.4.19-7 [294 kB] Get: 14 http://deb.debian.org/debian trixie/main amd64 autoconf all 2.72-3.1 [494 kB] Get: 15 http://deb.debian.org/debian trixie/main amd64 autotools-dev all 20240727.1 [60.2 kB] Get: 16 http://deb.debian.org/debian trixie/main amd64 automake all 1:1.17-4 [862 kB] Get: 17 http://deb.debian.org/debian trixie/main amd64 autopoint all 0.23.1-1 [770 kB] Get: 18 http://deb.debian.org/debian trixie/main amd64 cmake-data all 3.31.6-2 [2268 kB] Get: 19 http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.4 [698 kB] Get: 20 http://deb.debian.org/debian trixie/main amd64 libarchive13t64 amd64 3.7.4-1.1 [349 kB] Get: 21 http://deb.debian.org/debian trixie/main amd64 libbrotli1 amd64 1.1.0-2+b7 [307 kB] Get: 22 http://deb.debian.org/debian trixie/main amd64 libkrb5support0 amd64 1.21.3-5 [33.0 kB] Get: 23 http://deb.debian.org/debian trixie/main amd64 libcom-err2 amd64 1.47.2-1+b1 [24.3 kB] Get: 24 http://deb.debian.org/debian trixie/main amd64 libk5crypto3 amd64 1.21.3-5 [81.5 kB] Get: 25 http://deb.debian.org/debian trixie/main amd64 libkeyutils1 amd64 1.6.3-6 [9456 B] Get: 26 http://deb.debian.org/debian trixie/main amd64 libkrb5-3 amd64 1.21.3-5 [326 kB] Get: 27 http://deb.debian.org/debian trixie/main amd64 libgssapi-krb5-2 amd64 1.21.3-5 [138 kB] Get: 28 http://deb.debian.org/debian trixie/main amd64 libunistring5 amd64 1.3-2 [477 kB] Get: 29 http://deb.debian.org/debian trixie/main amd64 libidn2-0 amd64 2.3.8-2 [109 kB] Get: 30 http://deb.debian.org/debian trixie/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-9 [19.8 kB] Get: 31 http://deb.debian.org/debian trixie/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-9 [57.5 kB] Get: 32 http://deb.debian.org/debian trixie/main amd64 libldap2 amd64 2.6.9+dfsg-2 [194 kB] Get: 33 http://deb.debian.org/debian trixie/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB] Get: 34 http://deb.debian.org/debian trixie/main amd64 libnghttp3-9 amd64 1.8.0-1 [67.7 kB] Get: 35 http://deb.debian.org/debian trixie/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 36 http://deb.debian.org/debian trixie/main amd64 libffi8 amd64 3.4.7-1 [23.9 kB] Get: 37 http://deb.debian.org/debian trixie/main amd64 libp11-kit0 amd64 0.25.5-3 [425 kB] Get: 38 http://deb.debian.org/debian trixie/main amd64 libtasn1-6 amd64 4.20.0-2 [49.9 kB] Get: 39 http://deb.debian.org/debian trixie/main amd64 libgnutls30t64 amd64 3.8.9-2 [1464 kB] Get: 40 http://deb.debian.org/debian trixie/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB] Get: 41 http://deb.debian.org/debian trixie/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 42 http://deb.debian.org/debian trixie/main amd64 libcurl4t64 amd64 8.13.0-1 [381 kB] Get: 43 http://deb.debian.org/debian trixie/main amd64 libexpat1 amd64 2.7.1-1 [108 kB] Get: 44 http://deb.debian.org/debian trixie/main amd64 libjsoncpp26 amd64 1.9.6-3 [81.7 kB] Get: 45 http://deb.debian.org/debian trixie/main amd64 librhash1 amd64 1.4.5-1 [132 kB] Get: 46 http://deb.debian.org/debian trixie/main amd64 libuv1t64 amd64 1.50.0-2 [154 kB] Get: 47 http://deb.debian.org/debian trixie/main amd64 cmake amd64 3.31.6-2 [12.0 MB] Get: 48 http://deb.debian.org/debian trixie/main amd64 libdebhelper-perl all 13.24.2 [90.9 kB] Get: 49 http://deb.debian.org/debian trixie/main amd64 libtool all 2.5.4-4 [539 kB] Get: 50 http://deb.debian.org/debian trixie/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 51 http://deb.debian.org/debian trixie/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 52 http://deb.debian.org/debian trixie/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 53 http://deb.debian.org/debian trixie/main amd64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 54 http://deb.debian.org/debian trixie/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 55 http://deb.debian.org/debian trixie/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 56 http://deb.debian.org/debian trixie/main amd64 gettext amd64 0.23.1-1 [1680 kB] Get: 57 http://deb.debian.org/debian trixie/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 58 http://deb.debian.org/debian trixie/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 59 http://deb.debian.org/debian trixie/main amd64 debhelper all 13.24.2 [919 kB] Get: 60 http://deb.debian.org/debian trixie/main amd64 libsimde-dev all 0.8.2-3 [467 kB] Fetched 31.8 MB in 2s (12.8 MB/s) Preconfiguring packages ... Selecting previously unselected package libproc2-0:amd64. (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 ... 19840 files and directories currently installed.) Preparing to unpack .../00-libproc2-0_2%3a4.0.4-8_amd64.deb ... Unpacking libproc2-0:amd64 (2:4.0.4-8) ... Selecting previously unselected package procps. Preparing to unpack .../01-procps_2%3a4.0.4-8_amd64.deb ... Unpacking procps (2:4.0.4-8) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../02-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../03-libmagic-mgc_1%3a5.46-5_amd64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../04-libmagic1t64_1%3a5.46-5_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.46-5) ... Selecting previously unselected package file. Preparing to unpack .../05-file_1%3a5.46-5_amd64.deb ... Unpacking file (1:5.46-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../06-gettext-base_0.23.1-1_amd64.deb ... Unpacking gettext-base (0.23.1-1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../07-libuchardet0_0.0.8-1+b2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../08-groff-base_1.23.0-7_amd64.deb ... Unpacking groff-base (1.23.0-7) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../09-bsdextrautils_2.41-4_amd64.deb ... Unpacking bsdextrautils (2.41-4) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../10-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../11-man-db_2.13.0-1_amd64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../12-m4_1.4.19-7_amd64.deb ... Unpacking m4 (1.4.19-7) ... Selecting previously unselected package autoconf. Preparing to unpack .../13-autoconf_2.72-3.1_all.deb ... Unpacking autoconf (2.72-3.1) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../14-autotools-dev_20240727.1_all.deb ... Unpacking autotools-dev (20240727.1) ... Selecting previously unselected package automake. Preparing to unpack .../15-automake_1%3a1.17-4_all.deb ... Unpacking automake (1:1.17-4) ... Selecting previously unselected package autopoint. Preparing to unpack .../16-autopoint_0.23.1-1_all.deb ... Unpacking autopoint (0.23.1-1) ... Selecting previously unselected package cmake-data. Preparing to unpack .../17-cmake-data_3.31.6-2_all.deb ... Unpacking cmake-data (3.31.6-2) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../18-libxml2_2.12.7+dfsg+really2.9.14-0.4_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.4) ... Selecting previously unselected package libarchive13t64:amd64. Preparing to unpack .../19-libarchive13t64_3.7.4-1.1_amd64.deb ... Unpacking libarchive13t64:amd64 (3.7.4-1.1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../20-libbrotli1_1.1.0-2+b7_amd64.deb ... Unpacking libbrotli1:amd64 (1.1.0-2+b7) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../21-libkrb5support0_1.21.3-5_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-5) ... Selecting previously unselected package libcom-err2:amd64. Preparing to unpack .../22-libcom-err2_1.47.2-1+b1_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.2-1+b1) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../23-libk5crypto3_1.21.3-5_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-5) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../24-libkeyutils1_1.6.3-6_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-6) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../25-libkrb5-3_1.21.3-5_amd64.deb ... Unpacking libkrb5-3:amd64 (1.21.3-5) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../26-libgssapi-krb5-2_1.21.3-5_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.21.3-5) ... Selecting previously unselected package libunistring5:amd64. Preparing to unpack .../27-libunistring5_1.3-2_amd64.deb ... Unpacking libunistring5:amd64 (1.3-2) ... Selecting previously unselected package libidn2-0:amd64. Preparing to unpack .../28-libidn2-0_2.3.8-2_amd64.deb ... Unpacking libidn2-0:amd64 (2.3.8-2) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../29-libsasl2-modules-db_2.1.28+dfsg1-9_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.28+dfsg1-9) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../30-libsasl2-2_2.1.28+dfsg1-9_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.28+dfsg1-9) ... Selecting previously unselected package libldap2:amd64. Preparing to unpack .../31-libldap2_2.6.9+dfsg-2_amd64.deb ... Unpacking libldap2:amd64 (2.6.9+dfsg-2) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../32-libnghttp2-14_1.64.0-1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.64.0-1) ... Selecting previously unselected package libnghttp3-9:amd64. Preparing to unpack .../33-libnghttp3-9_1.8.0-1_amd64.deb ... Unpacking libnghttp3-9:amd64 (1.8.0-1) ... Selecting previously unselected package libpsl5t64:amd64. Preparing to unpack .../34-libpsl5t64_0.21.2-1.1+b1_amd64.deb ... Unpacking libpsl5t64:amd64 (0.21.2-1.1+b1) ... Selecting previously unselected package libffi8:amd64. Preparing to unpack .../35-libffi8_3.4.7-1_amd64.deb ... Unpacking libffi8:amd64 (3.4.7-1) ... Selecting previously unselected package libp11-kit0:amd64. Preparing to unpack .../36-libp11-kit0_0.25.5-3_amd64.deb ... Unpacking libp11-kit0:amd64 (0.25.5-3) ... Selecting previously unselected package libtasn1-6:amd64. Preparing to unpack .../37-libtasn1-6_4.20.0-2_amd64.deb ... Unpacking libtasn1-6:amd64 (4.20.0-2) ... Selecting previously unselected package libgnutls30t64:amd64. Preparing to unpack .../38-libgnutls30t64_3.8.9-2_amd64.deb ... Unpacking libgnutls30t64:amd64 (3.8.9-2) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../39-librtmp1_2.4+20151223.gitfa8646d.1-2+b5_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Selecting previously unselected package libssh2-1t64:amd64. Preparing to unpack .../40-libssh2-1t64_1.11.1-1_amd64.deb ... Unpacking libssh2-1t64:amd64 (1.11.1-1) ... Selecting previously unselected package libcurl4t64:amd64. Preparing to unpack .../41-libcurl4t64_8.13.0-1_amd64.deb ... Unpacking libcurl4t64:amd64 (8.13.0-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../42-libexpat1_2.7.1-1_amd64.deb ... Unpacking libexpat1:amd64 (2.7.1-1) ... Selecting previously unselected package libjsoncpp26:amd64. Preparing to unpack .../43-libjsoncpp26_1.9.6-3_amd64.deb ... Unpacking libjsoncpp26:amd64 (1.9.6-3) ... Selecting previously unselected package librhash1:amd64. 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Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/kalign-3.4.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../kalign_3.4.0-1_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 amd64 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-x86_64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config 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/x86_64-linux-gnu -DBUILD_SHARED_LIBS=OFF -DINSTALL_PREFIX=/usr -DENABLE_SSE=OFF -DENABLE_AVX=OFF -DENABLE_AVX2=OFF .. -- The C compiler identification is GNU 14.2.0 -- The CXX compiler identification is GNU 14.2.0 -- 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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -- OpenMP version : 4.5 -- OpenMP flags : -fopenmp -- Configuring done (6.2s) -- Generating done (0.1s) 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: /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu dh_auto_configure --builddirectory obj-sse4.1 -- -DBUILD_SHARED_LIBS=OFF -DINSTALL_PREFIX=/usr -DENABLE_SSE=ON -DENABLE_AVX=OFF -DENABLE_AVX2=OFF cd obj-sse4.1 && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config 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/x86_64-linux-gnu -DBUILD_SHARED_LIBS=OFF -DINSTALL_PREFIX=/usr -DENABLE_SSE=ON -DENABLE_AVX=OFF -DENABLE_AVX2=OFF .. -- The C compiler identification is GNU 14.2.0 -- The CXX compiler identification is GNU 14.2.0 -- 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 HAVE_SSE -- Performing Test HAVE_SSE - Success -- SSE4.1 is enabled - target CPU must support it -- 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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -- OpenMP version : 4.5 -- OpenMP flags : -fopenmp -- Configuring done (3.4s) -- Generating done (0.1s) 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: /build/reproducible-path/kalign-3.4.0/obj-sse4.1 dh_auto_configure --builddirectory obj-avx -- -DBUILD_SHARED_LIBS=OFF -DINSTALL_PREFIX=/usr -DENABLE_SSE=ON -DENABLE_AVX=ON -DENABLE_AVX2=OFF cd obj-avx && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config 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/x86_64-linux-gnu -DBUILD_SHARED_LIBS=OFF -DINSTALL_PREFIX=/usr -DENABLE_SSE=ON -DENABLE_AVX=ON -DENABLE_AVX2=OFF .. -- The C compiler identification is GNU 14.2.0 -- The CXX compiler identification is GNU 14.2.0 -- 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 HAVE_SSE -- Performing Test HAVE_SSE - Success -- SSE4.1 is enabled - target CPU must support it -- Performing Test HAVE_AVX -- Performing Test HAVE_AVX - Success -- AVX is enabled - target CPU must support it -- 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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -- OpenMP version : 4.5 -- OpenMP flags : -fopenmp -- Configuring done (2.9s) -- Generating done (0.1s) 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: /build/reproducible-path/kalign-3.4.0/obj-avx dh_auto_configure --builddirectory obj-avx2 -- -DBUILD_SHARED_LIBS=OFF -DINSTALL_PREFIX=/usr -DENABLE_SSE=ON -DENABLE_AVX=ON -DENABLE_AVX2=ON cd obj-avx2 && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config 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/x86_64-linux-gnu -DBUILD_SHARED_LIBS=OFF -DINSTALL_PREFIX=/usr -DENABLE_SSE=ON -DENABLE_AVX=ON -DENABLE_AVX2=ON .. -- The C compiler identification is GNU 14.2.0 -- The CXX compiler identification is GNU 14.2.0 -- 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 HAVE_SSE -- Performing Test HAVE_SSE - Success -- SSE4.1 is enabled - target CPU must support it -- Performing Test HAVE_AVX -- Performing Test HAVE_AVX - Success -- AVX is enabled - target CPU must support it -- Performing Test HAVE_AVX2 -- Performing Test HAVE_AVX2 - Success -- AVX2 is enabled - target CPU must support it -- 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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_AVX2 -- OpenMP version : 4.5 -- OpenMP flags : -fopenmp -- Configuring done (4.7s) -- Generating done (0.1s) 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: /build/reproducible-path/kalign-3.4.0/obj-avx2 make[1]: Leaving directory '/build/reproducible-path/kalign-3.4.0' dh_auto_build cd obj-x86_64-linux-gnu && make -j40 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/kalign-3.4.0 -B/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' make -f lib/CMakeFiles/kalign_OBJ.dir/build.make lib/CMakeFiles/kalign_OBJ.dir/depend make -f lib/CMakeFiles/tldevel.dir/build.make lib/CMakeFiles/tldevel.dir/depend make -f lib/CMakeFiles/bpm_utest.dir/build.make lib/CMakeFiles/bpm_utest.dir/depend make -f lib/CMakeFiles/alphabet_utest.dir/build.make lib/CMakeFiles/alphabet_utest.dir/depend make -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-x86_64-linux-gnu' cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu && /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-x86_64-linux-gnu /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib/CMakeFiles/tldevel.dir/DependInfo.cmake "--color=" make -f lib/CMakeFiles/task_utest.dir/build.make lib/CMakeFiles/task_utest.dir/depend make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu && /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-x86_64-linux-gnu /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib/CMakeFiles/kalign_OBJ.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu && /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-x86_64-linux-gnu /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib/CMakeFiles/bpm_utest.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/kalign-3.4.0 /build/reproducible-path/kalign-3.4.0/lib 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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-x86_64-linux-gnu /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib/CMakeFiles/task_utest.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' make -f lib/CMakeFiles/edist_utest.dir/build.make lib/CMakeFiles/edist_utest.dir/build make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' make -f lib/CMakeFiles/alphabet_utest.dir/build.make lib/CMakeFiles/alphabet_utest.dir/build make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' make -f lib/CMakeFiles/kalign_OBJ.dir/build.make lib/CMakeFiles/kalign_OBJ.dir/build make -f lib/CMakeFiles/tldevel.dir/build.make lib/CMakeFiles/tldevel.dir/build make -f lib/CMakeFiles/bpm_utest.dir/build.make lib/CMakeFiles/bpm_utest.dir/build 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-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' [ 1%] Building C object lib/CMakeFiles/alphabet_utest.dir/src/alphabet.c.o [ 4%] Building C object lib/CMakeFiles/edist_utest.dir/src/tldevel.c.o [ 4%] Building C object lib/CMakeFiles/alphabet_utest.dir/src/tldevel.c.o [ 6%] Building C object lib/CMakeFiles/edist_utest.dir/src/euclidean_dist.c.o [ 8%] Building C object lib/CMakeFiles/edist_utest.dir/src/tlrng.c.o [ 8%] Building C object lib/CMakeFiles/tldevel.dir/src/tldevel.c.o [ 9%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/test.c.o cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -DUTEST_ALPHABET -Wall -Wextra -pedantic -MD -MT lib/CMakeFiles/alphabet_utest.dir/src/tldevel.c.o -MF CMakeFiles/alphabet_utest.dir/src/tldevel.c.o.d -o CMakeFiles/alphabet_utest.dir/src/tldevel.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/tldevel.c [ 17%] Building C object lib/CMakeFiles/task_utest.dir/src/tlrng.c.o [ 17%] Building C object lib/CMakeFiles/tldevel.dir/src/tlrng.c.o [ 17%] Building C object lib/CMakeFiles/bpm_utest.dir/src/tldevel.c.o [ 17%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/tldevel.c.o [ 17%] Building C object lib/CMakeFiles/task_utest.dir/src/task.c.o [ 17%] Building C object lib/CMakeFiles/edist_utest.dir/src/esl_stopwatch.c.o [ 21%] Building C object lib/CMakeFiles/tldevel.dir/src/esl_stopwatch.c.o [ 21%] Building C object lib/CMakeFiles/bpm_utest.dir/src/tlrng.c.o [ 22%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/tlmisc.c.o cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 24%] Building C object lib/CMakeFiles/task_utest.dir/src/tldevel.c.o cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -MD -MT lib/CMakeFiles/tldevel.dir/src/tldevel.c.o -MF CMakeFiles/tldevel.dir/src/tldevel.c.o.d -o CMakeFiles/tldevel.dir/src/tldevel.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/tldevel.c [ 24%] Building C object lib/CMakeFiles/tldevel.dir/src/tlmisc.c.o cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 25%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/tlrng.c.o [ 27%] Building C object lib/CMakeFiles/bpm_utest.dir/src/esl_stopwatch.c.o [ 29%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_alloc.c.o [ 29%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/esl_stopwatch.c.o cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && 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/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 33%] Building C object lib/CMakeFiles/bpm_utest.dir/src/bpm_test.c.o [ 33%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_op.c.o cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 36%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_io.c.o cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 36%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_misc.c.o [ 37%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_check.c.o cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 39%] Building C object lib/CMakeFiles/bpm_utest.dir/src/bpm.c.o cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 40%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_cmp.c.o cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 41%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/task.c.o cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 45%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/bisectingKmeans.c.o [ 45%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_sort.c.o [ 45%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/sequence_distance.c.o [ 47%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/alphabet.c.o cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 48%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/bpm.c.o [ 50%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/euclidean_dist.c.o cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 51%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/pick_anchor.c.o cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 /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; | ^~ /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); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 52%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_wrap.c.o /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); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 54%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_param.c.o cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_param.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_param.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_param.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/aln_param.c [ 56%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_mem.c.o [ 56%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_run.c.o cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 58%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/aln_setup.c [ 59%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_controller.c.o cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_controller.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_controller.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_controller.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/aln_controller.c [ 60%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_seqseq.c.o cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_seqseq.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_seqseq.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_seqseq.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/aln_seqseq.c [ 62%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_seqprofile.c.o [ 63%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/weave_alignment.c.o cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_seqprofile.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_seqprofile.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_seqprofile.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/aln_seqprofile.c cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 64%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_profileprofile.c.o cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_profileprofile.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_profileprofile.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_profileprofile.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/aln_profileprofile.c [ 66%] Linking C executable edist_utest cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/edist_utest.dir/link.txt --verbose=1 [ 67%] Linking C executable bpm_utest cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/edist_utest.dir/link.d 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-x86_64-linux-gnu' /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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/bpm_utest.dir/link.d 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 [ 67%] Built target edist_utest make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' [ 67%] Built target bpm_utest [ 68%] Linking C executable task_utest cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/task_utest.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' [ 70%] Linking C executable alphabet_utest cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/alphabet_utest.dir/link.txt --verbose=1 [ 71%] Linking C static library libtldevel.a cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cmake -P CMakeFiles/tldevel.dir/cmake_clean_target.cmake [ 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-x86_64-linux-gnu' cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu && /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-x86_64-linux-gnu /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib/CMakeFiles/kalign.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu && /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-x86_64-linux-gnu /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib/CMakeFiles/kalign_static.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/tldevel.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' make -f lib/CMakeFiles/kalign.dir/build.make lib/CMakeFiles/kalign.dir/build /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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/task_utest.dir/link.d CMakeFiles/task_utest.dir/src/tldevel.c.o CMakeFiles/task_utest.dir/src/tlrng.c.o CMakeFiles/task_utest.dir/src/task.c.o -o task_utest -lm make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' make -f lib/CMakeFiles/kalign_static.dir/build.make lib/CMakeFiles/kalign_static.dir/build make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' /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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/alphabet_utest.dir/link.d 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-x86_64-linux-gnu' /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-x86_64-linux-gnu' [ 72%] Linking C static library libkalign.a [ 72%] Built target task_utest cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cmake -P CMakeFiles/kalign.dir/cmake_clean_target.cmake [ 74%] Linking C static library libkalign_static.a cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cmake -P CMakeFiles/kalign_static.dir/cmake_clean_target.cmake [ 74%] Built target alphabet_utest [ 74%] Built target tldevel cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/kalign.dir/link.txt --verbose=1 cd 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'/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' [ 81%] Building C object src/CMakeFiles/kalign-bin.dir/parameters.c.o [ 81%] Building C object tests/CMakeFiles/largebench.dir/large_benchmark.c.o [ 81%] Building C object src/CMakeFiles/kalign-bin.dir/run_kalign.c.o [ 81%] Building C object tests/CMakeFiles/kalign_io_test.dir/kalign_io_test.c.o [ 81%] Building C object tests/CMakeFiles/kalign_lib_test.dir/kalign_lib_test.c.o [ 82%] Building C object tests/CMakeFiles/kalign_cmp_test.dir/kalign_cmp_test.c.o [ 85%] Building C object tests/CMakeFiles/dssim.dir/dssim_test.c.o [ 85%] Building C object tests/CMakeFiles/dssim.dir/dssim.c.o [ 86%] Building CXX object tests/CMakeFiles/kaligncpp.dir/kalign_lib_testCXX.cpp.o [ 87%] Building C object src/CMakeFiles/kalignfmt.dir/run_reformat.c.o cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -std=gnu11 -Wall -Wextra -pedantic -MD -MT tests/CMakeFiles/kalign_io_test.dir/kalign_io_test.c.o -MF CMakeFiles/kalign_io_test.dir/kalign_io_test.c.o.d -o CMakeFiles/kalign_io_test.dir/kalign_io_test.c.o -c /build/reproducible-path/kalign-3.4.0/tests/kalign_io_test.c cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/tests && /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-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -std=gnu11 -Wall -Wextra -pedantic -MD -MT tests/CMakeFiles/largebench.dir/large_benchmark.c.o -MF CMakeFiles/largebench.dir/large_benchmark.c.o.d -o CMakeFiles/largebench.dir/large_benchmark.c.o -c /build/reproducible-path/kalign-3.4.0/tests/large_benchmark.c cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -std=gnu11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/kalign-bin.dir/run_kalign.c.o -MF CMakeFiles/kalign-bin.dir/run_kalign.c.o.d -o CMakeFiles/kalign-bin.dir/run_kalign.c.o -c /build/reproducible-path/kalign-3.4.0/src/run_kalign.c cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/tests && /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-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -std=gnu11 -Wall -Wextra -pedantic -MD -MT tests/CMakeFiles/dssim.dir/dssim.c.o -MF CMakeFiles/dssim.dir/dssim.c.o.d -o CMakeFiles/dssim.dir/dssim.c.o -c /build/reproducible-path/kalign-3.4.0/tests/dssim.c [ 89%] Building C object src/CMakeFiles/kalignfmt.dir/parameters.c.o cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/tests && /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-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -std=gnu11 -Wall -Wextra -pedantic -MD -MT tests/CMakeFiles/dssim.dir/dssim_test.c.o -MF CMakeFiles/dssim.dir/dssim_test.c.o.d -o CMakeFiles/dssim.dir/dssim_test.c.o -c /build/reproducible-path/kalign-3.4.0/tests/dssim_test.c cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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-x86_64-linux-gnu/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -std=gnu11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/kalignfmt.dir/run_reformat.c.o -MF CMakeFiles/kalignfmt.dir/run_reformat.c.o.d -o CMakeFiles/kalignfmt.dir/run_reformat.c.o -c /build/reproducible-path/kalign-3.4.0/src/run_reformat.c cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -std=gnu11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/kalignfmt.dir/parameters.c.o -MF CMakeFiles/kalignfmt.dir/parameters.c.o.d -o CMakeFiles/kalignfmt.dir/parameters.c.o -c /build/reproducible-path/kalign-3.4.0/src/parameters.c [ 90%] Linking C executable kalign_io_test cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script 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--verbose=1 make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' /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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/kalign_cmp_test.dir/link.d CMakeFiles/kalign_cmp_test.dir/kalign_cmp_test.c.o -o kalign_cmp_test ../lib/libkalign.a -lm /usr/lib/gcc/x86_64-linux-gnu/14/libgomp.so /usr/lib/x86_64-linux-gnu/libpthread.a make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' [ 93%] Built target kalign_cmp_test [ 93%] Built target kalign_io_test [ 94%] Linking C executable kalignfmt cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/kalign_lib_test.dir/link.d CMakeFiles/kalign_lib_test.dir/kalign_lib_test.c.o -o kalign_lib_test ../lib/libkalign.a -lm /usr/lib/gcc/x86_64-linux-gnu/14/libgomp.so /usr/lib/x86_64-linux-gnu/libpthread.a make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' [ 95%] Linking C executable kalign cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/kalign-bin.dir/link.txt --verbose=1 [ 95%] Built target kalign_lib_test /usr/bin/cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. 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../lib/libkalign_static.a -lm /usr/lib/gcc/x86_64-linux-gnu/14/libgomp.so /usr/lib/x86_64-linux-gnu/libpthread.a make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' [ 97%] Built target largebench [ 98%] Linking C executable dssim cd /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/dssim.dir/link.txt --verbose=1 /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*' 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directory '/build/reproducible-path/kalign-3.4.0/obj-sse4.1' cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1 && /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-sse4.1 /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib/CMakeFiles/edist_utest.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-sse4.1' cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1 && /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-sse4.1 /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib/CMakeFiles/task_utest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-sse4.1' make -f lib/CMakeFiles/kalign_OBJ.dir/build.make lib/CMakeFiles/kalign_OBJ.dir/build make[4]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-sse4.1' make[4]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-sse4.1' make -f lib/CMakeFiles/alphabet_utest.dir/build.make lib/CMakeFiles/alphabet_utest.dir/build make[4]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-sse4.1' make[4]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-sse4.1' make[4]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-sse4.1' make -f lib/CMakeFiles/tldevel.dir/build.make lib/CMakeFiles/tldevel.dir/build make -f lib/CMakeFiles/bpm_utest.dir/build.make lib/CMakeFiles/bpm_utest.dir/build make -f lib/CMakeFiles/edist_utest.dir/build.make lib/CMakeFiles/edist_utest.dir/build make -f lib/CMakeFiles/task_utest.dir/build.make lib/CMakeFiles/task_utest.dir/build make[4]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-sse4.1' make[4]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-sse4.1' make[4]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-sse4.1' make[4]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-sse4.1' make[4]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-sse4.1' make[4]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-sse4.1' [ 12%] Building C object lib/CMakeFiles/alphabet_utest.dir/src/tldevel.c.o [ 16%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/tlrng.c.o [ 17%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_alloc.c.o [ 18%] Building C object lib/CMakeFiles/tldevel.dir/src/tlmisc.c.o [ 12%] Building C object lib/CMakeFiles/tldevel.dir/src/tldevel.c.o [ 12%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/tldevel.c.o [ 12%] Building C object lib/CMakeFiles/bpm_utest.dir/src/tldevel.c.o [ 12%] Building C object lib/CMakeFiles/task_utest.dir/src/tlrng.c.o [ 12%] Building C object lib/CMakeFiles/alphabet_utest.dir/src/alphabet.c.o [ 12%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/test.c.o [ 21%] Building C object lib/CMakeFiles/bpm_utest.dir/src/alphabet.c.o [ 25%] Building C object lib/CMakeFiles/edist_utest.dir/src/esl_stopwatch.c.o [ 28%] Building C object lib/CMakeFiles/tldevel.dir/src/esl_stopwatch.c.o [ 31%] Building C object lib/CMakeFiles/edist_utest.dir/src/euclidean_dist.c.o [ 32%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_op.c.o [ 35%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_cmp.c.o cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 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/build/reproducible-path/kalign-3.4.0/lib/src/msa_alloc.c cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 36%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/alphabet.c.o cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -MD -MT lib/CMakeFiles/tldevel.dir/src/tldevel.c.o -MF CMakeFiles/tldevel.dir/src/tldevel.c.o.d -o CMakeFiles/tldevel.dir/src/tldevel.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/tldevel.c cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 39%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_sort.c.o cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 40%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/task.c.o cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 24%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/tlmisc.c.o [ 37%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_misc.c.o cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 24%] Building C object lib/CMakeFiles/edist_utest.dir/src/tldevel.c.o [ 24%] Building C object lib/CMakeFiles/task_utest.dir/src/tldevel.c.o [ 24%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/esl_stopwatch.c.o cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 24%] Building C object lib/CMakeFiles/edist_utest.dir/src/tlrng.c.o cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 41%] Building C object lib/CMakeFiles/bpm_utest.dir/src/tlrng.c.o [ 43%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_io.c.o [ 44%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/bisectingKmeans.c.o [ 41%] Building C object lib/CMakeFiles/tldevel.dir/src/tlrng.c.o [ 41%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_check.c.o [ 45%] Building C object lib/CMakeFiles/bpm_utest.dir/src/bpm_test.c.o [ 45%] Building C object lib/CMakeFiles/bpm_utest.dir/src/esl_stopwatch.c.o cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 41%] Building C object lib/CMakeFiles/bpm_utest.dir/src/bpm.c.o [ 41%] Building C object lib/CMakeFiles/task_utest.dir/src/task.c.o [ 47%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/pick_anchor.c.o [ 48%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/sequence_distance.c.o cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 51%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/euclidean_dist.c.o cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 51%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/bpm.c.o cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 52%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_param.c.o cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_wrap.c.o cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_param.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_param.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_param.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/aln_param.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; | ^~ /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); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 55%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_run.c.o cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 56%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_mem.c.o cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 58%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_controller.c.o cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_controller.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_controller.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_controller.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/aln_controller.c [ 59%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/aln_setup.c [ 60%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_seqseq.c.o cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_seqseq.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_seqseq.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_seqseq.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/aln_seqseq.c [ 62%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_seqprofile.c.o cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_seqprofile.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_seqprofile.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_seqprofile.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/aln_seqprofile.c [ 63%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_profileprofile.c.o [ 64%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/weave_alignment.c.o cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_profileprofile.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_profileprofile.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_profileprofile.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/aln_profileprofile.c cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 66%] Linking C executable bpm_utest cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib && /usr/bin/cmake -E cmake_link_script 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-D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/alphabet_utest.dir/link.d CMakeFiles/alphabet_utest.dir/src/tldevel.c.o CMakeFiles/alphabet_utest.dir/src/alphabet.c.o -o alphabet_utest make[4]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-sse4.1' /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 /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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/bpm_utest.dir/link.d CMakeFiles/bpm_utest.dir/src/tldevel.c.o CMakeFiles/bpm_utest.dir/src/tlrng.c.o CMakeFiles/bpm_utest.dir/src/esl_stopwatch.c.o CMakeFiles/bpm_utest.dir/src/alphabet.c.o CMakeFiles/bpm_utest.dir/src/bpm.c.o CMakeFiles/bpm_utest.dir/src/bpm_test.c.o -o bpm_utest -lm make[4]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-sse4.1' make[4]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-sse4.1' [ 70%] Built target alphabet_utest [ 70%] Built target bpm_utest [ 70%] Built target tldevel make[4]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-sse4.1' [ 70%] 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[4]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-sse4.1' cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1 && /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-sse4.1 /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib/CMakeFiles/kalign.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-sse4.1' cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1 && /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-sse4.1 /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib/CMakeFiles/kalign_static.dir/DependInfo.cmake "--color=" /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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/edist_utest.dir/link.d CMakeFiles/edist_utest.dir/src/tldevel.c.o CMakeFiles/edist_utest.dir/src/tlrng.c.o CMakeFiles/edist_utest.dir/src/esl_stopwatch.c.o CMakeFiles/edist_utest.dir/src/euclidean_dist.c.o -o edist_utest -lm make[4]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-sse4.1' make[4]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-sse4.1' make[4]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-sse4.1' make -f lib/CMakeFiles/kalign_static.dir/build.make lib/CMakeFiles/kalign_static.dir/build make -f lib/CMakeFiles/kalign.dir/build.make lib/CMakeFiles/kalign.dir/build make[4]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-sse4.1' make[4]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-sse4.1' [ 70%] Built target edist_utest [ 72%] Linking C static library libkalign.a [ 72%] Linking C static library libkalign_static.a cd 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-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-sse4.1/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -std=gnu11 -Wall -Wextra -pedantic -MD -MT tests/CMakeFiles/dssim.dir/dssim_test.c.o -MF CMakeFiles/dssim.dir/dssim_test.c.o.d -o CMakeFiles/dssim.dir/dssim_test.c.o -c /build/reproducible-path/kalign-3.4.0/tests/dssim_test.c cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/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-sse4.1/lib -g -O2 -Werror=implicit-function-declaration 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-ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/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-sse4.1/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 90%] Linking C executable kalign_cmp_test [ 91%] Linking C executable kalign_io_test cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/kalign_cmp_test.dir/link.txt --verbose=1 cd /build/reproducible-path/kalign-3.4.0/obj-sse4.1/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/kalign_io_test.dir/link.txt --verbose=1 /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 | 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-fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 27%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/task.c.o cd /build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -MD -MT lib/CMakeFiles/tldevel.dir/src/tldevel.c.o -MF CMakeFiles/tldevel.dir/src/tldevel.c.o.d -o CMakeFiles/tldevel.dir/src/tldevel.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/tldevel.c [ 28%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/alphabet.c.o cd /build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 31%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/bisectingKmeans.c.o cd /build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 31%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_misc.c.o [ 32%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/sequence_distance.c.o cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 35%] Building C object lib/CMakeFiles/task_utest.dir/src/task.c.o [ 35%] Building C object lib/CMakeFiles/edist_utest.dir/src/euclidean_dist.c.o cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 37%] Building C object lib/CMakeFiles/bpm_utest.dir/src/esl_stopwatch.c.o [ 39%] Building C object lib/CMakeFiles/tldevel.dir/src/esl_stopwatch.c.o cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 40%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/euclidean_dist.c.o cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 43%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_alloc.c.o cd /build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 45%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_op.c.o [ 45%] Building C object lib/CMakeFiles/bpm_utest.dir/src/alphabet.c.o [ 16%] Building C object lib/CMakeFiles/task_utest.dir/src/tldevel.c.o [ 21%] Building C object lib/CMakeFiles/bpm_utest.dir/src/bpm_test.c.o [ 48%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_io.c.o [ 48%] Building C object lib/CMakeFiles/bpm_utest.dir/src/bpm.c.o [ 47%] Building C object lib/CMakeFiles/alphabet_utest.dir/src/tldevel.c.o cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 47%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/esl_stopwatch.c.o [ 51%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_param.c.o [ 52%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/bpm.c.o [ 52%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_wrap.c.o [ 54%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/pick_anchor.c.o cd /build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -DUTEST_ALPHABET -Wall -Wextra -pedantic -MD -MT lib/CMakeFiles/alphabet_utest.dir/src/tldevel.c.o -MF CMakeFiles/alphabet_utest.dir/src/tldevel.c.o.d -o CMakeFiles/alphabet_utest.dir/src/tldevel.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/tldevel.c cd /build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_param.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_param.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_param.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/aln_param.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/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); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/kalign-3.4.0/lib/src/euclidean_dist.c:58:15: warning: unused variable 'd2' [-Wunused-variable] 58 | float d2; | ^~ [ 55%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_run.c.o [ 56%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_mem.c.o cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 58%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o [ 59%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_controller.c.o cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/aln_setup.c cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_controller.c.o -MF 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C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_seqprofile.c.o cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_seqprofile.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_seqprofile.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_seqprofile.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/aln_seqprofile.c [ 63%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_profileprofile.c.o cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cc -DHAVE_OPENMP 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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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 [ 66%] Linking C static library libtldevel.a cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cmake -P CMakeFiles/tldevel.dir/cmake_clean_target.cmake [ 67%] Linking C executable alphabet_utest cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/alphabet_utest.dir/link.txt --verbose=1 cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/tldevel.dir/link.txt --verbose=1 /usr/bin/ar qc libtldevel.a CMakeFiles/tldevel.dir/src/tldevel.c.o CMakeFiles/tldevel.dir/src/tlmisc.c.o CMakeFiles/tldevel.dir/src/tlrng.c.o CMakeFiles/tldevel.dir/src/esl_stopwatch.c.o /usr/bin/ranlib libtldevel.a make[4]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-avx' make[4]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-avx' [ 68%] Linking C executable task_utest cd /build/reproducible-path/kalign-3.4.0/obj-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/alphabet_utest.dir/link.d 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edist_utest cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/edist_utest.dir/link.txt --verbose=1 [ 74%] Built target task_utest cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/kalign.dir/link.txt --verbose=1 cd /build/reproducible-path/kalign-3.4.0/obj-avx/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/kalign_static.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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/bpm_utest.dir/link.d CMakeFiles/bpm_utest.dir/src/tldevel.c.o CMakeFiles/bpm_utest.dir/src/tlrng.c.o CMakeFiles/bpm_utest.dir/src/esl_stopwatch.c.o CMakeFiles/bpm_utest.dir/src/alphabet.c.o CMakeFiles/bpm_utest.dir/src/bpm.c.o CMakeFiles/bpm_utest.dir/src/bpm_test.c.o -o bpm_utest -lm make[4]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-avx' /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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/edist_utest.dir/link.d CMakeFiles/edist_utest.dir/src/tldevel.c.o CMakeFiles/edist_utest.dir/src/tlrng.c.o CMakeFiles/edist_utest.dir/src/esl_stopwatch.c.o CMakeFiles/edist_utest.dir/src/euclidean_dist.c.o -o edist_utest -lm make[4]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-avx' /usr/bin/ar qc libkalign.a CMakeFiles/kalign_OBJ.dir/src/test.c.o CMakeFiles/kalign_OBJ.dir/src/tldevel.c.o CMakeFiles/kalign_OBJ.dir/src/tlmisc.c.o CMakeFiles/kalign_OBJ.dir/src/tlrng.c.o CMakeFiles/kalign_OBJ.dir/src/esl_stopwatch.c.o CMakeFiles/kalign_OBJ.dir/src/msa_alloc.c.o CMakeFiles/kalign_OBJ.dir/src/msa_op.c.o CMakeFiles/kalign_OBJ.dir/src/msa_io.c.o CMakeFiles/kalign_OBJ.dir/src/msa_misc.c.o CMakeFiles/kalign_OBJ.dir/src/msa_check.c.o CMakeFiles/kalign_OBJ.dir/src/msa_cmp.c.o CMakeFiles/kalign_OBJ.dir/src/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.a /usr/bin/ar qc libkalign_static.a CMakeFiles/kalign_OBJ.dir/src/test.c.o CMakeFiles/kalign_OBJ.dir/src/tldevel.c.o CMakeFiles/kalign_OBJ.dir/src/tlmisc.c.o CMakeFiles/kalign_OBJ.dir/src/tlrng.c.o CMakeFiles/kalign_OBJ.dir/src/esl_stopwatch.c.o CMakeFiles/kalign_OBJ.dir/src/msa_alloc.c.o CMakeFiles/kalign_OBJ.dir/src/msa_op.c.o CMakeFiles/kalign_OBJ.dir/src/msa_io.c.o CMakeFiles/kalign_OBJ.dir/src/msa_misc.c.o CMakeFiles/kalign_OBJ.dir/src/msa_check.c.o CMakeFiles/kalign_OBJ.dir/src/msa_cmp.c.o CMakeFiles/kalign_OBJ.dir/src/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 make[4]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-avx' make[4]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-avx' [ 74%] Built target bpm_utest [ 74%] Built target edist_utest [ 74%] Built target kalign make -f src/CMakeFiles/kalignfmt.dir/build.make src/CMakeFiles/kalignfmt.dir/depend make -f tests/CMakeFiles/kalign_io_test.dir/build.make tests/CMakeFiles/kalign_io_test.dir/depend make -f tests/CMakeFiles/dssim.dir/build.make tests/CMakeFiles/dssim.dir/depend make -f tests/CMakeFiles/kalign_lib_test.dir/build.make tests/CMakeFiles/kalign_lib_test.dir/depend make -f tests/CMakeFiles/kalign_cmp_test.dir/build.make tests/CMakeFiles/kalign_cmp_test.dir/depend make[4]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-avx' cd /build/reproducible-path/kalign-3.4.0/obj-avx && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/kalign-3.4.0 /build/reproducible-path/kalign-3.4.0/src /build/reproducible-path/kalign-3.4.0/obj-avx /build/reproducible-path/kalign-3.4.0/obj-avx/src /build/reproducible-path/kalign-3.4.0/obj-avx/src/CMakeFiles/kalignfmt.dir/DependInfo.cmake "--color=" make -f tests/CMakeFiles/kaligncpp.dir/build.make tests/CMakeFiles/kaligncpp.dir/depend make[4]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-avx' cd 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tests/CMakeFiles/dssim.dir/dssim.c.o cd /build/reproducible-path/kalign-3.4.0/obj-avx/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-avx/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-avx/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-avx/lib -g -O2 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/build/reproducible-path/kalign-3.4.0/src/run_kalign.c cd /build/reproducible-path/kalign-3.4.0/obj-avx/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-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -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 cd /build/reproducible-path/kalign-3.4.0/obj-avx/tests && /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-avx/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -std=gnu11 -Wall -Wextra -pedantic -MD -MT tests/CMakeFiles/largebench.dir/large_benchmark.c.o -MF CMakeFiles/largebench.dir/large_benchmark.c.o.d -o CMakeFiles/largebench.dir/large_benchmark.c.o -c /build/reproducible-path/kalign-3.4.0/tests/large_benchmark.c [ 91%] Linking C executable kalign_cmp_test [ 91%] Linking C executable kalign_io_test cd /build/reproducible-path/kalign-3.4.0/obj-avx/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/kalign_io_test.dir/link.txt --verbose=1 cd /build/reproducible-path/kalign-3.4.0/obj-avx/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/kalign_cmp_test.dir/link.txt --verbose=1 /usr/bin/cc -g -O2 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"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", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/dssim.dir/link.d CMakeFiles/dssim.dir/dssim_test.c.o CMakeFiles/dssim.dir/dssim.c.o -o dssim 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-DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_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 cd /build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_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 [ 31%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/esl_stopwatch.c.o [ 32%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_alloc.c.o cd /build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_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 [ 33%] Building C object lib/CMakeFiles/tldevel.dir/src/tlrng.c.o cd /build/reproducible-path/kalign-3.4.0/obj-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -g -O2 -Werror=implicit-function-declaration 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-fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_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 cd /build/reproducible-path/kalign-3.4.0/obj-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_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 cd /build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_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 cd /build/reproducible-path/kalign-3.4.0/obj-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_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 [ 45%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/bisectingKmeans.c.o [ 44%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_sort.c.o [ 47%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/sequence_distance.c.o cd /build/reproducible-path/kalign-3.4.0/obj-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_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 cd /build/reproducible-path/kalign-3.4.0/obj-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_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 [ 48%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/euclidean_dist.c.o cd /build/reproducible-path/kalign-3.4.0/obj-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_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 [ 50%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/pick_anchor.c.o cd /build/reproducible-path/kalign-3.4.0/obj-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_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 cd /build/reproducible-path/kalign-3.4.0/obj-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_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 cd /build/reproducible-path/kalign-3.4.0/obj-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_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 [ 51%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_wrap.c.o cd /build/reproducible-path/kalign-3.4.0/obj-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_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 cd /build/reproducible-path/kalign-3.4.0/obj-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_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 cd /build/reproducible-path/kalign-3.4.0/obj-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_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 cd /build/reproducible-path/kalign-3.4.0/obj-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_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-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_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 cd /build/reproducible-path/kalign-3.4.0/obj-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_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 cd /build/reproducible-path/kalign-3.4.0/obj-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_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 cd /build/reproducible-path/kalign-3.4.0/obj-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_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 cd /build/reproducible-path/kalign-3.4.0/obj-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_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 [ 54%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/bpm.c.o [ 54%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_param.c.o cd /build/reproducible-path/kalign-3.4.0/obj-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_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 cd /build/reproducible-path/kalign-3.4.0/obj-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_param.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_param.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_param.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/aln_param.c cd /build/reproducible-path/kalign-3.4.0/obj-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_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 /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); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 55%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_run.c.o cd /build/reproducible-path/kalign-3.4.0/obj-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_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 [ 56%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_mem.c.o cd /build/reproducible-path/kalign-3.4.0/obj-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_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 [ 59%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_seqseq.c.o [ 59%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o [ 62%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_seqprofile.c.o [ 62%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_controller.c.o cd /build/reproducible-path/kalign-3.4.0/obj-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_seqseq.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_seqseq.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_seqseq.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/aln_seqseq.c cd /build/reproducible-path/kalign-3.4.0/obj-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/aln_setup.c cd /build/reproducible-path/kalign-3.4.0/obj-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_controller.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_controller.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_controller.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/aln_controller.c cd /build/reproducible-path/kalign-3.4.0/obj-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_seqprofile.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_seqprofile.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_seqprofile.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/aln_seqprofile.c [ 63%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_profileprofile.c.o cd /build/reproducible-path/kalign-3.4.0/obj-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_AVX2 -fPIC -std=gnu11 -Wall -Wextra -pedantic -fopenmp -MD -MT lib/CMakeFiles/kalign_OBJ.dir/src/aln_profileprofile.c.o -MF CMakeFiles/kalign_OBJ.dir/src/aln_profileprofile.c.o.d -o CMakeFiles/kalign_OBJ.dir/src/aln_profileprofile.c.o -c /build/reproducible-path/kalign-3.4.0/lib/src/aln_profileprofile.c [ 64%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/weave_alignment.c.o cd /build/reproducible-path/kalign-3.4.0/obj-avx2/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_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[4]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-avx2' [ 66%] Linking C executable alphabet_utest cd /build/reproducible-path/kalign-3.4.0/obj-avx2/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 -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -mavx2 -DHAVE_AVX2 -fPIC -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/alphabet_utest.dir/link.d CMakeFiles/alphabet_utest.dir/src/tldevel.c.o CMakeFiles/alphabet_utest.dir/src/alphabet.c.o -o alphabet_utest make[4]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-avx2' [ 66%] Built target alphabet_utest [ 66%] Built target kalign_OBJ make -f lib/CMakeFiles/kalign.dir/build.make lib/CMakeFiles/kalign.dir/depend make -f 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^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /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 | 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Leaving directory '/build/reproducible-path/kalign-3.4.0' dh_auto_test cd obj-x86_64-linux-gnu && make -j40 test ARGS\+=--verbose ARGS\+=-j40 make[1]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' Running tests... /usr/bin/ctest --force-new-ctest-process --verbose -j40 UpdateCTestConfiguration from :/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/DartConfiguration.tcl Parse Config file:/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/DartConfiguration.tcl UpdateCTestConfiguration from :/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/DartConfiguration.tcl Parse Config file:/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/DartConfiguration.tcl Test project /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu 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 Connected to MAKE jobserver test 1 Start 1: bpm_utest 1: Test command: /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib/bpm_utest 1: Working Directory: /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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-x86_64-linux-gnu/lib/alphabet_utest 2: Working Directory: /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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-x86_64-linux-gnu/lib/edist_utest 3: Working Directory: /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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-x86_64-linux-gnu/lib/task_utest 4: Working Directory: /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/lib 4: Test timeout computed to be: 1500 test 5 Start 5: C++Lib 5: Test command: /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/tests/kaligncpp 5: Working Directory: /build/reproducible-path/kalign-3.4.0/tests 5: Test timeout computed to be: 1500 test 6 Start 6: kalign_itest_BB11001.tfa 6: Test command: /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 test 7 Start 7: kalign_itest_BB11001_EOF.msf 7: Test command: /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 test 8 Start 8: kalign_itest_BB12006.msf 8: Test command: /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 test 9 Start 9: kalign_itest_BB12006.tfa 9: Test command: /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 test 10 Start 10: kalign_itest_BB30014.msf 10: Test command: /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 test 11 Start 11: kalign_itest_BB30014.tfa 11: Test command: /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/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 test 12 Start 12: DSSIM_takes_a_min 12: Test command: /build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu/tests/dssim 12: Working Directory: /build/reproducible-path/kalign-3.4.0/tests 12: Test timeout computed to be: 1500 1: LEN: 256 1: [2025-04-25 19:52:04] : 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: [2025-04-25 19:52:04] : LOG : Check for correctness. 3: [2025-04-25 19:52:04] : LOG : Timing serial 3: [2025-04-25 19:52:04] : LOG : CPU Time: 0.01u 00:00:00.00 Elapsed: 00:00:00.00 4: 132 259 920 212 713 4: 699 824 617 325 647 4: 604 452 244 236 271 4: 150 598 679 43 614 4: 767 716 733 341 269 4: 503 959 379 195 455 4: 469 423 252 898 111 4: 724 595 788 48 609 4: 401 192 915 148 794 4: 582 93 561 219 615 4: 245 868 372 147 524 4: 240 914 733 815 290 4: 463 214 296 17 58 4: 572 956 602 316 307 4: 627 809 302 969 712 4: 828 366 991 33 124 4: 875 12 592 215 415 4: 576 770 691 914 334 4: 813 78 622 791 903 4: 421 483 349 58 84 4: 742 124 56 780 535 4: 100 109 390 965 115 4: 716 916 665 899 973 4: 745 720 286 420 594 4: 44 460 275 32 155 4: 282 137 664 657 627 4: 63 909 637 579 840 4: 573 538 250 908 983 4: 843 647 765 529 893 4: 82 482 536 950 595 4: 517 140 588 285 332 4: 516 703 902 770 479 4: 911 783 814 663 153 4: 465 414 387 348 664 4: 774 168 498 949 522 4: 725 357 951 282 237 4: 942 702 350 893 109 4: 736 876 192 956 247 4: 124 78 610 836 165 4: 999 686 60 646 181 4: 1 846 777 230 713 4: 256 390 267 268 270 4: 258 415 962 362 151 4: 38 939 437 343 302 4: 552 972 358 316 707 4: 141 546 563 507 985 4: 506 340 759 125 78 4: 844 795 211 626 670 4: 92 144 911 5 290 4: 440 640 889 320 400 4: 366 393 668 694 133 4: 19 935 79 63 409 4: 501 196 688 815 746 4: 748 709 294 951 202 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: [2025-04-25 19:52:04] : LOG : Detected protein sequences. 6: [2025-04-25 19:52:04] : LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB11001.tfa. 6: [2025-04-25 19:52:04] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 6: [2025-04-25 19:52:04] : LOG : Calculating pairwise distances 6: [2025-04-25 19:52:04] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 6: [2025-04-25 19:52:04] : LOG : Building guide tree. 6: [2025-04-25 19:52:04] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 6: [2025-04-25 19:52:04] : LOG : Aligning 6: [2025-04-25 19:52:04] : LOG : CPU Time: 0.00u 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: [2025-04-25 19:52:04] : LOG : Detected protein sequences. 7: [2025-04-25 19:52:04] : LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB11001_EOF.msf. 7: [2025-04-25 19:52:04] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 7: [2025-04-25 19:52:04] : LOG : Calculating pairwise distances 7: [2025-04-25 19:52:04] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 7: [2025-04-25 19:52:04] : LOG : Building guide tree. 7: [2025-04-25 19:52:04] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 7: [2025-04-25 19:52:04] : LOG : Aligning 7: [2025-04-25 19:52:04] : 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: 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: [2025-04-25 19:52:04] : LOG : Detected protein sequences. 8: [2025-04-25 19:52:04] : LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB12006.msf. 8: [2025-04-25 19:52:04] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 8: [2025-04-25 19:52:04] : LOG : Calculating pairwise distances 8: [2025-04-25 19:52:04] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 8: [2025-04-25 19:52:04] : LOG : Building guide tree. 8: [2025-04-25 19:52:04] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 8: [2025-04-25 19:52:04] : LOG : Aligning 8: [2025-04-25 19:52:04] : LOG : CPU Time: 0.00u 00:00:00.00 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: [2025-04-25 19:52:04] : LOG : Detected protein sequences. 9: [2025-04-25 19:52:04] : LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB12006.tfa. 9: [2025-04-25 19:52:04] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 9: [2025-04-25 19:52:04] : LOG : Calculating pairwise distances 9: [2025-04-25 19:52:04] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 9: [2025-04-25 19:52:04] : LOG : Building guide tree. 9: [2025-04-25 19:52:04] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 9: [2025-04-25 19:52:04] : LOG : Aligning 9: [2025-04-25 19:52:04] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 9: >1al2_ad 9: G-LPVMNTPGSNQYLTADNFQSPCALPEFDVTPPIDIPGEVKNMMELAEI-DTMIPFDLS 9: ATKKNTMEMYRVRLSDKPHTDDPILCLSLSPASDPRLSHTMLGEILNYYTHWAGSLKFTF 9: LFCGSMMATGKLLVSYAPPGADPPKKRKEAMLGTHVIWDIGLQSSCTMVVPWISNTTYRQ 9: TIDD-----SFTEGGYISVFYQTRIVVPLSTPREMDILGFVSACNDFSVRLLRDTTHIEQ 9: KA--- 9: >1bbt_ac 9: GIFPVACSDGYGGLVTTDPKTADPVYGKVFNPPRNQLPGRFTNLLDVAEACPTFL--R-- 9: ---FEGGVPYVTTKTDSDRV---LAQFDMSLAAK-HMSNTFLAGLAQYYTQYSGTINLHF 9: MFTGPTDAKARYMVAYAPPGMEPPKTPEAAAHCIHAEWDTGLNSKFTFSIPYLSAADYTY 9: TASDVA--ETTNVQGWVCLFQITH-----GKADGDALVVLASAGKDFELRLPVDARAE-- 9: ----- 9: >1bev_ac 9: G-LPTKPGPGSYQFMTTDEDCSPCILPDFQPTPEIFIPGKVNNLLEIAQV-ESILEAN-N 9: REGVEGVERYVIPVSVQDALDAQIYALRLELGGSGPLSSSLLGTLAKHYTQWSGSVEITC 9: MFTGTFMTTGKVLLAYTPPGGDMPRNREEAMLGTHVIWDFGLQSSITLVIPWISASHFRG 9: VSNDDVLNYQYYAAGHVTIWYQTNMVIPPGFPNTAGIIMMIAAQPNFSFRIQKDREDMTQ 9: TAILQ 9: >1mec_ac 9: SPIPVTIREHAGTWYSTLPDSTVPIYGKTPVAPANYMVGEYKDFLEIAQI-PTFIGNK-- 9: ---MPNAVPYIEASNTAVKTQ-PLAVYQVTLSCS-CLANTFLAALSRNFAQYRGSLVYTF 9: VFTGTAMMKGKFLIAYTPPGAGKPTSRDQAMQATYAIWDLGLNSSYSFTVPFISPTHFRM 9: VGTDQA--NITNVDGWVTVWQLTPLTYPPGCPTSAKILTMVSAGKDFSLKMPISPAPWSP 9: Q---- 10: 10: Kalign (3.4.0) 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: [2025-04-25 19:52:04] : LOG : Detected protein sequences. 10: [2025-04-25 19:52:04] : LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB12006.tfa. 10: [2025-04-25 19:52:04] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 10: [2025-04-25 19:52:04] : LOG : Calculating pairwise distances 10: [2025-04-25 19:52:04] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 10: [2025-04-25 19:52:04] : LOG : Building guide tree. 10: [2025-04-25 19:52:04] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 10: [2025-04-25 19:52:04] : LOG : Aligning 10: [2025-04-25 19:52:04] : LOG : CPU Time: 0.00u 00:00:00.00 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---- 1/12 Test #2: alphabet_utest ................... Passed 0.11 sec 2/12 Test #3: edist_utest ...................... Passed 0.10 sec 3/12 Test #4: task_utest ....................... Passed 0.01 sec 4/12 Test #5: C++Lib ........................... Passed 0.01 sec 5/12 Test #6: kalign_itest_BB11001.tfa ......... Passed 0.01 sec 6/12 Test #7: kalign_itest_BB11001_EOF.msf ..... Passed 0.01 sec 7/12 Test #8: kalign_itest_BB12006.msf ......... Passed 0.01 sec 8/12 Test #9: kalign_itest_BB12006.tfa ......... Passed 0.01 sec 9/12 Test #10: kalign_itest_BB30014.msf ......... Passed 0.01 sec 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: [2025-04-25 19:52:04] : LOG : Detected protein sequences. 11: [2025-04-25 19:52:04] : LOG : Read 44 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB30014.tfa. 11: [2025-04-25 19:52:04] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 11: [2025-04-25 19:52:04] : LOG : Calculating pairwise distances 12: [2025-04-25 19:52:04] : LOG : DSSim - a simplistic sequence simulator. 12: [2025-04-25 19:52:04] : LOG : Protein alignments - 20 seq 11: [2025-04-25 19:52:04] : LOG : CPU Time: 0.01u 00:00:00.00 Elapsed: 00:00:00.00 11: [2025-04-25 19:52:04] : LOG : Building guide tree. 1: 0 0 0 0 1: 0 0 0 0 1: 0 0 0 0 1: 0 0 0 0 1: 1: [2025-04-25 19:52:04] : LOG : Testing correctness of AVX bpm. 11: [2025-04-25 19:52:05] : LOG : CPU Time: 0.04u 00:00:00.03 Elapsed: 00:00:01.00 11: [2025-04-25 19:52:05] : LOG : Aligning 11: [2025-04-25 19:52:05] : LOG : CPU Time: 0.03u 00:00:00.03 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 ......... 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[==================================================] 100% [==================================================] 100% [==================================================] 100% [==================================================] 100% [==================================================] 100% [==================================================] 100% 12: [2025-04-25 19:52:08] : LOG : Protein alignments - 1000 seq 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: [2025-04-25 19:52:10] : LOG : Timing DYN 256 1: [2025-04-25 19:52:12] : LOG : 1.518594 - dyn 1: [2025-04-25 19:52:12] : LOG : 0.000000 - bpm 1: [2025-04-25 19:52:12] : LOG : 0.089863 - bpm_block2 1: [2025-04-25 19:52:12] : LOG : 0.086733 - bpm_block 11/12 Test #1: bpm_utest ........................ 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: LOG : DNA alignments - 1000 seq 12: [ ] 0% [===== ] 10% [========== ] 20% [=============== ] 30% [==================== ] 40% [========================= ] 50% [============================== ] 60% [=================================== ] 70% [======================================== ] 80% [============================================= ] 90% [==================================================] 100% 12: [2025-04-25 19:52:37] : LOG : DNA alignments - 10000 seq 12: [ ] 0% [========================= ] 50% [==================================================] 100% 12/12 Test #12: DSSIM_takes_a_min ................ Passed 36.08 sec 100% tests passed, 0 tests failed out of 12 Total Test time (real) = 36.19 sec make[1]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' debian/rules execute_after_dh_auto_test make[1]: Entering directory '/build/reproducible-path/kalign-3.4.0' set -e ; for SIMD in avx2 avx sse4.1 ; do \ if lscpu | grep -q ${SIMD} ; then \ cd "obj-${SIMD}/" && \ ctest --verbose ; \ cd .. ; \ fi ; \ done UpdateCTestConfiguration from :/build/reproducible-path/kalign-3.4.0/obj-avx2/DartConfiguration.tcl Parse Config file:/build/reproducible-path/kalign-3.4.0/obj-avx2/DartConfiguration.tcl UpdateCTestConfiguration from :/build/reproducible-path/kalign-3.4.0/obj-avx2/DartConfiguration.tcl Parse Config file:/build/reproducible-path/kalign-3.4.0/obj-avx2/DartConfiguration.tcl Test project /build/reproducible-path/kalign-3.4.0/obj-avx2 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-avx2/lib/bpm_utest 1: Working Directory: /build/reproducible-path/kalign-3.4.0/obj-avx2/lib 1: Test timeout computed to be: 1500 1: LEN: 256 1: [2025-04-25 19:52:41] : LOG : Testing correctness of serial bpm. 1: 0 0 0 0 1: 0 0 0 0 1: 0 0 0 0 1: 0 0 0 0 1: 1: [2025-04-25 19:52:42] : LOG : Testing correctness of AVX bpm. 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: [2025-04-25 19:52:47] : LOG : Timing DYN 256 1: [2025-04-25 19:52:49] : LOG : 1.514296 - dyn 1: [2025-04-25 19:52:49] : LOG : 0.056431 - bpm 1: [2025-04-25 19:52:49] : LOG : 0.090237 - bpm_block2 1: [2025-04-25 19:52:49] : LOG : 0.084551 - bpm_block 1/12 Test #1: bpm_utest ........................ Passed 7.35 sec test 2 Start 2: alphabet_utest 2: Test command: /build/reproducible-path/kalign-3.4.0/obj-avx2/lib/alphabet_utest 2: Working Directory: /build/reproducible-path/kalign-3.4.0/obj-avx2/lib 2: Test timeout computed to be: 1500 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 2/12 Test #2: alphabet_utest ................... Passed 0.00 sec test 3 Start 3: edist_utest 3: Test command: /build/reproducible-path/kalign-3.4.0/obj-avx2/lib/edist_utest 3: Working Directory: /build/reproducible-path/kalign-3.4.0/obj-avx2/lib 3: Test timeout computed to be: 1500 3: [2025-04-25 19:52:49] : LOG : Check for correctness. 3: [2025-04-25 19:52:49] : LOG : Timing serial 3: [2025-04-25 19:52:49] : LOG : CPU Time: 0.01u 00:00:00.00 Elapsed: 00:00:00.00 3: [2025-04-25 19:52:49] : LOG : Timing AVX 3: [2025-04-25 19:52:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 3/12 Test #3: edist_utest ...................... Passed 0.01 sec test 4 Start 4: task_utest 4: Test command: /build/reproducible-path/kalign-3.4.0/obj-avx2/lib/task_utest 4: Working Directory: /build/reproducible-path/kalign-3.4.0/obj-avx2/lib 4: Test timeout computed to be: 1500 4: 139 760 287 795 368 4: 606 980 519 219 537 4: 968 475 619 21 512 4: 721 87 462 0 753 4: 394 826 819 82 48 4: 710 700 510 460 470 4: 305 365 377 191 131 4: 397 963 327 510 60 4: 387 248 426 86 289 4: 433 657 655 754 831 4: 224 66 840 948 772 4: 561 995 717 844 169 4: 283 745 500 323 674 4: 533 477 713 61 943 4: 22 810 897 66 356 4: 531 460 678 7 167 4: 898 912 760 920 343 4: 317 343 52 789 643 4: 872 887 945 29 654 4: 331 106 209 366 496 4: 790 785 409 296 642 4: 346 288 180 869 515 4: 636 208 210 151 452 4: 723 246 525 328 478 4: 187 987 782 205 229 4: 639 744 692 5 157 4: 55 329 231 217 170 4: 369 357 552 683 949 4: 809 432 723 20 287 4: 869 709 519 509 858 4: 583 421 737 351 916 4: 479 772 193 968 199 4: 384 256 534 814 611 4: 969 27 276 57 741 4: 764 842 442 564 179 4: 674 56 708 390 554 4: 493 941 376 340 534 4: 873 276 576 48 296 4: 362 559 21 155 697 4: 153 962 659 231 900 4: 58 235 187 490 888 4: 263 554 610 889 176 4: 75 935 246 618 875 4: 298 449 411 880 534 4: 739 913 968 612 53 4: 986 159 48 857 551 4: 214 432 179 510 90 4: 666 789 164 374 161 4: 69 932 635 87 186 4: 685 805 207 190 82 4: 339 415 166 376 985 4: 995 110 124 682 474 4: 409 361 930 626 369 4: 752 651 548 829 395 4/12 Test #4: task_utest ....................... Passed 0.00 sec test 5 Start 5: C++Lib 5: Test command: /build/reproducible-path/kalign-3.4.0/obj-avx2/tests/kaligncpp 5: Working Directory: /build/reproducible-path/kalign-3.4.0/tests 5: Test timeout computed to be: 1500 5: Aligned: 5: ---GKGDPKKPRGKMSSYAFFVQTSREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMKTYIPPKGE---------- 5: ------MQDRVKRPMNAFIVWSRDQRRKMALENPRMR-NS-EISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREKYPNYKYRP---RRKAKMLPK 5: MKKLKKHPDFPKKPLTPYFRFFMEKRAKYAKLHPEMS-NL-DLTKILSKKYKELPEKKKMKYIQDFQREKQEFERNLARFREDHPDLIQNAKK--- 5: --------MHIKKPLNAFMLYMKEMRANVVAESTLKE-SA-AINQILGRRWHALSREEQAKYYELARKERQLHMQLYPGWSARDNYGKKKKRKREK 5/12 Test #5: C++Lib ........................... Passed 0.00 sec test 6 Start 6: kalign_itest_BB11001.tfa 6: Test command: /build/reproducible-path/kalign-3.4.0/obj-avx2/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 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: [2025-04-25 19:52:49] : LOG : Detected protein sequences. 6: [2025-04-25 19:52:49] : LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB11001.tfa. 6: [2025-04-25 19:52:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 6: [2025-04-25 19:52:49] : LOG : Calculating pairwise distances 6: [2025-04-25 19:52:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 6: [2025-04-25 19:52:49] : LOG : Building guide tree. 6: [2025-04-25 19:52:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 6: [2025-04-25 19:52:49] : LOG : Aligning 6: [2025-04-25 19:52:49] : LOG : CPU Time: 0.00u 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 6/12 Test #6: kalign_itest_BB11001.tfa ......... Passed 0.00 sec test 7 Start 7: kalign_itest_BB11001_EOF.msf 7: Test command: /build/reproducible-path/kalign-3.4.0/obj-avx2/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 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: [2025-04-25 19:52:49] : LOG : Detected protein sequences. 7: [2025-04-25 19:52:49] : LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB11001_EOF.msf. 7: [2025-04-25 19:52:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 7: [2025-04-25 19:52:49] : LOG : Calculating pairwise distances 7: [2025-04-25 19:52:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 7: [2025-04-25 19:52:49] : LOG : Building guide tree. 7: [2025-04-25 19:52:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 7: [2025-04-25 19:52:49] : LOG : Aligning 7: [2025-04-25 19:52:49] : 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 7/12 Test #7: kalign_itest_BB11001_EOF.msf ..... Passed 0.00 sec test 8 Start 8: kalign_itest_BB12006.msf 8: Test command: /build/reproducible-path/kalign-3.4.0/obj-avx2/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 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: [2025-04-25 19:52:49] : LOG : Detected protein sequences. 8: [2025-04-25 19:52:49] : LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB12006.msf. 8: [2025-04-25 19:52:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 8: [2025-04-25 19:52:49] : LOG : Calculating pairwise distances 8: [2025-04-25 19:52:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 8: [2025-04-25 19:52:49] : LOG : Building guide tree. 8: [2025-04-25 19:52:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 8: [2025-04-25 19:52:49] : LOG : Aligning 8: [2025-04-25 19:52:49] : LOG : CPU Time: 0.00u 00:00:00.00 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---- 8/12 Test #8: kalign_itest_BB12006.msf ......... Passed 0.01 sec test 9 Start 9: kalign_itest_BB12006.tfa 9: Test command: /build/reproducible-path/kalign-3.4.0/obj-avx2/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 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: [2025-04-25 19:52:49] : LOG : Detected protein sequences. 9: [2025-04-25 19:52:49] : LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB12006.tfa. 9: [2025-04-25 19:52:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 9: [2025-04-25 19:52:49] : LOG : Calculating pairwise distances 9: [2025-04-25 19:52:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 9: [2025-04-25 19:52:49] : LOG : Building guide tree. 9: [2025-04-25 19:52:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 9: [2025-04-25 19:52:49] : LOG : Aligning 9: [2025-04-25 19:52:49] : LOG : CPU Time: 0.00u 00:00:00.00 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---- 9/12 Test #9: kalign_itest_BB12006.tfa ......... Passed 0.01 sec test 10 Start 10: kalign_itest_BB30014.msf 10: Test command: /build/reproducible-path/kalign-3.4.0/obj-avx2/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 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: [2025-04-25 19:52:49] : LOG : Detected protein sequences. 10: [2025-04-25 19:52:49] : LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB12006.tfa. 10: [2025-04-25 19:52:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 10: [2025-04-25 19:52:49] : LOG : Calculating pairwise distances 10: [2025-04-25 19:52:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 10: [2025-04-25 19:52:49] : LOG : Building guide tree. 10: [2025-04-25 19:52:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 10: [2025-04-25 19:52:49] : LOG : Aligning 10: [2025-04-25 19:52:49] : LOG : CPU Time: 0.00u 00:00:00.00 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---- 10/12 Test #10: kalign_itest_BB30014.msf ......... Passed 0.01 sec test 11 Start 11: kalign_itest_BB30014.tfa 11: Test command: /build/reproducible-path/kalign-3.4.0/obj-avx2/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 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: [2025-04-25 19:52:49] : LOG : Detected protein sequences. 11: [2025-04-25 19:52:49] : LOG : Read 44 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB30014.tfa. 11: [2025-04-25 19:52:49] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 11: [2025-04-25 19:52:49] : LOG : Calculating pairwise distances 11: [2025-04-25 19:52:49] : LOG : CPU Time: 0.01u 00:00:00.01 Elapsed: 00:00:00.00 11: [2025-04-25 19:52:49] : LOG : Building guide tree. 11: [2025-04-25 19:52:49] : LOG : CPU Time: 0.03u 00:00:00.03 Elapsed: 00:00:00.00 11: [2025-04-25 19:52:49] : LOG : Aligning 11: [2025-04-25 19:52:49] : LOG : CPU Time: 0.03u 00:00:00.02 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 11/12 Test #11: kalign_itest_BB30014.tfa ......... Passed 0.05 sec test 12 Start 12: DSSIM_takes_a_min 12: Test command: /build/reproducible-path/kalign-3.4.0/obj-avx2/tests/dssim 12: Working Directory: /build/reproducible-path/kalign-3.4.0/tests 12: Test timeout computed to be: 1500 12: [2025-04-25 19:52:49] : LOG : DSSim - a simplistic sequence simulator. 12: [2025-04-25 19:52:49] : LOG : Protein 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% 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[============================== ] 60% [=================================== ] 70% [======================================== ] 80% [============================================= ] 90% [==================================================] 100% 12: [2025-04-25 19:53:21] : LOG : DNA alignments - 10000 seq 12: [ ] 0% [========================= ] 50% [==================================================] 100% 12/12 Test #12: DSSIM_takes_a_min ................ Passed 35.86 sec 100% tests passed, 0 tests failed out of 12 Total Test time (real) = 43.31 sec UpdateCTestConfiguration from :/build/reproducible-path/kalign-3.4.0/obj-avx/DartConfiguration.tcl Parse Config file:/build/reproducible-path/kalign-3.4.0/obj-avx/DartConfiguration.tcl UpdateCTestConfiguration from :/build/reproducible-path/kalign-3.4.0/obj-avx/DartConfiguration.tcl Parse Config file:/build/reproducible-path/kalign-3.4.0/obj-avx/DartConfiguration.tcl Test project /build/reproducible-path/kalign-3.4.0/obj-avx 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-avx/lib/bpm_utest 1: Working Directory: /build/reproducible-path/kalign-3.4.0/obj-avx/lib 1: Test timeout computed to be: 1500 1: LEN: 256 1: [2025-04-25 19:53:25] : LOG : Testing correctness of serial bpm. 1: 0 0 0 0 1: 0 0 0 0 1: 0 0 0 0 1: 0 0 0 0 1: 1: [2025-04-25 19:53:25] : LOG : Testing correctness of AVX bpm. 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: [2025-04-25 19:53:30] : LOG : Timing DYN 256 1: [2025-04-25 19:53:32] : LOG : 1.517399 - dyn 1: [2025-04-25 19:53:32] : LOG : 0.000000 - bpm 1: [2025-04-25 19:53:32] : LOG : 0.088578 - bpm_block2 1: [2025-04-25 19:53:32] : LOG : 0.085473 - bpm_block 1/12 Test #1: bpm_utest ........................ Passed 7.13 sec test 2 Start 2: alphabet_utest 2: Test command: /build/reproducible-path/kalign-3.4.0/obj-avx/lib/alphabet_utest 2: Working Directory: /build/reproducible-path/kalign-3.4.0/obj-avx/lib 2: Test timeout computed to be: 1500 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 2/12 Test #2: alphabet_utest ................... Passed 0.00 sec test 3 Start 3: edist_utest 3: Test command: /build/reproducible-path/kalign-3.4.0/obj-avx/lib/edist_utest 3: Working Directory: /build/reproducible-path/kalign-3.4.0/obj-avx/lib 3: Test timeout computed to be: 1500 3: [2025-04-25 19:53:32] : LOG : Check for correctness. 3: [2025-04-25 19:53:32] : LOG : Timing serial 3: [2025-04-25 19:53:32] : LOG : CPU Time: 0.01u 00:00:00.00 Elapsed: 00:00:00.00 3/12 Test #3: edist_utest ...................... Passed 0.01 sec test 4 Start 4: task_utest 4: Test command: /build/reproducible-path/kalign-3.4.0/obj-avx/lib/task_utest 4: Working Directory: /build/reproducible-path/kalign-3.4.0/obj-avx/lib 4: Test timeout computed to be: 1500 4: 575 561 616 806 877 4: 112 421 613 64 980 4: 109 731 844 594 576 4: 19 768 658 835 848 4: 737 632 34 486 78 4: 566 151 275 139 682 4: 39 272 547 526 4 4: 892 352 141 358 195 4: 951 726 129 165 355 4: 367 295 987 203 209 4: 93 247 570 859 126 4: 147 218 490 104 31 4: 160 200 790 886 210 4: 535 987 404 59 254 4: 778 380 729 477 382 4: 68 442 457 545 735 4: 165 730 289 54 693 4: 403 15 221 73 555 4: 848 357 765 594 860 4: 757 782 683 855 116 4: 477 331 906 630 727 4: 234 634 550 909 690 4: 484 112 470 640 512 4: 448 199 373 859 737 4: 756 657 974 743 635 4: 443 809 935 356 480 4: 540 689 806 791 579 4: 847 659 236 340 602 4: 68 178 682 116 524 4: 259 489 695 229 39 4: 362 937 799 577 95 4: 744 479 562 649 932 4: 121 929 779 473 697 4: 924 195 102 191 734 4: 576 884 265 177 571 4: 381 592 657 586 510 4: 412 473 253 550 549 4: 345 883 714 193 913 4: 605 444 996 644 314 4: 819 470 368 107 114 4: 941 744 395 520 460 4: 61 415 717 149 902 4: 283 517 832 58 585 4: 591 657 456 327 836 4: 356 456 880 620 987 4: 109 152 930 805 839 4: 742 118 341 11 494 4: 560 607 706 552 319 4: 29 885 476 743 831 4: 144 869 284 984 498 4: 5 353 131 633 581 4: 425 997 551 120 857 4: 64 81 802 878 11 4: 817 290 821 485 646 4/12 Test #4: task_utest ....................... Passed 0.00 sec test 5 Start 5: C++Lib 5: Test command: /build/reproducible-path/kalign-3.4.0/obj-avx/tests/kaligncpp 5: Working Directory: /build/reproducible-path/kalign-3.4.0/tests 5: Test timeout computed to be: 1500 5: Aligned: 5: ---GKGDPKKPRGKMSSYAFFVQTSREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMKTYIPPKGE---------- 5: ------MQDRVKRPMNAFIVWSRDQRRKMALENPRMR-NS-EISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREKYPNYKYRP---RRKAKMLPK 5: MKKLKKHPDFPKKPLTPYFRFFMEKRAKYAKLHPEMS-NL-DLTKILSKKYKELPEKKKMKYIQDFQREKQEFERNLARFREDHPDLIQNAKK--- 5: --------MHIKKPLNAFMLYMKEMRANVVAESTLKE-SA-AINQILGRRWHALSREEQAKYYELARKERQLHMQLYPGWSARDNYGKKKKRKREK 5/12 Test #5: C++Lib ........................... Passed 0.00 sec test 6 Start 6: kalign_itest_BB11001.tfa 6: Test command: /build/reproducible-path/kalign-3.4.0/obj-avx/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 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: [2025-04-25 19:53:32] : LOG : Detected protein sequences. 6: [2025-04-25 19:53:32] : LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB11001.tfa. 6: [2025-04-25 19:53:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 6: [2025-04-25 19:53:32] : LOG : Calculating pairwise distances 6: [2025-04-25 19:53:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 6: [2025-04-25 19:53:32] : LOG : Building guide tree. 6: [2025-04-25 19:53:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 6: [2025-04-25 19:53:32] : LOG : Aligning 6: [2025-04-25 19:53:32] : LOG : CPU Time: 0.00u 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 6/12 Test #6: kalign_itest_BB11001.tfa ......... Passed 0.00 sec test 7 Start 7: kalign_itest_BB11001_EOF.msf 7: Test command: /build/reproducible-path/kalign-3.4.0/obj-avx/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 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: [2025-04-25 19:53:32] : LOG : Detected protein sequences. 7: [2025-04-25 19:53:32] : LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB11001_EOF.msf. 7: [2025-04-25 19:53:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 7: [2025-04-25 19:53:32] : LOG : Calculating pairwise distances 7: [2025-04-25 19:53:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 7: [2025-04-25 19:53:32] : LOG : Building guide tree. 7: [2025-04-25 19:53:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 7: [2025-04-25 19:53:32] : LOG : Aligning 7: [2025-04-25 19:53:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 7: >1aab_ 7: ---GKGDPKKPRGKMSSYAFFVQTSREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKG 7: KFEDMAKADKARYEREMKTYIPPKGE---------- 7: >1j46_A 7: ------MQDRVKRPMNAFIVWSRDQRRKMALENPRMR-NS-EISKQLGYQWKMLTEAEKW 7: PFFQEAQKLQAMHREKYPNYKYRP---RRKAKMLPK 7: >1k99_A 7: MKKLKKHPDFPKKPLTPYFRFFMEKRAKYAKLHPEMS-NL-DLTKILSKKYKELPEKKKM 7: KYIQDFQREKQEFERNLARFREDHPDLIQNAKK--- 7: >2lef_A 7: --------MHIKKPLNAFMLYMKEMRANVVAESTLKE-SA-AINQILGRRWHALSREEQA 7: KYYELARKERQLHMQLYPGWSARDNYGKKKKRKREK 7/12 Test #7: kalign_itest_BB11001_EOF.msf ..... Passed 0.00 sec test 8 Start 8: kalign_itest_BB12006.msf 8: Test command: /build/reproducible-path/kalign-3.4.0/obj-avx/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 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: [2025-04-25 19:53:32] : LOG : Detected protein sequences. 8: [2025-04-25 19:53:32] : LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB12006.msf. 8: [2025-04-25 19:53:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 8: [2025-04-25 19:53:32] : LOG : Calculating pairwise distances 8: [2025-04-25 19:53:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 8: [2025-04-25 19:53:32] : LOG : Building guide tree. 8: [2025-04-25 19:53:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 8: [2025-04-25 19:53:32] : LOG : Aligning 8: [2025-04-25 19:53:32] : LOG : CPU Time: 0.00u 00:00:00.00 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---- 8/12 Test #8: kalign_itest_BB12006.msf ......... Passed 0.01 sec test 9 Start 9: kalign_itest_BB12006.tfa 9: Test command: /build/reproducible-path/kalign-3.4.0/obj-avx/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 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: [2025-04-25 19:53:32] : LOG : Detected protein sequences. 9: [2025-04-25 19:53:32] : LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB12006.tfa. 9: [2025-04-25 19:53:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 9: [2025-04-25 19:53:32] : LOG : Calculating pairwise distances 9: [2025-04-25 19:53:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 9: [2025-04-25 19:53:32] : LOG : Building guide tree. 9: [2025-04-25 19:53:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 9: [2025-04-25 19:53:32] : LOG : Aligning 9: [2025-04-25 19:53:32] : LOG : CPU Time: 0.00u 00:00:00.00 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---- 9/12 Test #9: kalign_itest_BB12006.tfa ......... Passed 0.01 sec test 10 Start 10: kalign_itest_BB30014.msf 10: Test command: /build/reproducible-path/kalign-3.4.0/obj-avx/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 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: [2025-04-25 19:53:32] : LOG : Detected protein sequences. 10: [2025-04-25 19:53:32] : LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB12006.tfa. 10: [2025-04-25 19:53:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 10: [2025-04-25 19:53:32] : LOG : Calculating pairwise distances 10: [2025-04-25 19:53:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 10: [2025-04-25 19:53:32] : LOG : Building guide tree. 10: [2025-04-25 19:53:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 10: [2025-04-25 19:53:32] : LOG : Aligning 10: [2025-04-25 19:53:32] : LOG : CPU Time: 0.00u 00:00:00.00 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---- 10/12 Test #10: kalign_itest_BB30014.msf ......... Passed 0.01 sec test 11 Start 11: kalign_itest_BB30014.tfa 11: Test command: /build/reproducible-path/kalign-3.4.0/obj-avx/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 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: [2025-04-25 19:53:32] : LOG : Detected protein sequences. 11: [2025-04-25 19:53:32] : LOG : Read 44 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB30014.tfa. 11: [2025-04-25 19:53:32] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 11: [2025-04-25 19:53:32] : LOG : Calculating pairwise distances 11: [2025-04-25 19:53:32] : LOG : CPU Time: 0.01u 00:00:00.01 Elapsed: 00:00:00.00 11: [2025-04-25 19:53:32] : LOG : Building guide tree. 11: [2025-04-25 19:53:32] : LOG : CPU Time: 0.03u 00:00:00.02 Elapsed: 00:00:00.00 11: [2025-04-25 19:53:32] : LOG : Aligning 11: [2025-04-25 19:53:32] : LOG : CPU Time: 0.03u 00:00:00.03 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 11/12 Test #11: kalign_itest_BB30014.tfa ......... Passed 0.05 sec test 12 Start 12: DSSIM_takes_a_min 12: Test command: /build/reproducible-path/kalign-3.4.0/obj-avx/tests/dssim 12: Working Directory: /build/reproducible-path/kalign-3.4.0/tests 12: Test timeout computed to be: 1500 12: [2025-04-25 19:53:32] : LOG : DSSim - a simplistic sequence simulator. 12: [2025-04-25 19:53:32] : LOG : Protein 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% [==== 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Passed 36.20 sec 100% tests passed, 0 tests failed out of 12 Total Test time (real) = 43.43 sec UpdateCTestConfiguration from :/build/reproducible-path/kalign-3.4.0/obj-sse4.1/DartConfiguration.tcl Parse Config file:/build/reproducible-path/kalign-3.4.0/obj-sse4.1/DartConfiguration.tcl UpdateCTestConfiguration from :/build/reproducible-path/kalign-3.4.0/obj-sse4.1/DartConfiguration.tcl Parse Config file:/build/reproducible-path/kalign-3.4.0/obj-sse4.1/DartConfiguration.tcl Test project /build/reproducible-path/kalign-3.4.0/obj-sse4.1 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-sse4.1/lib/bpm_utest 1: Working Directory: /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib 1: Test timeout computed to be: 1500 1: LEN: 256 1: [2025-04-25 19:54:08] : LOG : Testing correctness of serial bpm. 1: 0 0 0 0 1: 0 0 0 0 1: 0 0 0 0 1: 0 0 0 0 1: 1: [2025-04-25 19:54:08] : LOG : Testing correctness of AVX bpm. 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: [2025-04-25 19:54:14] : LOG : Timing DYN 256 1: [2025-04-25 19:54:15] : LOG : 1.521696 - dyn 1: [2025-04-25 19:54:15] : LOG : 0.000000 - bpm 1: [2025-04-25 19:54:15] : LOG : 0.089762 - bpm_block2 1: [2025-04-25 19:54:15] : LOG : 0.085531 - bpm_block 1/12 Test #1: bpm_utest ........................ Passed 7.14 sec test 2 Start 2: alphabet_utest 2: Test command: /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib/alphabet_utest 2: Working Directory: /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib 2: Test timeout computed to be: 1500 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 2/12 Test #2: alphabet_utest ................... Passed 0.00 sec test 3 Start 3: edist_utest 3: Test command: /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib/edist_utest 3: Working Directory: /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib 3: Test timeout computed to be: 1500 3: [2025-04-25 19:54:15] : LOG : Check for correctness. 3: [2025-04-25 19:54:15] : LOG : Timing serial 3: [2025-04-25 19:54:15] : LOG : CPU Time: 0.01u 00:00:00.00 Elapsed: 00:00:00.00 3/12 Test #3: edist_utest ...................... Passed 0.01 sec test 4 Start 4: task_utest 4: Test command: /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib/task_utest 4: Working Directory: /build/reproducible-path/kalign-3.4.0/obj-sse4.1/lib 4: Test timeout computed to be: 1500 4: 27 196 271 102 8 4: 107 970 296 477 457 4: 398 299 444 451 158 4: 968 536 110 1 221 4: 88 684 415 194 832 4: 315 907 773 279 307 4: 955 512 572 558 526 4: 160 769 680 108 23 4: 527 497 12 283 116 4: 141 194 481 541 392 4: 288 680 819 975 592 4: 760 732 78 28 845 4: 922 337 283 740 687 4: 275 859 711 263 582 4: 551 900 56 147 590 4: 425 203 391 497 414 4: 489 343 306 953 166 4: 13 668 285 735 355 4: 421 984 214 802 42 4: 780 387 265 654 881 4: 573 606 179 711 621 4: 392 345 701 808 768 4: 314 326 721 684 443 4: 745 84 933 247 446 4: 487 745 470 157 155 4: 537 245 457 422 941 4: 114 92 490 232 999 4: 66 233 98 153 581 4: 527 641 702 273 755 4: 615 524 40 709 122 4: 495 309 292 633 539 4: 86 58 292 496 126 4: 866 569 457 493 225 4: 130 715 419 715 490 4: 665 311 593 782 344 4: 299 409 608 795 910 4: 287 977 451 328 737 4: 146 303 260 623 142 4: 400 510 194 804 656 4: 327 373 549 831 584 4: 143 880 678 97 886 4: 989 795 935 631 925 4: 440 543 468 21 46 4: 140 502 278 149 88 4: 64 186 63 102 762 4: 571 453 90 745 200 4: 628 931 438 564 657 4: 17 491 785 253 572 4: 420 838 77 20 231 4: 909 287 326 489 57 4: 604 832 464 61 7 4: 135 942 617 633 774 4: 920 162 192 959 117 4: 182 110 254 678 590 4/12 Test #4: task_utest ....................... Passed 0.00 sec test 5 Start 5: C++Lib 5: Test command: /build/reproducible-path/kalign-3.4.0/obj-sse4.1/tests/kaligncpp 5: Working Directory: /build/reproducible-path/kalign-3.4.0/tests 5: Test timeout computed to be: 1500 5: Aligned: 5: ---GKGDPKKPRGKMSSYAFFVQTSREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMKTYIPPKGE---------- 5: ------MQDRVKRPMNAFIVWSRDQRRKMALENPRMR-NS-EISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREKYPNYKYRP---RRKAKMLPK 5: MKKLKKHPDFPKKPLTPYFRFFMEKRAKYAKLHPEMS-NL-DLTKILSKKYKELPEKKKMKYIQDFQREKQEFERNLARFREDHPDLIQNAKK--- 5: --------MHIKKPLNAFMLYMKEMRANVVAESTLKE-SA-AINQILGRRWHALSREEQAKYYELARKERQLHMQLYPGWSARDNYGKKKKRKREK 5/12 Test #5: C++Lib ........................... Passed 0.00 sec test 6 Start 6: kalign_itest_BB11001.tfa 6: Test command: /build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 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: [2025-04-25 19:54:15] : LOG : Detected protein sequences. 6: [2025-04-25 19:54:15] : LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB11001.tfa. 6: [2025-04-25 19:54:15] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 6: [2025-04-25 19:54:15] : LOG : Calculating pairwise distances 6: [2025-04-25 19:54:15] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 6: [2025-04-25 19:54:15] : LOG : Building guide tree. 6: [2025-04-25 19:54:15] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 6: [2025-04-25 19:54:15] : LOG : Aligning 6: [2025-04-25 19:54:15] : LOG : CPU Time: 0.00u 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 6/12 Test #6: kalign_itest_BB11001.tfa ......... Passed 0.00 sec test 7 Start 7: kalign_itest_BB11001_EOF.msf 7: Test command: /build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 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: [2025-04-25 19:54:15] : LOG : Detected protein sequences. 7: [2025-04-25 19:54:15] : LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB11001_EOF.msf. 7: [2025-04-25 19:54:15] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 7: [2025-04-25 19:54:15] : LOG : Calculating pairwise distances 7: [2025-04-25 19:54:15] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 7: [2025-04-25 19:54:15] : LOG : Building guide tree. 7: [2025-04-25 19:54:15] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 7: [2025-04-25 19:54:15] : LOG : Aligning 7: [2025-04-25 19:54:15] : 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 7/12 Test #7: kalign_itest_BB11001_EOF.msf ..... Passed 0.00 sec test 8 Start 8: kalign_itest_BB12006.msf 8: Test command: /build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 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: [2025-04-25 19:54:15] : LOG : Detected protein sequences. 8: [2025-04-25 19:54:15] : LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB12006.msf. 8: [2025-04-25 19:54:15] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 8: [2025-04-25 19:54:15] : LOG : Calculating pairwise distances 8: [2025-04-25 19:54:15] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 8: [2025-04-25 19:54:15] : LOG : Building guide tree. 8: [2025-04-25 19:54:15] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 8: [2025-04-25 19:54:15] : LOG : Aligning 8: [2025-04-25 19:54:15] : LOG : CPU Time: 0.00u 00:00:00.00 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---- 8/12 Test #8: kalign_itest_BB12006.msf ......... Passed 0.01 sec test 9 Start 9: kalign_itest_BB12006.tfa 9: Test command: /build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 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: [2025-04-25 19:54:15] : LOG : Detected protein sequences. 9: [2025-04-25 19:54:15] : LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB12006.tfa. 9: [2025-04-25 19:54:15] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 9: [2025-04-25 19:54:15] : LOG : Calculating pairwise distances 9: [2025-04-25 19:54:15] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 9: [2025-04-25 19:54:15] : LOG : Building guide tree. 9: [2025-04-25 19:54:15] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 9: [2025-04-25 19:54:15] : LOG : Aligning 9: [2025-04-25 19:54:15] : LOG : CPU Time: 0.00u 00:00:00.00 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---- 9/12 Test #9: kalign_itest_BB12006.tfa ......... Passed 0.01 sec test 10 Start 10: kalign_itest_BB30014.msf 10: Test command: /build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 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: [2025-04-25 19:54:15] : LOG : Detected protein sequences. 10: [2025-04-25 19:54:15] : LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB12006.tfa. 10: [2025-04-25 19:54:15] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 10: [2025-04-25 19:54:15] : LOG : Calculating pairwise distances 10: [2025-04-25 19:54:15] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 10: [2025-04-25 19:54:15] : LOG : Building guide tree. 10: [2025-04-25 19:54:15] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 10: [2025-04-25 19:54:15] : LOG : Aligning 10: [2025-04-25 19:54:15] : LOG : CPU Time: 0.00u 00:00:00.00 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---- 10/12 Test #10: kalign_itest_BB30014.msf ......... Passed 0.01 sec test 11 Start 11: kalign_itest_BB30014.tfa 11: Test command: /build/reproducible-path/kalign-3.4.0/obj-sse4.1/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 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: [2025-04-25 19:54:15] : LOG : Detected protein sequences. 11: [2025-04-25 19:54:15] : LOG : Read 44 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB30014.tfa. 11: [2025-04-25 19:54:15] : LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00 11: [2025-04-25 19:54:15] : LOG : Calculating pairwise distances 11: [2025-04-25 19:54:15] : LOG : CPU Time: 0.01u 00:00:00.00 Elapsed: 00:00:00.00 11: [2025-04-25 19:54:15] : LOG : Building guide tree. 11: [2025-04-25 19:54:15] : LOG : CPU Time: 0.03u 00:00:00.03 Elapsed: 00:00:00.00 11: [2025-04-25 19:54:15] : LOG : Aligning 11: [2025-04-25 19:54:15] : LOG : CPU Time: 0.03u 00:00:00.02 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 11/12 Test #11: kalign_itest_BB30014.tfa ......... Passed 0.05 sec test 12 Start 12: DSSIM_takes_a_min 12: Test command: /build/reproducible-path/kalign-3.4.0/obj-sse4.1/tests/dssim 12: Working Directory: /build/reproducible-path/kalign-3.4.0/tests 12: Test timeout computed to be: 1500 12: [2025-04-25 19:54:16] : LOG : DSSim - a simplistic sequence simulator. 12: [2025-04-25 19:54:16] : LOG : Protein 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% 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Passed 36.21 sec 100% tests passed, 0 tests failed out of 12 Total Test time (real) = 43.50 sec make[1]: Leaving directory '/build/reproducible-path/kalign-3.4.0' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/kalign/ cd obj-x86_64-linux-gnu && make -j40 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-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/kalign-3.4.0 -B/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-x86_64-linux-gnu' 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/x86_64-linux-gnu/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/x86_64-linux-gnu/cmake/kalign/kalignTargets.cmake -- Installing: /build/reproducible-path/kalign-3.4.0/debian/kalign/usr/lib/x86_64-linux-gnu/cmake/kalign/kalignTargets-none.cmake -- Installing: /build/reproducible-path/kalign-3.4.0/debian/kalign/usr/lib/x86_64-linux-gnu/cmake/kalign/kalignConfig.cmake -- Installing: /build/reproducible-path/kalign-3.4.0/debian/kalign/usr/lib/x86_64-linux-gnu/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-x86_64-linux-gnu' debian/rules execute_after_dh_install make[1]: Entering directory '/build/reproducible-path/kalign-3.4.0' rm -rf debian/kalign/usr/lib/x86_64-linux-gnu/ dh_install obj-x86_64-linux-gnu/src/kalignfmt usr/bin mkdir -p debian/kalign/usr/lib/kalign/bin cp obj-avx2/src/kalign debian/kalign/usr/lib/kalign/kalign-avx2 cp obj-avx/src/kalign debian/kalign/usr/lib/kalign/kalign-avx cp obj-sse4.1/src/kalign debian/kalign/usr/lib/kalign/kalign-sse4.1 cp obj-avx2/src/kalignfmt debian/kalign/usr/lib/kalign/kalignfmt-avx2 cp obj-avx/src/kalignfmt debian/kalign/usr/lib/kalign/kalignfmt-avx cp obj-sse4.1/src/kalignfmt debian/kalign/usr/lib/kalign/kalignfmt-sse4.1 mv debian/kalign/usr/bin/kalign debian/kalign/usr/lib/kalign/kalign-plain mv debian/kalign/usr/bin/kalignfmt debian/kalign/usr/lib/kalign/kalignfmt-plain dh_install -pkalign debian/bin/simd-dispatch /usr/lib/kalign/bin cd /build/reproducible-path/kalign-3.4.0/debian/kalign/usr/bin && \ ln -s ../lib/kalign/bin/simd-dispatch kalign cd /build/reproducible-path/kalign-3.4.0/debian/kalign/usr/bin && \ ln -s ../lib/kalign/bin/simd-dispatch kalignfmt 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 (= 0.8.2-3), " 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_amd64.deb'. dpkg-deb: building package 'kalign-dbgsym' in '../kalign-dbgsym_3.4.0-1_amd64.deb'. dpkg-genbuildinfo --build=binary -O../kalign_3.4.0-1_amd64.buildinfo dpkg-genchanges --build=binary -O../kalign_3.4.0-1_amd64.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: 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/146242 and its subdirectories I: Current time: Fri Apr 25 07:55:04 -12 2025 I: pbuilder-time-stamp: 1745610904