Tue Dec 17 14:55:55 UTC 2024  I: starting to build kalign/trixie/i386 on jenkins on '2024-12-17 14:55'
Tue Dec 17 14:55:55 UTC 2024  I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_4/45488/console.log
Tue Dec 17 14:55:55 UTC 2024  I: Downloading source for trixie/kalign=1:3.4.0-1
--2024-12-17 14:55:56--  http://deb.debian.org/debian/pool/main/k/kalign/kalign_3.4.0-1.dsc
Connecting to 46.16.76.132:3128... connected.
Proxy request sent, awaiting response... 200 OK
Length: 1962 (1.9K) [text/prs.lines.tag]
Saving to: ‘kalign_3.4.0-1.dsc’

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2024-12-17 14:55:56 (255 MB/s) - ‘kalign_3.4.0-1.dsc’ saved [1962/1962]

Tue Dec 17 14:55:56 UTC 2024  I: kalign_3.4.0-1.dsc
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA512

Format: 3.0 (quilt)
Source: kalign
Binary: kalign
Architecture: any
Version: 1:3.4.0-1
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Charles Plessy <plessy@debian.org>, Andreas Tille <tille@debian.org>
Homepage: https://msa.sbc.su.se/
Standards-Version: 4.6.2
Vcs-Browser: https://salsa.debian.org/med-team/kalign
Vcs-Git: https://salsa.debian.org/med-team/kalign.git
Testsuite: autopkgtest
Build-Depends: debhelper-compat (= 13), libsimde-dev, cmake
Package-List:
 kalign deb science optional arch=any
Checksums-Sha1:
 3a843c18bd6337b80b373815e2ec4b73ce53f3ab 903277 kalign_3.4.0.orig.tar.gz
 580fd65a94ca1e2cc4bcd70588708fa680c5195f 12372 kalign_3.4.0-1.debian.tar.xz
Checksums-Sha256:
 67d1a562d54b3b7622cc3164588c05b9e2bf8f1a5140bb48a4e816c61a87d4a8 903277 kalign_3.4.0.orig.tar.gz
 83643a83685ef7b3da11348ccb6d3b5c22478547b46a8b88288530a6c00cf8bc 12372 kalign_3.4.0-1.debian.tar.xz
Files:
 52243b10203d6ce97ade643638571c1e 903277 kalign_3.4.0.orig.tar.gz
 6a79c99575fec3b663aa9b0ce68b277e 12372 kalign_3.4.0-1.debian.tar.xz

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Tue Dec 17 14:55:56 UTC 2024  I: Checking whether the package is not for us
Tue Dec 17 14:55:56 UTC 2024  I: Starting 1st build on remote node ionos16-i386.debian.net.
Tue Dec 17 14:55:56 UTC 2024  I: Preparing to do remote build '1' on ionos16-i386.debian.net.
Tue Dec 17 14:58:06 UTC 2024  I: Deleting $TMPDIR on ionos16-i386.debian.net.
I: pbuilder: network access will be disabled during build
I: Current time: Mon Jan 19 09:18:57 -12 2026
I: pbuilder-time-stamp: 1768857537
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: using eatmydata during job
I: Copying source file
I: copying [kalign_3.4.0-1.dsc]
I: copying [./kalign_3.4.0.orig.tar.gz]
I: copying [./kalign_3.4.0-1.debian.tar.xz]
I: Extracting source
gpgv: Signature made Tue Apr  2 11:51:35 2024 
gpgv:                using RSA key 724D609337113C710550D7473C26763F6C67E6E2
gpgv: Can't check signature: No public key
dpkg-source: warning: cannot verify inline signature for ./kalign_3.4.0-1.dsc: no acceptable signature found
dpkg-source: info: extracting kalign in kalign-3.4.0
dpkg-source: info: unpacking kalign_3.4.0.orig.tar.gz
dpkg-source: info: unpacking kalign_3.4.0-1.debian.tar.xz
I: Not using root during the build.
I: Installing the build-deps
I: user script /srv/workspace/pbuilder/49113/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='i386'
  DEBIAN_FRONTEND='noninteractive'
  DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=22 '
  DISTRIBUTION='trixie'
  HOME='/root'
  HOST_ARCH='i386'
  IFS=' 	
  '
  INVOCATION_ID='b12bf1b91b974d4f9fbdaa1c9c83c99a'
  LANG='C'
  LANGUAGE='en_US:en'
  LC_ALL='C'
  LD_LIBRARY_PATH='/usr/lib/libeatmydata'
  LD_PRELOAD='libeatmydata.so'
  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='49113'
  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.nftTTDI6/pbuilderrc_IgbN --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.nftTTDI6/b1 --logfile b1/build.log kalign_3.4.0-1.dsc'
  SUDO_GID='112'
  SUDO_UID='107'
  SUDO_USER='jenkins'
  TERM='unknown'
  TZ='/usr/share/zoneinfo/Etc/GMT+12'
  USER='root'
  _='/usr/bin/systemd-run'
  http_proxy='http://213.165.73.152:3128'
I: uname -a
  Linux ionos16-i386 6.1.0-28-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.119-1 (2024-11-22) x86_64 GNU/Linux
I: ls -l /bin
  lrwxrwxrwx 1 root root 7 Nov 22  2024 /bin -> usr/bin
I: user script /srv/workspace/pbuilder/49113/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: i386
Maintainer: Debian Pbuilder Team <pbuilder-maint@lists.alioth.debian.org>
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 ... 19952 files and directories currently installed.)
Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ...
Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ...
dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested:
 pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however:
  Package debhelper-compat is not installed.
 pbuilder-satisfydepends-dummy depends on libsimde-dev; however:
  Package libsimde-dev is not installed.
 pbuilder-satisfydepends-dummy depends on cmake; however:
  Package cmake is not installed.

Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ...
Reading package lists...
Building dependency tree...
Reading state information...
Initializing package states...
Writing extended state information...
Building tag database...
pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0)
pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0)
The following NEW packages will be installed:
  autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} cmake{a} cmake-data{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13t64{a} libbrotli1{a} libcom-err2{a} libcurl4t64{a} libdebhelper-perl{a} libelf1t64{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libgssapi-krb5-2{a} libicu72{a} libjsoncpp26{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap-2.5-0{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libpipeline1{a} libproc2-0{a} libpsl5t64{a} librhash1{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsimde-dev{a} libssh2-1t64{a} libtool{a} libuchardet0{a} libuv1t64{a} libxml2{a} m4{a} man-db{a} po-debconf{a} procps{a} sensible-utils{a} 
The following packages are RECOMMENDED but will NOT be installed:
  ca-certificates curl krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules linux-sysctl-defaults lynx psmisc publicsuffix wget 
0 packages upgraded, 54 newly installed, 0 to remove and 0 not upgraded.
Need to get 39.2 MB of archives. After unpacking 149 MB will be used.
Writing extended state information...
Get: 1 http://deb.debian.org/debian trixie/main i386 libproc2-0 i386 2:4.0.4-6 [65.7 kB]
Get: 2 http://deb.debian.org/debian trixie/main i386 procps i386 2:4.0.4-6 [876 kB]
Get: 3 http://deb.debian.org/debian trixie/main i386 sensible-utils all 0.0.24 [24.8 kB]
Get: 4 http://deb.debian.org/debian trixie/main i386 libmagic-mgc i386 1:5.45-3+b1 [314 kB]
Get: 5 http://deb.debian.org/debian trixie/main i386 libmagic1t64 i386 1:5.45-3+b1 [115 kB]
Get: 6 http://deb.debian.org/debian trixie/main i386 file i386 1:5.45-3+b1 [43.2 kB]
Get: 7 http://deb.debian.org/debian trixie/main i386 gettext-base i386 0.22.5-2 [201 kB]
Get: 8 http://deb.debian.org/debian trixie/main i386 libuchardet0 i386 0.0.8-1+b2 [69.2 kB]
Get: 9 http://deb.debian.org/debian trixie/main i386 groff-base i386 1.23.0-6 [1198 kB]
Get: 10 http://deb.debian.org/debian trixie/main i386 bsdextrautils i386 2.40.2-12 [95.9 kB]
Get: 11 http://deb.debian.org/debian trixie/main i386 libpipeline1 i386 1.5.8-1 [41.2 kB]
Get: 12 http://deb.debian.org/debian trixie/main i386 man-db i386 2.13.0-1 [1428 kB]
Get: 13 http://deb.debian.org/debian trixie/main i386 m4 i386 1.4.19-4 [293 kB]
Get: 14 http://deb.debian.org/debian trixie/main i386 autoconf all 2.72-3 [493 kB]
Get: 15 http://deb.debian.org/debian trixie/main i386 autotools-dev all 20220109.1 [51.6 kB]
Get: 16 http://deb.debian.org/debian trixie/main i386 automake all 1:1.16.5-1.3 [823 kB]
Get: 17 http://deb.debian.org/debian trixie/main i386 autopoint all 0.22.5-2 [723 kB]
Get: 18 http://deb.debian.org/debian trixie/main i386 cmake-data all 3.30.5-1 [2223 kB]
Get: 19 http://deb.debian.org/debian trixie/main i386 libicu72 i386 72.1-5+b1 [9583 kB]
Get: 20 http://deb.debian.org/debian trixie/main i386 libxml2 i386 2.12.7+dfsg+really2.9.14-0.2+b1 [734 kB]
Get: 21 http://deb.debian.org/debian trixie/main i386 libarchive13t64 i386 3.7.4-1.1 [390 kB]
Get: 22 http://deb.debian.org/debian trixie/main i386 libbrotli1 i386 1.1.0-2+b6 [308 kB]
Get: 23 http://deb.debian.org/debian trixie/main i386 libkrb5support0 i386 1.21.3-3 [34.9 kB]
Get: 24 http://deb.debian.org/debian trixie/main i386 libcom-err2 i386 1.47.2~rc1-2 [24.0 kB]
Get: 25 http://deb.debian.org/debian trixie/main i386 libk5crypto3 i386 1.21.3-3 [83.6 kB]
Get: 26 http://deb.debian.org/debian trixie/main i386 libkeyutils1 i386 1.6.3-4 [9600 B]
Get: 27 http://deb.debian.org/debian trixie/main i386 libkrb5-3 i386 1.21.3-3 [350 kB]
Get: 28 http://deb.debian.org/debian trixie/main i386 libgssapi-krb5-2 i386 1.21.3-3 [146 kB]
Get: 29 http://deb.debian.org/debian trixie/main i386 libsasl2-modules-db i386 2.1.28+dfsg1-8 [20.6 kB]
Get: 30 http://deb.debian.org/debian trixie/main i386 libsasl2-2 i386 2.1.28+dfsg1-8 [61.0 kB]
Get: 31 http://deb.debian.org/debian trixie/main i386 libldap-2.5-0 i386 2.5.18+dfsg-3+b1 [200 kB]
Get: 32 http://deb.debian.org/debian trixie/main i386 libnghttp2-14 i386 1.64.0-1 [82.4 kB]
Get: 33 http://deb.debian.org/debian trixie/main i386 libpsl5t64 i386 0.21.2-1.1+b1 [57.7 kB]
Get: 34 http://deb.debian.org/debian trixie/main i386 librtmp1 i386 2.4+20151223.gitfa8646d.1-2+b5 [62.4 kB]
Get: 35 http://deb.debian.org/debian trixie/main i386 libssh2-1t64 i386 1.11.1-1 [256 kB]
Get: 36 http://deb.debian.org/debian trixie/main i386 libcurl4t64 i386 8.11.1-1 [393 kB]
Get: 37 http://deb.debian.org/debian trixie/main i386 libexpat1 i386 2.6.4-1 [107 kB]
Get: 38 http://deb.debian.org/debian trixie/main i386 libjsoncpp26 i386 1.9.6-3 [90.0 kB]
Get: 39 http://deb.debian.org/debian trixie/main i386 librhash1 i386 1.4.5-1 [144 kB]
Get: 40 http://deb.debian.org/debian trixie/main i386 libuv1t64 i386 1.48.0-7 [157 kB]
Get: 41 http://deb.debian.org/debian trixie/main i386 cmake i386 3.30.5-1 [12.5 MB]
Get: 42 http://deb.debian.org/debian trixie/main i386 libdebhelper-perl all 13.20 [89.7 kB]
Get: 43 http://deb.debian.org/debian trixie/main i386 libtool all 2.4.7-8 [517 kB]
Get: 44 http://deb.debian.org/debian trixie/main i386 dh-autoreconf all 20 [17.1 kB]
Get: 45 http://deb.debian.org/debian trixie/main i386 libarchive-zip-perl all 1.68-1 [104 kB]
Get: 46 http://deb.debian.org/debian trixie/main i386 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB]
Get: 47 http://deb.debian.org/debian trixie/main i386 dh-strip-nondeterminism all 1.14.0-1 [8448 B]
Get: 48 http://deb.debian.org/debian trixie/main i386 libelf1t64 i386 0.192-4 [195 kB]
Get: 49 http://deb.debian.org/debian trixie/main i386 dwz i386 0.15-1+b1 [116 kB]
Get: 50 http://deb.debian.org/debian trixie/main i386 gettext i386 0.22.5-2 [1631 kB]
Get: 51 http://deb.debian.org/debian trixie/main i386 intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get: 52 http://deb.debian.org/debian trixie/main i386 po-debconf all 1.0.21+nmu1 [248 kB]
Get: 53 http://deb.debian.org/debian trixie/main i386 debhelper all 13.20 [915 kB]
Get: 54 http://deb.debian.org/debian trixie/main i386 libsimde-dev all 0.8.2-2 [467 kB]
Fetched 39.2 MB in 0s (92.8 MB/s)
debconf: delaying package configuration, since apt-utils is not installed
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(Reading database ... 19952 files and directories currently installed.)
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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 <crusoe@debian.org>
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dpkg-buildpackage: info: host architecture i386
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dh clean
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dh_auto_configure -- -DBUILD_SHARED_LIBS=OFF -DINSTALL_PREFIX=/usr -DENABLE_SSE=OFF -DENABLE_AVX=OFF -DENABLE_AVX2=OFF
	cd obj-i686-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/i386-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
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-- Performing Test COMPILER_HAS_HIDDEN_VISIBILITY
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-- Performing Test COMPILER_HAS_DEPRECATED_ATTR
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-- 
-- 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 -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2
-- OpenMP version            : 4.5
-- OpenMP flags              : -fopenmp
-- Configuring done (1.5s)
-- Generating done (0.1s)
CMake Warning:
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    CMAKE_EXPORT_NO_PACKAGE_REGISTRY
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cd /build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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-i686-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 -Wformat -Werror=format-security -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
[ 10%] Building C object lib/CMakeFiles/tldevel.dir/src/tlmisc.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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-i686-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 -Wformat -Werror=format-security -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
[ 12%] Building C object lib/CMakeFiles/bpm_utest.dir/src/tlrng.c.o
[ 13%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/esl_stopwatch.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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
[ 14%] Building C object lib/CMakeFiles/edist_utest.dir/src/tlrng.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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
[ 17%] Building C object lib/CMakeFiles/tldevel.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/edist_utest.dir/src/euclidean_dist.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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-i686-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 -Wformat -Werror=format-security -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
[ 20%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/tlrng.c.o
[ 21%] Building C object lib/CMakeFiles/task_utest.dir/src/tldevel.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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-i686-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 -Wformat -Werror=format-security -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
[ 22%] Building C object lib/CMakeFiles/tldevel.dir/src/esl_stopwatch.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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-i686-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 -Wformat -Werror=format-security -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-i686-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 -Wformat -Werror=format-security -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
[ 24%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_op.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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
[ 27%] 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
cd /build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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
[ 28%] Building C object lib/CMakeFiles/alphabet_utest.dir/src/tldevel.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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-i686-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 -Wformat -Werror=format-security -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
[ 29%] Building C object lib/CMakeFiles/bpm_utest.dir/src/bpm.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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-i686-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 -Wformat -Werror=format-security -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-i686-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 -Wformat -Werror=format-security -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
/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;
      |               ^~
[ 31%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_io.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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
[ 32%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_misc.c.o
[ 33%] Building C object lib/CMakeFiles/bpm_utest.dir/src/bpm_test.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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
[ 35%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_check.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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-i686-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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
[ 36%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_cmp.c.o
[ 37%] Building C object lib/CMakeFiles/task_utest.dir/src/tlrng.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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
[ 39%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/msa_sort.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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-i686-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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
[ 40%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/alphabet.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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
[ 41%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/task.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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
[ 43%] Building C object lib/CMakeFiles/task_utest.dir/src/task.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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
[ 44%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/bisectingKmeans.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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
[ 45%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/sequence_distance.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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
/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);
      |                 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
[ 47%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/bpm.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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
/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);
      |                 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
[ 48%] Building C object lib/CMakeFiles/alphabet_utest.dir/src/alphabet.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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
[ 50%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/euclidean_dist.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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
[ 51%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/pick_anchor.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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
[ 52%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_wrap.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-i686-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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-i686-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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
[ 55%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_run.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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
[ 58%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_setup.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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-i686-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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-i686-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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_profileprofile.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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
[ 63%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/aln_seqprofile.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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
[ 64%] Building C object lib/CMakeFiles/kalign_OBJ.dir/src/weave_alignment.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/lib && /usr/bin/cc -DHAVE_OPENMP -I/build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -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-i686-linux-gnu/lib && /usr/bin/cmake -P CMakeFiles/tldevel.dir/cmake_clean_target.cmake
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/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
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make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu'
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[ 67%] Linking C executable task_utest
[ 67%] Built target tldevel
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/task_utest.dir/link.txt --verbose=1
[ 67%] Built target kalign_OBJ
make  -f lib/CMakeFiles/kalign.dir/build.make lib/CMakeFiles/kalign.dir/depend
[ 68%] Linking C executable edist_utest
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cd /build/reproducible-path/kalign-3.4.0/obj-i686-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-i686-linux-gnu /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/lib /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/lib/CMakeFiles/kalign.dir/DependInfo.cmake "--color="
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/edist_utest.dir/link.txt --verbose=1
make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu'
cd /build/reproducible-path/kalign-3.4.0/obj-i686-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-i686-linux-gnu /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/lib /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/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 -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/task_utest.dir/src/tldevel.c.o CMakeFiles/task_utest.dir/src/tlrng.c.o CMakeFiles/task_utest.dir/src/task.c.o -o task_utest  -lm
/usr/bin/cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/edist_utest.dir/src/tldevel.c.o CMakeFiles/edist_utest.dir/src/tlrng.c.o CMakeFiles/edist_utest.dir/src/esl_stopwatch.c.o CMakeFiles/edist_utest.dir/src/euclidean_dist.c.o -o edist_utest  -lm
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[ 70%] Linking C static library libkalign.a
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[ 71%] Linking C static library libkalign_static.a
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[ 72%] Linking C executable alphabet_utest
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[ 72%] Built target task_utest
/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/cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/alphabet_utest.dir/src/tldevel.c.o CMakeFiles/alphabet_utest.dir/src/alphabet.c.o -o alphabet_utest
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[ 72%] Built target edist_utest
/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
[ 74%] Linking C executable bpm_utest
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/lib && /usr/bin/cmake -E cmake_link_script CMakeFiles/bpm_utest.dir/link.txt --verbose=1
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/usr/bin/ranlib libkalign_static.a
/usr/bin/cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -fPIC -Wl,-z,relro -Wl,-z,now CMakeFiles/bpm_utest.dir/src/tldevel.c.o CMakeFiles/bpm_utest.dir/src/tlrng.c.o CMakeFiles/bpm_utest.dir/src/esl_stopwatch.c.o CMakeFiles/bpm_utest.dir/src/alphabet.c.o CMakeFiles/bpm_utest.dir/src/bpm.c.o CMakeFiles/bpm_utest.dir/src/bpm_test.c.o -o bpm_utest  -lm
[ 74%] Built target alphabet_utest
[ 74%] Built target kalign
make  -f src/CMakeFiles/kalignfmt.dir/build.make src/CMakeFiles/kalignfmt.dir/depend
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cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu && /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-i686-linux-gnu /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/src /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/src/CMakeFiles/kalignfmt.dir/DependInfo.cmake "--color="
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make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu'
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/kalign-3.4.0 /build/reproducible-path/kalign-3.4.0/tests /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/tests /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/tests/CMakeFiles/kalign_io_test.dir/DependInfo.cmake "--color="
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cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/kalign-3.4.0 /build/reproducible-path/kalign-3.4.0/tests /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/tests /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/tests/CMakeFiles/dssim.dir/DependInfo.cmake "--color="
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cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/kalign-3.4.0 /build/reproducible-path/kalign-3.4.0/tests /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/tests /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/tests/CMakeFiles/kalign_lib_test.dir/DependInfo.cmake "--color="
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make[3]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu'
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/kalign-3.4.0 /build/reproducible-path/kalign-3.4.0/tests /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/tests /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/tests/CMakeFiles/kalign_cmp_test.dir/DependInfo.cmake "--color="
make  -f src/CMakeFiles/kalignfmt.dir/build.make src/CMakeFiles/kalignfmt.dir/build
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cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/kalign-3.4.0 /build/reproducible-path/kalign-3.4.0/tests /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/tests /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/tests/CMakeFiles/kaligncpp.dir/DependInfo.cmake "--color="
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[ 74%] Built target kalign_static
make  -f tests/CMakeFiles/dssim.dir/build.make tests/CMakeFiles/dssim.dir/build
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cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu && /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-i686-linux-gnu /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/src /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/src/CMakeFiles/kalign-bin.dir/DependInfo.cmake "--color="
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make  -f tests/CMakeFiles/kalign_cmp_test.dir/build.make tests/CMakeFiles/kalign_cmp_test.dir/build
[ 75%] Building C object src/CMakeFiles/kalignfmt.dir/run_reformat.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-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-i686-linux-gnu/lib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -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
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[ 77%] Building C object tests/CMakeFiles/kalign_io_test.dir/kalign_io_test.c.o
[ 79%] Building C object src/CMakeFiles/kalignfmt.dir/parameters.c.o
[ 79%] Building C object tests/CMakeFiles/dssim.dir/dssim_test.c.o
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[ 81%] Building C object tests/CMakeFiles/dssim.dir/dssim.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-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-i686-linux-gnu/lib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -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-i686-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-i686-linux-gnu/lib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -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
cd /build/reproducible-path/kalign-3.4.0/obj-i686-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-i686-linux-gnu/lib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -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
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[ 82%] Building C object tests/CMakeFiles/kalign_lib_test.dir/kalign_lib_test.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-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-i686-linux-gnu/lib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -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
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cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/kalign-3.4.0 /build/reproducible-path/kalign-3.4.0/tests /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/tests /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/tests/CMakeFiles/largebench.dir/DependInfo.cmake "--color="
[ 83%] Building C object tests/CMakeFiles/kalign_cmp_test.dir/kalign_cmp_test.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-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-i686-linux-gnu/lib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -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
[ 85%] Building CXX object tests/CMakeFiles/kaligncpp.dir/kalign_lib_testCXX.cpp.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-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-i686-linux-gnu/lib -g -O2 -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -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
[ 86%] Building C object src/CMakeFiles/kalign-bin.dir/run_kalign.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-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-i686-linux-gnu/lib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -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
[ 87%] Building C object src/CMakeFiles/kalign-bin.dir/parameters.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-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-i686-linux-gnu/lib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -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
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[ 89%] Building C object tests/CMakeFiles/largebench.dir/large_benchmark.c.o
cd /build/reproducible-path/kalign-3.4.0/obj-i686-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-i686-linux-gnu/lib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -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
[ 90%] Linking C executable kalign_io_test
[ 91%] Linking C executable kalign_cmp_test
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cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/kalign_io_test.dir/link.txt --verbose=1
/usr/bin/cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -Wl,-z,relro -Wl,-z,now CMakeFiles/kalign_cmp_test.dir/kalign_cmp_test.c.o -o kalign_cmp_test  ../lib/libkalign.a -lm /usr/lib/gcc/i686-linux-gnu/14/libgomp.so /usr/lib/i386-linux-gnu/libpthread.a
/usr/bin/cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -Wl,-z,relro -Wl,-z,now CMakeFiles/kalign_io_test.dir/kalign_io_test.c.o -o kalign_io_test  ../lib/libkalign.a -lm /usr/lib/gcc/i686-linux-gnu/14/libgomp.so /usr/lib/i386-linux-gnu/libpthread.a
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cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/kalign_lib_test.dir/link.txt --verbose=1
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[ 93%] Built target kalign_cmp_test
[ 93%] Built target kalign_io_test
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[ 93%] Built target kalign_lib_test
[ 94%] Linking C executable kalignfmt
cd /build/reproducible-path/kalign-3.4.0/obj-i686-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 -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -Wl,-z,relro -Wl,-z,now CMakeFiles/kalignfmt.dir/run_reformat.c.o CMakeFiles/kalignfmt.dir/parameters.c.o -o kalignfmt  ../lib/libtldevel.a ../lib/libkalign.a -lm /usr/lib/gcc/i686-linux-gnu/14/libgomp.so /usr/lib/i386-linux-gnu/libpthread.a
[ 95%] Linking C executable kalign
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/kalign-bin.dir/link.txt --verbose=1
make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu'
/usr/bin/cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -Wl,-z,relro -Wl,-z,now "CMakeFiles/kalign-bin.dir/run_kalign.c.o" "CMakeFiles/kalign-bin.dir/parameters.c.o" -o kalign  ../lib/libtldevel.a ../lib/libkalign_static.a -lm /usr/lib/gcc/i686-linux-gnu/14/libgomp.so /usr/lib/i386-linux-gnu/libpthread.a
[ 95%] Built target kalignfmt
make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu'
[ 95%] Built target kalign-bin
[ 97%] Linking C executable largebench
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/largebench.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 -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -Wl,-z,relro -Wl,-z,now CMakeFiles/largebench.dir/large_benchmark.c.o -o largebench  ../lib/libtldevel.a ../lib/libkalign_static.a -lm /usr/lib/gcc/i686-linux-gnu/14/libgomp.so /usr/lib/i386-linux-gnu/libpthread.a
[ 98%] Linking C executable dssim
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/dssim.dir/link.txt --verbose=1
make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu'
/usr/bin/cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -Wl,-z,relro -Wl,-z,now CMakeFiles/dssim.dir/dssim_test.c.o CMakeFiles/dssim.dir/dssim.c.o -o dssim  ../lib/libtldevel.a ../lib/libkalign.a -lm /usr/lib/gcc/i686-linux-gnu/14/libgomp.so /usr/lib/i386-linux-gnu/libpthread.a
[ 98%] Built target largebench
make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu'
[ 98%] Built target dssim
/build/reproducible-path/kalign-3.4.0/tests/kalign_lib_testCXX.cpp: In function 'int main()':
/build/reproducible-path/kalign-3.4.0/tests/kalign_lib_testCXX.cpp:10:17: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
   10 |                 "GKGDPKKPRGKMSSYAFFVQTSREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMKTYIPPKGE",
      |                 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/kalign-3.4.0/tests/kalign_lib_testCXX.cpp:11:17: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
   11 |                 "MQDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREKYPNYKYRPRRKAKMLPK",
      |                 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/kalign-3.4.0/tests/kalign_lib_testCXX.cpp:12:17: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
   12 |                 "MKKLKKHPDFPKKPLTPYFRFFMEKRAKYAKLHPEMSNLDLTKILSKKYKELPEKKKMKYIQDFQREKQEFERNLARFREDHPDLIQNAKK",
      |                 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/kalign-3.4.0/tests/kalign_lib_testCXX.cpp:13:17: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings]
   13 |                 "MHIKKPLNAFMLYMKEMRANVVAESTLKESAAINQILGRRWHALSREEQAKYYELARKERQLHMQLYPGWSARDNYGKKKKRKREK",
      |                 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
[100%] Linking CXX executable kaligncpp
cd /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/kaligncpp.dir/link.txt --verbose=1
/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/kalign-3.4.0=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DNOHAVE_AVX2 -Wl,-z,relro -Wl,-z,now CMakeFiles/kaligncpp.dir/kalign_lib_testCXX.cpp.o -o kaligncpp  ../lib/libkalign.a -lm /usr/lib/gcc/i686-linux-gnu/14/libgomp.so /usr/lib/i386-linux-gnu/libpthread.a
make[3]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu'
[100%] Built target kaligncpp
make[2]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu'
/usr/bin/cmake -E cmake_progress_start /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/CMakeFiles 0
make[1]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu'
   dh_auto_test
	cd obj-i686-linux-gnu && make -j22 test ARGS\+=--verbose ARGS\+=-j22
make[1]: Entering directory '/build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu'
Running tests...
/usr/bin/ctest --force-new-ctest-process --verbose -j22
UpdateCTestConfiguration  from :/build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/DartConfiguration.tcl
Parse Config file:/build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/DartConfiguration.tcl
UpdateCTestConfiguration  from :/build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/DartConfiguration.tcl
Parse Config file:/build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/DartConfiguration.tcl
Test project /build/reproducible-path/kalign-3.4.0/obj-i686-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
test 1
      Start  1: bpm_utest

1: Test command: /build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu/lib/bpm_utest
1: Working Directory: /build/reproducible-path/kalign-3.4.0/obj-i686-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-i686-linux-gnu/lib/alphabet_utest
2: Working Directory: /build/reproducible-path/kalign-3.4.0/obj-i686-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-i686-linux-gnu/lib/edist_utest
3: Working Directory: /build/reproducible-path/kalign-3.4.0/obj-i686-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-i686-linux-gnu/lib/task_utest
4: Working Directory: /build/reproducible-path/kalign-3.4.0/obj-i686-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-i686-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-i686-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-i686-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-i686-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-i686-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-i686-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-i686-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-i686-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: [2026-01-19 21:19:35] :     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: [2026-01-19 21:19:35] :     LOG : Check for correctness.
3: [2026-01-19 21:19:35] :     LOG : Timing serial
3: [2026-01-19 21:19:35] :     LOG : CPU Time: 0.01u 00:00:00.00 Elapsed: 00:00:00.00
4: 435 958 402 144 278
4: 857 259 353 281 219
4: 873 50 977 259 163
4: 498 815 298 412 962
4: 858 542 247 900 858
4: 990 302 364 728 346
4: 636 475 149 832 935
4: 329 648 396 773 519
4: 88 361 859 451 871
4: 400 569 16 247 630
4: 68 225 220 110 314
4: 922 328 889 754 251
4: 276 788 701 119 489
4: 880 804 447 822 116
4: 620 390 104 645 54
4: 756 943 672 867 685
4: 430 818 284 216 968
4: 838 961 436 590 428
4: 257 38 123 678 836
4: 700 338 708 190 978
4: 201 173 520 688 316
4: 342 277 381 896 167
4: 716 31 750 665 321
4: 559 895 193 225 859
4: 558 837 516 221 673
4: 799 679 68 398 414
4: 7 891 242 183 73
4: 474 279 759 893 109
4: 62 992 980 14 864
4: 419 713 423 544 418
4: 422 515 301 379 71
4: 205 289 625 465 814
4: 209 375 937 543 242
4: 980 446 166 999 205
4: 281 82 201 871 78
4: 242 734 835 700 192
4: 95 216 935 188 970
4: 288 699 271 779 726
4: 960 683 346 47 468
4: 278 495 725 928 378
4: 355 617 486 535 804
4: 422 387 953 739 444
4: 923 657 654 788 235
4: 212 228 744 489 126
4: 393 283 186 89 284
4: 533 997 448 244 858
4: 530 816 706 7 524
4: 286 348 667 683 493
4: 132 383 941 955 215
4: 948 945 689 88 762
4: 207 382 124 583 694
4: 646 103 920 751 220
4: 348 185 443 356 763
4: 114 852 298 251 203
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: [2026-01-19 21:19:35] :     LOG : Detected protein sequences.
6: [2026-01-19 21:19:35] :     LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB11001.tfa.
6: [2026-01-19 21:19:35] :     LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00
6: [2026-01-19 21:19:35] :     LOG : Calculating pairwise distances
6: [2026-01-19 21:19:35] :     LOG : CPU Time: 0.02u 00:00:00.02 Elapsed: 00:00:00.00
6: [2026-01-19 21:19:35] :     LOG : Building guide tree.
6: [2026-01-19 21:19:35] :     LOG : CPU Time: 0.01u 00:00:00.00 Elapsed: 00:00:00.00
6: [2026-01-19 21:19:35] :     LOG : Aligning
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: [2026-01-19 21:19:35] :     LOG : Detected protein sequences.
7: [2026-01-19 21:19:35] :     LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB11001_EOF.msf.
7: [2026-01-19 21:19:35] :     LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00
7: [2026-01-19 21:19:35] :     LOG : Calculating pairwise distances
7: [2026-01-19 21:19:35] :     LOG : CPU Time: 0.01u 00:00:00.00 Elapsed: 00:00:00.00
7: [2026-01-19 21:19:35] :     LOG : Building guide tree.
7: [2026-01-19 21:19:35] :     LOG : CPU Time: 0.02u 00:00:00.01 Elapsed: 00:00:00.00
7: [2026-01-19 21:19:35] :     LOG : Aligning
7: [2026-01-19 21:19:35] :     LOG : CPU Time: 0.01u 00:00:00.01 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: [2026-01-19 21:19:35] :     LOG : Detected protein sequences.
8: [2026-01-19 21:19:35] :     LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB12006.msf.
8: [2026-01-19 21:19:35] :     LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00
8: [2026-01-19 21:19:35] :     LOG : Calculating pairwise distances
8: [2026-01-19 21:19:35] :     LOG : CPU Time: 0.01u 00:00:00.01 Elapsed: 00:00:00.00
8: [2026-01-19 21:19:35] :     LOG : Building guide tree.
8: [2026-01-19 21:19:35] :     LOG : CPU Time: 0.01u 00:00:00.00 Elapsed: 00:00:00.00
8: [2026-01-19 21:19:35] :     LOG : Aligning
8: [2026-01-19 21:19:35] :     LOG : CPU Time: 0.02u 00:00:00.02 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: [2026-01-19 21:19:35] :     LOG : Detected protein sequences.
9: [2026-01-19 21:19:35] :     LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB12006.tfa.
9: [2026-01-19 21:19:35] :     LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00
9: [2026-01-19 21:19:35] :     LOG : Calculating pairwise distances
9: [2026-01-19 21:19:35] :     LOG : CPU Time: 0.01u 00:00:00.01 Elapsed: 00:00:00.00
9: [2026-01-19 21:19:35] :     LOG : Building guide tree.
9: [2026-01-19 21:19:35] :     LOG : CPU Time: 0.01u 00:00:00.01 Elapsed: 00:00:00.00
9: [2026-01-19 21:19:35] :     LOG : Aligning
10: 
10: Kalign (3.4.0)
10: 
10: Copyright (C) 2006,2019,2020,2021,2023 Timo Lassmann
10: 
10: This program comes with ABSOLUTELY NO WARRANTY; for details type:
10: `kalign -showw'.
10: This is free software, and you are welcome to redistribute it
10: under certain conditions; consult the COPYING file for details.
10: 
10: Please cite:
10:   Lassmann, Timo.
10:   "Kalign 3: multiple sequence alignment of large data sets."
10:   Bioinformatics (2019) 
10:   https://doi.org/10.1093/bioinformatics/btz795
10: 
10: [2026-01-19 21:19:35] :     LOG : Detected protein sequences.
10: [2026-01-19 21:19:35] :     LOG : Read 4 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB12006.tfa.
10: [2026-01-19 21:19:35] :     LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00
10: [2026-01-19 21:19:35] :     LOG : Calculating pairwise distances
10: [2026-01-19 21:19:35] :     LOG : CPU Time: 0.01u 00:00:00.01 Elapsed: 00:00:00.00
10: [2026-01-19 21:19:35] :     LOG : Building guide tree.
10: [2026-01-19 21:19:35] :     LOG : CPU Time: 0.01u 00:00:00.01 Elapsed: 00:00:00.00
10: [2026-01-19 21:19:35] :     LOG : Aligning
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: [2026-01-19 21:19:35] :     LOG : Detected protein sequences.
11: [2026-01-19 21:19:35] :     LOG : Read 44 sequences from /build/reproducible-path/kalign-3.4.0/tests/data/BB30014.tfa.
11: [2026-01-19 21:19:35] :     LOG : CPU Time: 0.00u 00:00:00.00 Elapsed: 00:00:00.00
11: [2026-01-19 21:19:35] :     LOG : Calculating pairwise distances
12: [2026-01-19 21:19:35] :     LOG : DSSim - a simplistic sequence simulator.
12: [2026-01-19 21:19:35] :     LOG : Protein alignments - 20 seq
 1/12 Test  #2: alphabet_utest ...................   Passed    0.06 sec
 2/12 Test  #3: edist_utest ......................   Passed    0.06 sec
 3/12 Test  #4: task_utest .......................   Passed    0.06 sec
 4/12 Test  #5: C++Lib ...........................   Passed    0.05 sec
 5/12 Test  #8: kalign_itest_BB12006.msf .........   Passed    0.05 sec
6: [2026-01-19 21:19:35] :     LOG : CPU Time: 0.02u 00:00:00.01 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    0.06 sec
 7/12 Test  #7: kalign_itest_BB11001_EOF.msf .....   Passed    0.05 sec
9: [2026-01-19 21:19:35] :     LOG : CPU Time: 0.02u 00:00:00.02 Elapsed: 00:00:00.00
9: >1al2_ad
9: G-LPVMNTPGSNQYLTADNFQSPCALPEFDVTPPIDIPGEVKNMMELAEI-DTMIPFDLS
9: ATKKNTMEMYRVRLSDKPHTDDPILCLSLSPASDPRLSHTMLGEILNYYTHWAGSLKFTF
9: LFCGSMMATGKLLVSYAPPGADPPKKRKEAMLGTHVIWDIGLQSSCTMVVPWISNTTYRQ
9: TIDD-----SFTEGGYISVFYQTRIVVPLSTPREMDILGFVSACNDFSVRLLRDTTHIEQ
9: KA---
9: >1bbt_ac
9: GIFPVACSDGYGGLVTTDPKTADPVYGKVFNPPRNQLPGRFTNLLDVAEACPTFL--R--
9: ---FEGGVPYVTTKTDSDRV---LAQFDMSLAAK-HMSNTFLAGLAQYYTQYSGTINLHF
9: MFTGPTDAKARYMVAYAPPGMEPPKTPEAAAHCIHAEWDTGLNSKFTFSIPYLSAADYTY
9: TASDVA--ETTNVQGWVCLFQITH-----GKADGDALVVLASAGKDFELRLPVDARAE--
9: -----
9: >1bev_ac
9: G-LPTKPGPGSYQFMTTDEDCSPCILPDFQPTPEIFIPGKVNNLLEIAQV-ESILEAN-N
9: REGVEGVERYVIPVSVQDALDAQIYALRLELGGSGPLSSSLLGTLAKHYTQWSGSVEITC
9: MFTGTFMTTGKVLLAYTPPGGDMPRNREEAMLGTHVIWDFGLQSSITLVIPWISASHFRG
9: VSNDDVLNYQYYAAGHVTIWYQTNMVIPPGFPNTAGIIMMIAAQPNFSFRIQKDREDMTQ
9: TAILQ
9: >1mec_ac
9: SPIPVTIREHAGTWYSTLPDSTVPIYGKTPVAPANYMVGEYKDFLEIAQI-PTFIGNK--
9: ---MPNAVPYIEASNTAVKTQ-PLAVYQVTLSCS-CLANTFLAALSRNFAQYRGSLVYTF
9: VFTGTAMMKGKFLIAYTPPGAGKPTSRDQAMQATYAIWDLGLNSSYSFTVPFISPTHFRM
9: VGTDQA--NITNVDGWVTVWQLTPLTYPPGCPTSAKILTMVSAGKDFSLKMPISPAPWSP
9: Q----
 8/12 Test  #9: kalign_itest_BB12006.tfa .........   Passed    0.05 sec
10: [2026-01-19 21:19:35] :     LOG : CPU Time: 0.02u 00:00:00.02 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----
 9/12 Test #10: kalign_itest_BB30014.msf .........   Passed    0.05 sec
11: [2026-01-19 21:19:35] :     LOG : CPU Time: 0.05u 00:00:00.05 Elapsed: 00:00:00.00
11: [2026-01-19 21:19:35] :     LOG : Building guide tree.
11: [2026-01-19 21:19:35] :     LOG : CPU Time: 0.06u 00:00:00.06 Elapsed: 00:00:00.00
11: [2026-01-19 21:19:35] :     LOG : Aligning
11: [2026-01-19 21:19:35] :     LOG : CPU Time: 0.10u 00:00:00.09 Elapsed: 00:00:00.00
11: >1ags_A
11: ----------------------------------AEKPKLHYFNARGRMESTRWLLAAAG
11: VEFEEKFIKSAEDLDKLRNDG--YLMFQQVPMVEI-----DG--MKLVQTRAILNYIA--
11: SKYNLY-RKDIKEK--------ALIDMYIE-GIADLGEMILLLPFTQ-------------
11: -PEEQDAKLALIKEK-IKNRYFPAFEKVLKSH--GQDYL-VGNKLSRADIHLVELLYY--
11: -----VEE--LDSSLIS--S-FPLLKALKTRI-SNLPTVKKFLQPGSPRKPPMDEKSLEE
11: ARKIFRF-------
11: >GTA1_BOVIN
11: ----------------------------------AGKPTLHYFNGRGRMECIRWLLAAAG
11: VEFEEKFIEKPEDLDKLKNDG--SLMFQQVPMVEI-----DG--MKLVQTRAILNYIA--
11: TKYNLY-GKDMKER--------ALIDMYSE-GVADLGEMIMHFPLCP-------------
11: -PAEKDAKLTLIREK-TTNRYLPAFENVLKSH--GQDYL-VGNKLSRADIHLVELLYY--
11: -----VEE--LDPSLLA--N-FPLLKALKARV-SSLPAVKKFLQPGSQRKPPTDEKKIEE
11: ARKVFKF-------
11: >GTA1_MOUSE
11: ----------------------------------AGKPVLHYFNARGRMECIRWLLAAAG
11: VEFEEKFIQSPEDLEKLKKDG--NLMFDQVPMVEI-----DG--MKLAQTRAILNYIA--
11: TKYDLY-GKDMKER--------ALIDMYSE-GILDLTEMIGQLVLCP-------------
11: -PDQREAKTALAKDR-TKNRYLPAFEKVLKSH--GQDYL-VGNRLTRVDIHLLEVLLY--
11: -----VEE--FDASLLT--P-FPLLKAFKSRI-SSLPNVKKFLQPGSQRKPPMDAKQIQE
11: ARKAFKIQ------
11: >GTC1_RAT
11: ----------------------------------PGKPVLHYFDGRGRMEPIRWLLAAAG
11: VEFEEQFLKTRDDLARLRNDG--SLMFQQVPMVEI-----DG--MKLVQTRAILNYIA--
11: TKYNLY-GKDMKER--------ALIDMYAE-GVADLDEIVLHYPYIP-------------
11: -PGEKEASLAKIKDK-ARNRYFPAFEKVLKSH--GQDYL-VGNRLSRADVYLVQVLYH--
11: -----VEE--LDPSALA--N-FPLLKALRTRV-SNLPTVKKFLQPGSQRKPLEDEKCVES
11: AVKIFS--------
11: >GTC_RABIT
11: ----------------------------------AGKPKLHYFNARGRMESIRWLLTAAG
11: VEFEEKCMKTREDLEKLRKDG--VLMFQQVPMVEI-----DG--MKLVQTRAIFNYIA--
11: DKHNLY-GKDIKER--------ALIDMYTE-GIVDLNELILTRPFLP-------------
11: -PEEQEAKLAQIKDK-AKNRYFPAFEKVLKSH--GQDYL-VGNKLSKADILLVELLYN--
11: -----VEE--LNPGATA--S-FPLLQALKTRI-SNLPTVKKFLQPGSQRNPPDDEKCREE
11: AKIIFH--------
11: >GTA1_RABIT
11: ---------------------------------MARKPLLHYFNGRGRMESIRWLLAAAG
11: EEFDEKFMETAEDLDKLRNDG--SLMYQQVPMVEI-----DG--MKLVQTRAILNYVA--
11: NKHNLY-GKDMKER--------ALIDMYTE-GVADLYELVLLLPLCP-------------
11: -PEQKDAKVDFIKEK-IRTRYFPAFEKVLKSH--GQDYL-VGNRLSKADILLVELLYN--
11: -----VEE--LDPSAIA--S-FPLLKALKTRI-SSLPTVKKFLQPGSQRKPPMDEKNLEK
11: AKKIFKIP------
11: >GTA1_CAVPO
11: ----------------------------------SGKPVLHYFNVQGRMESIRWLLAAAG
11: VEFEEKLIMCQEDLDKLKNDG--LLMFQQVPMVEM-----DG--MKMVQSRAILNYIA--
11: TKYNLY-GKDTKER--------LLIDMYTE-GMTDLYELFFKVILAP-------------
11: -PEEKDAAKSLIKDR-AKNRFLPAFEKVLKSH--GQGYL-VGNKLSKADILLTELLYM--
11: -----VEE--FDASLLA--N-FTLLQALKTRV-SNLPNVKKFLQPGSQRKPFPTQEMFEE
11: MRKF----------
11: >GTA3_RAT
11: ---------------------------------MEVKPKLYYFQGRGRMESIRWLLATAG
11: VEFEEEFLETREQYEKLQKDG--CLLFGQVPLVEI-----DG--MLLTQTRAILSYLA--
11: AKYNLY-GKDLKER--------VRIDMYAD-GTQDLMMMIIGAPFKA-------------
11: -PQEKEESLALAVKR-AKNRYFPVFEKILKDH--GEAFL-VGNQLSWADIQLLEAILM--
11: -----VEE--VSAPVLS--D-FPLLQAFKTRI-SNIPTIKKFLQPGSQRKPPPDGHYVDV
11: VRTVLKF-------
11: >GTA3_CHICK
11: ----------------------------------AAKPVLYYFNGRGKMESIRWLLAAAG
11: VEFEEVFLETREQYEKLLQSG--ILMFQQVPMVEI-----DG--MKLVQTRAILNYIA--
11: GKYNLY-GKDLKER--------ALIDMYVG-GTDDLMGFLLSFPFLS-------------
11: -AEDKVKQCAFVVEK-ATSRYFPAYEKVLKDH--GQDFL-VGNRLSWADIHLLEAILM--
11: -----VEE--KKSDALS--G-FPLLQAFKKRI-SSIPTIKKFLAPGSKRKPISDDKYVET
11: VRRVLRMYYDVKPH
11: >GTA2_CHICK
11: ---------------------------------MAGKPKLHYTRGRGKMESIRWLLAAAG
11: VEFEEEFIEKKEDLEKLRNDG--SLLFQQVPMVEI-----DG--MKMVQSRAILCYIA--
11: GKYNLY-GKDLKER--------AWIDMYVE-GTTDLMGMIMALPFQA-------------
11: -ADVKEKNIALITER-ATTRYFPVYEKALKDH--GQDYL-VGNKLSWADIHLLEAILM--
11: -----TEE--LKSDILS--A-FPLLQAFKGRM-SNVPTIKKFLQPGSQRKPPLDEKSIAN
11: VRKIFSF-------
11: >GTA1_CHICK
11: ---------------------------------MSGKPVLHYANTRGRMESVRWLLAAAG
11: VEFEEKFLEKKEDLQKLKSDG--SLLFQQVPMVEI-----DG--MKMVQTRAILNYIA--
11: GKYNLY-GKDLKER--------ALIDMYVE-GLADLYELIMMNVVQP-------------
11: -ADKKEEHLANALDK-AANRYFPVFEKVLKDH--GHDFL-VGNKLSRADVHLLETILA--
11: -----VEE--SKPDALA--K-FPLLQSFKART-SNIPNIKKFLQPGSQRKPRLEEKDIPR
11: LMAIFH--------
11: >GTA1_ANTST
11: ---------------------------------MAGEQNIKYFNIKGRMEAIRWLLAVAG
11: VEFEEKFFETKEQLQKLKET---VLLFQQVPMVEI-----DG--MKLVQTRAILHYIA--
11: EKYNLL-GKDMKEH--------AQIIMYSE-GTMDLMELIMIYPFLK-------------
11: -GEEKKQRLVEIANK-AKGRYFPAFENVLKTH--GQNFL-VGNQLSMADVQLFEAILM--
11: -----VEE--KVPDALS--G-FPLLQAFKTRI-SNIPTVKTFLAPGSKRKPVPDAKYVED
11: IIKIFYF-------
11: >GTA4_HUMAN
11: ---------------------------------MAARPKLHYPNGRGRMESVRWVLAAAG
11: VEFDEEFLETKEQLYKLQDGN--HLLFQQVPMVEI-----DG--MKLVQTRSILHYIA--
11: DKHNLF-GKNLKER--------TLIDMYVE-GTLDLLELLIMHPFLK-------------
11: -PDDQQKEVVNMAQK-AIIRYFPVFEKILRGH--GQSFL-VGNQLSLADVILLQTILA--
11: -----LEE--KIPNILS--A-FPFLQEYTVKL-SNIPTIKRFLEPGSKKKPPPDEIYVRT
11: VYNIFRP-------
11: >1oe7_A
11: -----------------------------------DHIKVIYFNGRGRAESIRMTLVAAG
11: VNYEDERISF-QDWPKIKP----TIPGGRLPAVKITDNHGHV--KWMVESLAIARYMA--
11: KKHHMM-GGTEEEY--------YNVEKLIG-QAEDLEHEYYKTLMKP-------------
11: -EEEKQKIIKEILNG-KVPVLLDIICESLKAS--TGKLA-VGDKVTLADLVLIAVIDH--
11: -----VTD--LDKEFLT--GKYPEIHKHRENLLASSPRLAKYL---SDRA----------
11: --------------
11: >GTP1_BUFBU
11: -----------------------------------PEYTIIYFNARGRCEAMRMLMADQG
11: AQWKEEVVTS-DDWQKGDLKK--AAVYGQLPGFK------DGD-FTLYQSNAMLRLLA--
11: RNHDLY-GKNPREA--------SLIDMVND-GVEDLRLKYLKMIYQN-------------
11: -YENGKDDYV----K-ALPTNLGHFERLLASNNEGKGFV-VGAHISFADYNLVDLLHN--
11: -----HLV--LAPDCLS--G-FPLLCAYVKRI-SSRPKLEAYLSSDAHKKRPINGNGKQQ
11: --------------
11: >GT28_SCHJA
11: -------------------------------------VKLIYFNGRGRAEPIRMILVAAG
11: VEFEDERIEF-QDWPKIKP----TIPGGRLPIVKITDKRGDV--KTMSESLAIARFIA--
11: RKHNMM-GDTDDEY--------YIIEKMIG-QVEDVESEYHKTLIKP-------------
11: -PEEKEKISKEILNG-KVPILLQAICETLKES--TGNLT-VGDKVTLADVVLIASIDH--
11: -----ITD--LDKEFLT--GKYPEIHKHRKHLLATSPKLAKYL---SERHATAF------
11: --------------
11: >GTS1_ASCSU
11: -----------------------------------PQYKLTYFDIRGLGEGARLIFHQAG
11: VKFEDNRLKR-EDWPALKP----KTPFGQLPLLEV-----DGE--VLAQSAAIYRYLG--
11: RQFGLA-GKTPMEE--------AQVDSIFD-QFKDFMAELRPC-FRV-----LAGFE---
11: -EGDKEKVLKEVAVP-ARDKHLPLLEKFLA--KSGSEYM-VGKSVTWADLVITDSLAS--
11: -----WES--LIPDFLS--G-HLQLKKYIEHV-RELPNIKKWIAERPKTPY---------
11: --------------
11: >GTS9_CAEEL
11: ----------------------------------MVSYKLIYFQSRGNGEIARQVFAFAG
11: QEFIDERISK-EQWAEIKN----MTPFGQVPVLEV-----DGR--QLAQSITIVRYLS--
11: KQFGIS-GKSSWEE--------AQVDALGD-QFKDYRVEARPF-FRA-----KMGFS---
11: -DGDVDQLYKDLFVP-AFNKMYSIFTESLK--SSGSGFL-VGDSLTWMDLAIAQHSAD--
11: -----LLE--ADGKILD--T-FLEMKDHQKKI-HSIPNVKKWIEKRPVTSR---------
11: --------------
11: >GTS3_CAEEL
11: ----------------------------------MVHYKLTYFNARGLAEISRQLFHMAG
11: VEFEDERINE-EKFSQLKP----TFPSGQVPILCI-----DGA--QFSQSTAIARYLA--
11: RKFGFV-GQTAEEE--------LQADEVVD-TFKDFIESFRKFVIAV-----LSGES---
11: -EEILKNIREEVIKP-AVKTYTAYLKAILE--KSSSGYL-VGNELTWADLVIADNLTT--
11: -----LIN--AELLDIE--N-DKLLKEFREKI-IETPKLKEWLAKRPETRF---------
11: --------------
11: >GTS5_CAEEL
11: ----------------------------------MVSYKLTYFNGRGAGEVSRQIFAYAG
11: QQYEDNRVTQ-EQWPALKETC--AAPFGQLPFLEV-----DGK--KLAQSHAIARFLA--
11: REFKLN-GKTAWEE--------AQVNSLAD-QYKDYSSEARPY-FYA-----VMGFG---
11: -PGDVETLKKDIFLP-AFEKFYGFLVNFLK--ASGSGFL-VGDSLTWIDLAIAQHSAD--
11: -----LI---AKGGDFS--K-FPELKAHAEKI-QAIPQIKKWIETRPVTPF---------
11: --------------
11: >GTS6_CAEEL
11: ----------------------------------MVHYKLVYFPLRARAEIARQIFAYAG
11: QDYSEENLSF-EQWPARKN----NTPFGQLPILEV-----DGK--PLGQSYAIARYLA--
11: REFGIA-GQNDTEA--------AEVDAIAD-QFKDYLNDVSPY-LTV-----LAGFK---
11: -PGDKDQLRTDVFVP-AFKKNFEFFENILA--SNHSGFF-VGNSLTWVDLLISQHVQD--
11: -----ILD--KDLAVVE--E-FKKVLAHRKKV-QSIDRIQKYIANRPDYPF---------
11: --------------
11: >GTS4_CAEEL
11: ----------------------------------MPNYKLLYFDARALAEPIRIMFAMLN
11: VPYEDYRVSV-EEWSKLKP----TTPFGQLPILQV-----DGE--QFGQSMSITRYLA--
11: RKFGLA-GKTAEEE--------AYADSIVD-QYRDFIFFFRQFTSSV-----FYGSD---
11: -ADHINKVRFEVVEP-ARDDFLAIINKFLA--KSKSGFL-VGDSLTWADIVIADNLTS--
11: -----LLK--NGFLDFN--K-EKKLEEFYNKI-HSIPEIKNYVATRKDSIV---------
11: --------------
11: >GTS2_CAEEL
11: ----------------------------------MVHYKLMCFDVRGLGEVIRQLFYLGD
11: VSFEDFRVSR-EEFKSLKS----NLPSGQLPVLEI-----DGV--MISQSASIGRFLA--
11: RQYGYS-GKTPTEE--------MQVDSIID-LFKDFMLTFRQFFFAV-----IHGYP---
11: -EYEKERMKRDIVKP-AIKNYFIALNKILL--RSKSGFL-VGDDLTWADLQIADNLST--
11: -----LIN--IRLF-AE--K-EPHLNVFIRKL----------------------------
11: --------------
11: >GTS1_CAEEL
11: ----------------------------------MPHFKFYYFDVRGRGEAIRLLFHLAD
11: EKFDDERFGM-EQWGVLKS----EMPLGQVPVLEI-----DGV--KISQTTAIARYLG--
11: HQFHRA-GTNAVDC--------ARLDMIAE-VIQEFMSSSGMGKFSR----VLLGMI---
11: -QANKEQFFKENVLP-DVEKYAPIVEKFLL-ENGNNGLL-LGDRETWVDVFAAESFSK--
11: -----LIDY-GSPDALD--A-YPHILALINRV-FNHPNIKKYVSQRKATPA---------
11: --------------
11: >GTS_ANOGA
11: -------------------LSSSSISRSSLKCNIMPDYKVYYFNVKALGEPLRFLLSYGN
11: LPFDDVRITR-EEWPALKP----TMPMRQMPVLEV-----DGK--RVHQSLAMCRYVA--
11: KQINLA-GDNPLEA--------LQIDAIVD-TINDFRLKIAIVAYEP------DDMV---
11: -KEKKMVTLNNEVIPFYLTKLNVIAKE-------NNGHL-VLGKPTWADVYFAGILDY--
11: -----L-NYLTKTNLLE--N-FPNLQEVVQKV-LDNENVKAYIAKRPITEV---------
11: --------------
11: >GTS2_MANSE
11: ----------------------------------MPKVVFHYFGAKGWARP-TMLLAYGG
11: QEFEDHRVEY-EQWPEFKP----NTPFGQMPVLEI-----DGK--KYAQSLAISRYLG--
11: RKYGLA-GNDIEED--------FEIDQIVD-FVNDIRASAASVEYEQ------DAAN---
11: -KEVKHEENMKNKYPFQLNKLSEIITK-------NNGFL-ALGRLTWADFVFVGMFDY--
11: -----LKKMLRMPDLEE--Q-YPIFKKPIETV-LSNPKLKAYLDSAPKKEF---------
11: --------------
11: >GT1_ONCVO
11: FITMNFVVEAASSNANQAITSENSIKPKGKLQPQMEKYTLTYFNGRGRAEVIRLLFALAN
11: VSYEDNRITR-DEWKYLKP----RTPFGHVPMLNV-----SGN--VLGESHAIELLLG--
11: GRFGLL-GTNDWEE--------AKIMAVVL-NIDELFQKLIPWTHEK-----NTTKK---
11: -AELFRNLSESDVMP-FLGRY----EKFLK--ESTTGHI-VGNKVSVADLTVFNMLMT--
11: -----L----DDEVKLE--E-YPQLASFVNKI-GQMPGIKEWIKKRPKTYF---------
11: --------------
11: >SC11_OMMSL
11: ----------------------------------MPSYTLYYFNGRGRAEICRMLFAVAS
11: VQYQDKRIEL-AEWTQFKT----KMPCHMLPILEI-----DTE-TQVPQSMAISRYLA--
11: REFGFY-GKNNMDM--------FKVDCLCD-SLFELFNDYMAVYNEK-------------
11: -DAAKKTELQKRFQN-TCLRVLPYMEKTLEANKGGAGWF-IGDQILLCDMMTHAALEN--
11: -----PIQ--ENANLLK--E-YPKLAALRTRV-AAHPKIAAYIKKRNNTAF---------
11: --------------
11: >SC2_OCTDO
11: ----------------------------------MPSYTLNYFNHRGRAEICRMLFAAAG
11: VQYNDRRIET-SEWSNMRS----KMPCSMMPMLDI-----DNR-HQIPQTMAIARYLA--
11: REFGFH-GKNNMEM--------ARVEYISD-CFYDILDDYLRMYQDDNCRMMFQRSG---
11: -DRNGSSEKRTRYQE-TLRRILPFMERTLEMYKSGGQFF-MGDQMTMADMMCYCALEN--
11: -----PIM--EESSLLN--S-YPKLQALRTRV-MSHLKMSPYLKKRSSTEF---------
11: --------------
11: >1aw9_
11: ----------------------------------AP-LKLYGMPLSPNVVRVATVLNEKG
11: LDFEIVPVDLTTGAHKQPDFL-ALNPFGQIPALV------DGD-EVLFESRAINRYIA--
11: SKYASE-GTDLLPATASA----AKLEVWLEVESHHFYPNASPLVFQL----LVRPLL---
11: -GGAPDAAVVDKHAE-QLAKVLDVYEAHLA----RNKYL-AGDEFTLADANHASYLLY--
11: -----L-SKTPKAGLVA--A-RPHVKAWWEAI-VARPAFQKTVAAIPLPPPP--------
11: --------------
11: >GTH3_ARATH
11: -----------------------------------V-LTIYA-PLFASSKRAVVTLVEKG
11: VSFETVNVDLMKGEQRQPEYL-AIQPFGKIPVLV------DGD-YKIFESRAIMRYIA--
11: EKYRSQ-GPDLLGKTIEER---GQVEQWLDVEATSYHPPLLALTLNI----VFAPLM---
11: -GFPADEKVIKESEE-KLAEVLDVYEAQLS----KNEYL-AGDFVSLADLAHLPFTEY--
11: -----LVGPIGKAHLIK--D-RKHVSAWWDKI-SSRAAWKEVSAKYSLPV----------
11: --------------
11: >GTH7_ARATH
11: ----------------------------------MV-VKVYGQIKAANPQRVLLCFLEKD
11: IEFEVIHVDLDKLEQKKPQHL-LRQPFGQVPAIE------DGY-LKLFESRAIARYYA--
11: TKYADQ-GTDLLGKTLEGR---AIVDQWVEVENNYFYAVALPLVMNV----VFKPKS---
11: -GKPCDVALVEELKV-KFDKVLDVYENRLA----TNRYL-GGDEFTLADLSHMPGMRY--
11: -----IMNETSLSGLVT--S-RENLNRWWNEI-SARPAWKKLMELAAY------------
11: --------------
11: >GTH6_ARATH
11: ---------------------------------MAS-IKVHGVPMSTATMRVLATLYEKD
11: LQFELIPVDMRAGAHKQEAHL-ALNPFGQIPALE------DGD-LTLFESRAITQYLA--
11: EEYSEK-GEKLISQDCKKVK--ATTNVWLQVEGQQFDPNASKLAFER----VFKGMF---
11: -GMTTDPAAVQELEG-KLQKVLDVYEARLA----KSEFL-AGDSFTLADLHHLPAIHY--
11: -----LLGTDSKV-LFD--S-RPKVSEWIKKI-SARPAWAKVIDLQKQ------------
11: --------------
11: >GTH_SILCU
11: -----------------------------------T-IKVHGNPRSTATQRVLVALYEKH
11: LEFEFVPIDMGAGGHKQPSYL-ALNPFGQVPALE------DGE-IKLFESRAITKYLAYT
11: HDHQNE-GTSLIHKE-KHEM--AAQLVWEEVEAHQFDPVASKLAWEL----VFKGIF---
11: -GMQTDTTVVEENEA-KLAKVLDVYEARLT----ESEYLGANDSFTLVDLHHLPLLGY--
11: -----LMGTQVKK-LFE--E-RAHVSAWCKKI-LARPSWEKTLALQKQA-----------
11: --------------
11: >GTH1_ARATH
11: ---------------------------------MAG-IKVFGHPASTATRRVLIALHEKN
11: VDFEFVHVELKDGEHKKEPFI-LRNPFGKVPAFE------DGD-FKIFESRAITQYIA--
11: HEFSDK-GNNLLST-GKDM---AIIAMGIEIESHEFDPVGSKLVWEQ----VLKPLY---
11: -GMTTDKTVVEEEEA-KLAKVLDVYEHRLG----ESKYL-ASDHFTLVDLHTIPVIQY--
11: -----LLGTPTKK-LFD--E-RPHVSAWVADI-TSRPSAQKVL-----------------
11: --------------
11: >GTH4_ARATH
11: ----------------------------------AG-IKVFGHPASIATRRVLIALHEKN
11: LDFELVHVELKDGEHKKEPFL-SRNPFGQVPAFE------DGD-LKLFESRAITQYIA--
11: HRYENQ-GTNLLQTDSKNISQYAIMAIGMQVEDHQFDPVASKLAFEQ----IFKSIY---
11: -GLTTDEAVVAEEEA-KLAKVLDVYEARLK----EFKYL-AGETFTLTDLHHIPAIQY--
11: -----LLGTPTKK-LFT--E-RPRVNEWVAEI-TKRPASEKVQ-----------------
11: --------------
11: >GTH4_MAIZE
11: ---------------------------------ATPAVKVYGWAISPFVSRALLALEEAG
11: VDYELVPMSRQDGDHRRPEHL-ARNPFGKVPVLE------DGD-LTLFESRAIARHVL--
11: RKHKP----ELLGGGR-LEQT-AMVDVWLEVEAHQLSPPAIAIVVEC----VFAPFL---
11: -GRERNQAVVDENVE-KLKKVLEVYEARLA----TCTYL-AGDFLSLADLSPFTIMHC--
11: -----LMATEYAA-LVH--A-LPHVSAWWQGL-AARPAANKVAQFMPVGAGAPKEQE---
11: --------------
11: >GTH1_MAIZE
11: ---------------------------------A-P-MKLYGAVMSWNLTRCATALEEAG
11: SDYEIVPINFATAEHKSPEHL-VRNPFGQVPALQ------DGD-LYLFESRAICKYAA--
11: RKNKP----ELLREGN-LEEA-AMVDVWIEVEANQYTAALNPILFQV----LISPML---
11: -GGTTDQKVVDENLE-KLKKVLEVYEARLT----KCKYL-AGDFLSLADLNHVSVTLC--
11: -----LFATPYAS-VLD--A-YPHVKAWWSGL-MERPSVQKVAALMKPSA----------
11: --------------
11: >GTH1_WHEAT
11: ---------------------------------MSP-VKVFGHPMLTNVARVLLFLEEVG
11: AEYELVPMDFVAGEHKRPQHV-QLNPFAKMPGFQ------DGD-LVLFESRAIAKYIL--
11: RKYGGTAGLDLLGENSGIEEL-AMVDVWTEVEAQQYYPAISPVVFEC----IIIPFIIPG
11: GGAAPNQTVVDESLE-RLRGVLGIYEARLE----KSRYL-AGDSITFADLNHIPFTFY--
11: -----FMTTPYAK-VFD--D-YPKVKAWWEML-MARPAVQRVCKHMPTEFKLGAQY----
11: --------------
11: >GTH5_ARATH
11: ---------------------------------MVT-VKLYGMAYSTCTKRVYTTAKEIG
11: VDVKIVPVDLMKGEHKEPAYLDNYHPFGVIPVLE------DEDGTKIYESRAISRYLV--
11: AKYGK--GSSLLPSPSDPKAY-GLFEQAASVEYSSFDPPASSLAYER----VFAGMR---
11: -GLKTNEELAKKYVD-TLNAKMDGYERILS----KQKYL-AGNDFTLADLFHLPY-GA--
11: -----MVAQLEPT-VLD--S-KPHVKAWWAA--SLRVIPGRLLRNSSKEFM---------
11: --------------
11: >1eem_A
11: ---------------SARSLGKGSAPPGPV---PEGSIRIYSMRFCPFAERTRLVLKAKG
11: IRHEVININLKNKPEWFFK----KNPFGLVPVLENS----QGQ--LIYESAITCEYLD--
11: EAYP---GKKLLPDDPYEK---ACQKMILE-LFSKVPSLVGSFIRSQ-------------
11: -N-KEDYAGLKE----EFRKEFTKLEEVLTNK--KTTFF-GGNSISMIDYLIWPWFER--
11: -----LEAM-KLNECVD--H-TPKLKLWMAAM-KEDPTVSALLTSEKDWQGFLE-LYLQN
11: SPEACDYGL-----
11: >GTO1_MOUSE
11: -----------MSGESSRSLGKGSAPPGPV---PEGQIRVYSMRFCPFAQRTLMVLKAKG
11: IRHEVININLKNKPEWFFE----KNPLGLVPVLENS----QGH--LVTESVITCEYLD--
11: EAYP---EKKLFPDDPYKK---ARQKMTLE-SFSKVPPLIASFVRSK-------------
11: -R-KEDSPNLRE----ALENEFKKLEEGMDNY--K-SFL-GGDSPSMVDYLTWPWFQR--
11: -----LEAL-ELKECLA--H-TPKLKLWMAAM-QQDPVASSHKIDAKTYREYLN-LYLQD
11: SPEACDYGL-----
11: >GTO2_HUMAN
11: -----------MSGDATRTLGKGSQPPGPV---PEGLIRIYSMRFCPYSHRTRLVLKAKD
11: IRHEVVNINLRNKPEWYYT----KHPFGHIPVLETS----QCQ--LIYESVIACEYLD--
11: DAYP---GRKLFPYDPYER---ARQKMLLE-LFCKVPHLTKECLVAL-------------
11: -RCGRECTNLKA----ALRQEFSNLEEILEYQ--NTTFF-GGTCISMIDYLLWPWFER--
11: -----LDVY-GILDCVS--H-TPALRLWISAM-KWDPTVCALLMDKSIFQGFLN-LYFQN
11: NPNAFDFGLC----
11: >YKJ3_CAEEL
11: -------------------MTVLAGVNSKIVKNGCWNHSYLQHAILPVAQRALIYASVKN
11: IPSDVINVHLQEKPDWYFS----KHYKGQVPTLEHD----EGK-KHVIESAVIPEYLD--
11: DIYP---ETRILPTDPYEK---VQQKLLLDRISGQVSPAFYGVVQAV-------------
11: ----KNPDLREEKFA-DIKKAYDNAEQLLT----GDFYS-GTSKPGFVDYLLYPNIQRAY
11: WAAHIVPDFPLEAESFPGPN-YPRLSKWYKAL-ESIPEVAAASQPTENGVGFFKDYLGGS
11: PNYDYGLTKLSETI
10/12 Test #11: kalign_itest_BB30014.tfa .........   Passed    0.18 sec
1:   0 6300   0   0 
1:   0   0 6300 6300 
1:   0   0   0   0 
1:   0   0   0   0 
1: 
1: [2026-01-19 21:19:35] :     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: [2026-01-19 21:19:45] :     LOG : Timing DYN 256
1: [2026-01-19 21:19:48] :     LOG : 2.589821  - dyn 
1: [2026-01-19 21:19:48] :     LOG : 0.000000  - bpm 
1: [2026-01-19 21:19:48] :     LOG : 0.212753  - bpm_block2 
1: [2026-01-19 21:19:48] :     LOG : 0.234984  - bpm_block 
11/12 Test  #1: bpm_utest ........................   Passed   12.97 sec
12: 
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12: [2026-01-19 21:20:01] :     LOG : Protein alignments - 1000 seq
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12: [2026-01-19 21:20:35] :     LOG : DNA     alignments - 20 seq
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12: [2026-01-19 21:20:41] :     LOG : DNA     alignments - 1000 seq
12: 
[                                                  ]   0%
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12: [2026-01-19 21:20:48] :     LOG : DNA     alignments - 10000 seq
12: 
[                                                  ]   0%
[=========================                         ]  50%
[==================================================] 100%
12/12 Test #12: DSSIM_takes_a_min ................   Passed   79.74 sec

100% tests passed, 0 tests failed out of 12

Total Test time (real) =  79.79 sec
make[1]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-i686-linux-gnu'
   create-stamp debian/debhelper-build-stamp
   dh_prep
   dh_auto_install --destdir=debian/kalign/
	cd obj-i686-linux-gnu && make -j22 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-i686-linux-gnu'
/usr/bin/cmake -S/build/reproducible-path/kalign-3.4.0 -B/build/reproducible-path/kalign-3.4.0/obj-i686-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-i686-linux-gnu'
make[2]: Nothing to be done for 'preinstall'.
make[2]: Leaving directory '/build/reproducible-path/kalign-3.4.0/obj-i686-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/i386-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/i386-linux-gnu/cmake/kalign/kalignTargets.cmake
-- Installing: /build/reproducible-path/kalign-3.4.0/debian/kalign/usr/lib/i386-linux-gnu/cmake/kalign/kalignTargets-none.cmake
-- Installing: /build/reproducible-path/kalign-3.4.0/debian/kalign/usr/lib/i386-linux-gnu/cmake/kalign/kalignConfig.cmake
-- Installing: /build/reproducible-path/kalign-3.4.0/debian/kalign/usr/lib/i386-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-i686-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/i386-linux-gnu/
dh_install obj-i686-linux-gnu/src/kalignfmt usr/bin
make[1]: Leaving directory '/build/reproducible-path/kalign-3.4.0'
   dh_installdocs
   dh_installchangelogs
   dh_installexamples
   dh_installman
   dh_perl
   dh_link
   dh_strip_nondeterminism
   dh_compress
   dh_fixperms
   dh_missing
   dh_dwz -a
   dh_strip -a
   dh_makeshlibs -a
   dh_shlibdeps -a
   dh_installdeb
   debian/rules override_dh_gencontrol
make[1]: Entering directory '/build/reproducible-path/kalign-3.4.0'
dh_gencontrol -- -Vsimde:Built-Using="simde (= 0.8.2-2), "
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_i386.deb'.
dpkg-deb: building package 'kalign-dbgsym' in '../kalign-dbgsym_3.4.0-1_i386.deb'.
 dpkg-genbuildinfo --build=binary -O../kalign_3.4.0-1_i386.buildinfo
 dpkg-genchanges --build=binary -O../kalign_3.4.0-1_i386.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/49113 and its subdirectories
I: Current time: Mon Jan 19 09:21:04 -12 2026
I: pbuilder-time-stamp: 1768857664
Tue Dec 17 14:58:07 UTC 2024  I: 1st build successful. Starting 2nd build on remote node ionos2-i386.debian.net.
Tue Dec 17 14:58:07 UTC 2024  I: Preparing to do remote build '2' on ionos2-i386.debian.net.
Tue Dec 17 15:02:18 UTC 2024  I: Deleting $TMPDIR on ionos2-i386.debian.net.
Tue Dec 17 15:02:19 UTC 2024  I: kalign_3.4.0-1_i386.changes:
Format: 1.8
Date: Tue, 02 Apr 2024 13:49:50 +0200
Source: kalign
Binary: kalign kalign-dbgsym
Architecture: i386
Version: 1:3.4.0-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Changed-By: Michael R. Crusoe <crusoe@debian.org>
Description:
 kalign     - Global and progressive multiple sequence alignment
Changes:
 kalign (1:3.4.0-1) unstable; urgency=medium
 .
   * Team upload.
   * New upstream version
   * d/patches: disable pass-proper-flags.patch for now.
Checksums-Sha1:
 03f4af57e763993fafdc705dbf3139d3fc755bd8 193112 kalign-dbgsym_3.4.0-1_i386.deb
 d062f2acf65bede9d4f4b3b9f4c35e0dd03e7d0b 5940 kalign_3.4.0-1_i386.buildinfo
 e499a3c0cd71813081268259a2cd2ebdb8c67b8e 90652 kalign_3.4.0-1_i386.deb
Checksums-Sha256:
 f0f8bfbcbc52b7c7f0efe4d3b51d64659bb718ff3f41d6975f65730571231315 193112 kalign-dbgsym_3.4.0-1_i386.deb
 45d537fffe2e644f79cdab4727bbd199d6770b534c65ba002b05e1deea701be2 5940 kalign_3.4.0-1_i386.buildinfo
 9da49506b204c5ff119f6ee64fbdd7a9daffaf717eb48b08e74b921814bbc99a 90652 kalign_3.4.0-1_i386.deb
Files:
 86341e6f4c03d7e1ed83b90beb837c26 193112 debug optional kalign-dbgsym_3.4.0-1_i386.deb
 1e1eb65d1a2e9670333d7d4ea645dc1e 5940 science optional kalign_3.4.0-1_i386.buildinfo
 d61daf2c3414b695bb838cd5a3d81409 90652 science optional kalign_3.4.0-1_i386.deb
Tue Dec 17 15:02:20 UTC 2024  I: diffoscope 284 will be used to compare the two builds:
Running as unit: rb-diffoscope-i386_4-45488.service
# Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.nftTTDI6/kalign_3.4.0-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.nftTTDI6/kalign_3.4.0-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.nftTTDI6/kalign_3.4.0-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.nftTTDI6/b1/kalign_3.4.0-1_i386.changes /srv/reproducible-results/rbuild-debian/r-b-build.nftTTDI6/b2/kalign_3.4.0-1_i386.changes

## command (total time: 0.000s)
       0.000s      1 call     cmp (internal)

## has_same_content_as (total time: 0.000s)
       0.000s      1 call     abc.DotChangesFile

## main (total time: 0.366s)
       0.366s      2 calls    outputs
       0.000s      1 call     cleanup

## recognizes (total time: 0.018s)
       0.018s     12 calls    diffoscope.comparators.binary.FilesystemFile

## specialize (total time: 0.000s)
       0.000s      1 call     specialize
Finished with result: success
Main processes terminated with: code=exited/status=0
Service runtime: 704ms
CPU time consumed: 705ms
Tue Dec 17 15:02:21 UTC 2024  I: diffoscope 284 found no differences in the changes files, and a .buildinfo file also exists.
Tue Dec 17 15:02:21 UTC 2024  I: kalign from trixie built successfully and reproducibly on i386.
Tue Dec 17 15:02:22 UTC 2024  I: Submitting .buildinfo files to external archives:
Tue Dec 17 15:02:22 UTC 2024  I: Submitting 8.0K	b1/kalign_3.4.0-1_i386.buildinfo.asc
Tue Dec 17 15:02:23 UTC 2024  I: Submitting 8.0K	b2/kalign_3.4.0-1_i386.buildinfo.asc
Tue Dec 17 15:02:24 UTC 2024  I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit.
Tue Dec 17 15:02:24 UTC 2024  I: Done submitting .buildinfo files.
Tue Dec 17 15:02:24 UTC 2024  I: Removing signed kalign_3.4.0-1_i386.buildinfo.asc files:
removed './b1/kalign_3.4.0-1_i386.buildinfo.asc'
removed './b2/kalign_3.4.0-1_i386.buildinfo.asc'