Diff of the two buildlogs:

--
--- b1/build.log	2021-06-08 15:00:58.891549641 +0000
+++ b2/build.log	2021-06-08 15:08:52.777083090 +0000
@@ -1,6 +1,6 @@
 I: pbuilder: network access will be disabled during build
-I: Current time: Mon Jul 11 09:22:35 -12 2022
-I: pbuilder-time-stamp: 1657574555
+I: Current time: Wed Jun  9 05:01:01 +14 2021
+I: pbuilder-time-stamp: 1623164461
 I: Building the build Environment
 I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz]
 I: copying local configuration
@@ -17,8 +17,8 @@
 I: copying [./kalign_3.3-1.debian.tar.xz]
 I: Extracting source
 gpgv: unknown type of key resource 'trustedkeys.kbx'
-gpgv: keyblock resource '/tmp/dpkg-verify-sig.wBYiqsos/trustedkeys.kbx': General error
-gpgv: Signature made Thu Nov  5 21:40:45 2020 -12
+gpgv: keyblock resource '/tmp/dpkg-verify-sig.D_LJ0xpq/trustedkeys.kbx': General error
+gpgv: Signature made Fri Nov  6 23:40:45 2020 +14
 gpgv:                using RSA key 724D609337113C710550D7473C26763F6C67E6E2
 gpgv: Can't check signature: No public key
 dpkg-source: warning: failed to verify signature on ./kalign_3.3-1.dsc
@@ -31,137 +31,171 @@
 dpkg-source: info: applying keep-debugging
 I: Not using root during the build.
 I: Installing the build-deps
-I: user script /srv/workspace/pbuilder/56904/tmp/hooks/D02_print_environment starting
+I: user script /srv/workspace/pbuilder/1422/tmp/hooks/D01_modify_environment starting
+debug: Running on ionos12-i386.
+I: Changing host+domainname to test build reproducibility
+I: Adding a custom variable just for the fun of it...
+I: Changing /bin/sh to bash
+Removing 'diversion of /bin/sh to /bin/sh.distrib by dash'
+Adding 'diversion of /bin/sh to /bin/sh.distrib by bash'
+Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash'
+Adding 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by bash'
+I: Setting pbuilder2's login shell to /bin/bash
+I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other
+I: user script /srv/workspace/pbuilder/1422/tmp/hooks/D01_modify_environment finished
+I: user script /srv/workspace/pbuilder/1422/tmp/hooks/D02_print_environment starting
 I: set
-  BUILDDIR='/build'
-  BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other'
-  BUILDUSERNAME='pbuilder1'
-  BUILD_ARCH='i386'
-  DEBIAN_FRONTEND='noninteractive'
-  DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=18'
-  DISTRIBUTION=''
-  HOME='/root'
-  HOST_ARCH='i386'
+  BASH=/bin/sh
+  BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:hostcomplete:interactive_comments:progcomp:promptvars:sourcepath
+  BASH_ALIASES=()
+  BASH_ARGC=()
+  BASH_ARGV=()
+  BASH_CMDS=()
+  BASH_LINENO=([0]="12" [1]="0")
+  BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment")
+  BASH_VERSINFO=([0]="5" [1]="1" [2]="4" [3]="1" [4]="release" [5]="i686-pc-linux-gnu")
+  BASH_VERSION='5.1.4(1)-release'
+  BUILDDIR=/build
+  BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other'
+  BUILDUSERNAME=pbuilder2
+  BUILD_ARCH=i386
+  DEBIAN_FRONTEND=noninteractive
+  DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=10'
+  DIRSTACK=()
+  DISTRIBUTION=
+  EUID=0
+  FUNCNAME=([0]="Echo" [1]="main")
+  GROUPS=()
+  HOME=/root
+  HOSTNAME=i-capture-the-hostname
+  HOSTTYPE=i686
+  HOST_ARCH=i386
   IFS=' 	
   '
-  INVOCATION_ID='efcd49ae89014ba494952090b74bb31c'
-  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='56904'
-  PS1='# '
-  PS2='> '
+  INVOCATION_ID=5e9db9ed60344be6a5fbad425f1d388e
+  LANG=C
+  LANGUAGE=de_CH:de
+  LC_ALL=C
+  LD_LIBRARY_PATH=/usr/lib/libeatmydata
+  LD_PRELOAD=libeatmydata.so
+  MACHTYPE=i686-pc-linux-gnu
+  MAIL=/var/mail/root
+  OPTERR=1
+  OPTIND=1
+  OSTYPE=linux-gnu
+  PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path
+  PBCURRENTCOMMANDLINEOPERATION=build
+  PBUILDER_OPERATION=build
+  PBUILDER_PKGDATADIR=/usr/share/pbuilder
+  PBUILDER_PKGLIBDIR=/usr/lib/pbuilder
+  PBUILDER_SYSCONFDIR=/etc
+  PIPESTATUS=([0]="0")
+  POSIXLY_CORRECT=y
+  PPID=1422
   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/tmp.sAzQFoF3B6/pbuilderrc_KDaZ --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.sAzQFoF3B6/b1 --logfile b1/build.log kalign_3.3-1.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://85.184.249.68:3128'
+  PWD=/
+  SHELL=/bin/bash
+  SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix
+  SHLVL=3
+  SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.sAzQFoF3B6/pbuilderrc_t1Hn --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.sAzQFoF3B6/b2 --logfile b2/build.log --extrapackages usrmerge kalign_3.3-1.dsc'
+  SUDO_GID=112
+  SUDO_UID=107
+  SUDO_USER=jenkins
+  TERM=unknown
+  TZ=/usr/share/zoneinfo/Etc/GMT-14
+  UID=0
+  USER=root
+  _='I: set'
+  http_proxy=http://78.137.99.97:3128
 I: uname -a
-  Linux ionos6-i386 4.19.0-16-amd64 #1 SMP Debian 4.19.181-1 (2021-03-19) x86_64 GNU/Linux
+  Linux i-capture-the-hostname 4.19.0-16-686-pae #1 SMP Debian 4.19.181-1 (2021-03-19) i686 GNU/Linux
 I: ls -l /bin
-  total 5776
-  -rwxr-xr-x 1 root root 1367848 Feb 24  2021 bash
-  -rwxr-xr-x 3 root root   38280 Jul 20  2020 bunzip2
-  -rwxr-xr-x 3 root root   38280 Jul 20  2020 bzcat
-  lrwxrwxrwx 1 root root       6 Jul 20  2020 bzcmp -> bzdiff
-  -rwxr-xr-x 1 root root    2225 Jul 20  2020 bzdiff
-  lrwxrwxrwx 1 root root       6 Jul 20  2020 bzegrep -> bzgrep
-  -rwxr-xr-x 1 root root    4877 Sep  4  2019 bzexe
-  lrwxrwxrwx 1 root root       6 Jul 20  2020 bzfgrep -> bzgrep
-  -rwxr-xr-x 1 root root    3775 Jul 20  2020 bzgrep
-  -rwxr-xr-x 3 root root   38280 Jul 20  2020 bzip2
-  -rwxr-xr-x 1 root root   17768 Jul 20  2020 bzip2recover
-  lrwxrwxrwx 1 root root       6 Jul 20  2020 bzless -> bzmore
-  -rwxr-xr-x 1 root root    1297 Jul 20  2020 bzmore
-  -rwxr-xr-x 1 root root   38824 Sep 22  2020 cat
-  -rwxr-xr-x 1 root root   71624 Sep 22  2020 chgrp
-  -rwxr-xr-x 1 root root   67528 Sep 22  2020 chmod
-  -rwxr-xr-x 1 root root   75752 Sep 22  2020 chown
-  -rwxr-xr-x 1 root root  157960 Sep 22  2020 cp
-  -rwxr-xr-x 1 root root  128724 Dec 10  2020 dash
-  -rwxr-xr-x 1 root root  124904 Sep 22  2020 date
-  -rwxr-xr-x 1 root root   92172 Sep 22  2020 dd
-  -rwxr-xr-x 1 root root  100752 Sep 22  2020 df
-  -rwxr-xr-x 1 root root  153964 Sep 22  2020 dir
-  -rwxr-xr-x 1 root root   83644 Feb  7  2021 dmesg
-  lrwxrwxrwx 1 root root       8 Nov  6  2019 dnsdomainname -> hostname
-  lrwxrwxrwx 1 root root       8 Nov  6  2019 domainname -> hostname
-  -rwxr-xr-x 1 root root   34664 Sep 22  2020 echo
-  -rwxr-xr-x 1 root root      28 Nov  9  2020 egrep
-  -rwxr-xr-x 1 root root   34664 Sep 22  2020 false
-  -rwxr-xr-x 1 root root      28 Nov  9  2020 fgrep
-  -rwxr-xr-x 1 root root   71928 Feb  7  2021 findmnt
-  -rwsr-xr-x 1 root root   30112 Feb 26  2021 fusermount
-  -rwxr-xr-x 1 root root  210488 Nov  9  2020 grep
-  -rwxr-xr-x 2 root root    2346 Mar  2  2021 gunzip
-  -rwxr-xr-x 1 root root    6376 Mar  2  2021 gzexe
-  -rwxr-xr-x 1 root root  100952 Mar  2  2021 gzip
-  -rwxr-xr-x 1 root root   21916 Nov  6  2019 hostname
-  -rwxr-xr-x 1 root root   83980 Sep 22  2020 ln
-  -rwxr-xr-x 1 root root   55572 Feb  7  2020 login
-  -rwxr-xr-x 1 root root  153964 Sep 22  2020 ls
-  -rwxr-xr-x 1 root root  153124 Feb  7  2021 lsblk
-  -rwxr-xr-x 1 root root   96328 Sep 22  2020 mkdir
-  -rwxr-xr-x 1 root root   79912 Sep 22  2020 mknod
-  -rwxr-xr-x 1 root root   47048 Sep 22  2020 mktemp
-  -rwxr-xr-x 1 root root   58920 Feb  7  2021 more
-  -rwsr-xr-x 1 root root   50720 Feb  7  2021 mount
-  -rwxr-xr-x 1 root root   13856 Feb  7  2021 mountpoint
-  -rwxr-xr-x 1 root root  157996 Sep 22  2020 mv
-  lrwxrwxrwx 1 root root       8 Nov  6  2019 nisdomainname -> hostname
-  lrwxrwxrwx 1 root root      14 Apr 18  2021 pidof -> /sbin/killall5
-  -rwxr-xr-x 1 root root   38824 Sep 22  2020 pwd
-  lrwxrwxrwx 1 root root       4 Feb 24  2021 rbash -> bash
-  -rwxr-xr-x 1 root root   46984 Sep 22  2020 readlink
-  -rwxr-xr-x 1 root root   75720 Sep 22  2020 rm
-  -rwxr-xr-x 1 root root   46984 Sep 22  2020 rmdir
-  -rwxr-xr-x 1 root root   22292 Sep 27  2020 run-parts
-  -rwxr-xr-x 1 root root  125036 Dec 22  2018 sed
-  lrwxrwxrwx 1 root root       4 Jul 10 03:46 sh -> dash
-  -rwxr-xr-x 1 root root   34696 Sep 22  2020 sleep
-  -rwxr-xr-x 1 root root   83880 Sep 22  2020 stty
-  -rwsr-xr-x 1 root root   79396 Feb  7  2021 su
-  -rwxr-xr-x 1 root root   34696 Sep 22  2020 sync
-  -rwxr-xr-x 1 root root  602584 Feb 16  2021 tar
-  -rwxr-xr-x 1 root root   13860 Sep 27  2020 tempfile
-  -rwxr-xr-x 1 root root  108520 Sep 22  2020 touch
-  -rwxr-xr-x 1 root root   34664 Sep 22  2020 true
-  -rwxr-xr-x 1 root root   17768 Feb 26  2021 ulockmgr_server
-  -rwsr-xr-x 1 root root   30236 Feb  7  2021 umount
-  -rwxr-xr-x 1 root root   34664 Sep 22  2020 uname
-  -rwxr-xr-x 2 root root    2346 Mar  2  2021 uncompress
-  -rwxr-xr-x 1 root root  153964 Sep 22  2020 vdir
-  -rwxr-xr-x 1 root root   63024 Feb  7  2021 wdctl
-  lrwxrwxrwx 1 root root       8 Nov  6  2019 ypdomainname -> hostname
-  -rwxr-xr-x 1 root root    1984 Mar  2  2021 zcat
-  -rwxr-xr-x 1 root root    1678 Mar  2  2021 zcmp
-  -rwxr-xr-x 1 root root    5880 Mar  2  2021 zdiff
-  -rwxr-xr-x 1 root root      29 Mar  2  2021 zegrep
-  -rwxr-xr-x 1 root root      29 Mar  2  2021 zfgrep
-  -rwxr-xr-x 1 root root    2081 Mar  2  2021 zforce
-  -rwxr-xr-x 1 root root    7585 Mar  2  2021 zgrep
-  -rwxr-xr-x 1 root root    2206 Mar  2  2021 zless
-  -rwxr-xr-x 1 root root    1842 Mar  2  2021 zmore
-  -rwxr-xr-x 1 root root    4553 Mar  2  2021 znew
-I: user script /srv/workspace/pbuilder/56904/tmp/hooks/D02_print_environment finished
+  total 5780
+  -rwxr-xr-x 1 root root 1367848 Feb 25 10:57 bash
+  -rwxr-xr-x 3 root root   38280 Jul 21  2020 bunzip2
+  -rwxr-xr-x 3 root root   38280 Jul 21  2020 bzcat
+  lrwxrwxrwx 1 root root       6 Jul 21  2020 bzcmp -> bzdiff
+  -rwxr-xr-x 1 root root    2225 Jul 21  2020 bzdiff
+  lrwxrwxrwx 1 root root       6 Jul 21  2020 bzegrep -> bzgrep
+  -rwxr-xr-x 1 root root    4877 Sep  5  2019 bzexe
+  lrwxrwxrwx 1 root root       6 Jul 21  2020 bzfgrep -> bzgrep
+  -rwxr-xr-x 1 root root    3775 Jul 21  2020 bzgrep
+  -rwxr-xr-x 3 root root   38280 Jul 21  2020 bzip2
+  -rwxr-xr-x 1 root root   17768 Jul 21  2020 bzip2recover
+  lrwxrwxrwx 1 root root       6 Jul 21  2020 bzless -> bzmore
+  -rwxr-xr-x 1 root root    1297 Jul 21  2020 bzmore
+  -rwxr-xr-x 1 root root   38824 Sep 23  2020 cat
+  -rwxr-xr-x 1 root root   71624 Sep 23  2020 chgrp
+  -rwxr-xr-x 1 root root   67528 Sep 23  2020 chmod
+  -rwxr-xr-x 1 root root   75752 Sep 23  2020 chown
+  -rwxr-xr-x 1 root root  157960 Sep 23  2020 cp
+  -rwxr-xr-x 1 root root  128724 Dec 11 03:23 dash
+  -rwxr-xr-x 1 root root  124904 Sep 23  2020 date
+  -rwxr-xr-x 1 root root   92172 Sep 23  2020 dd
+  -rwxr-xr-x 1 root root  100752 Sep 23  2020 df
+  -rwxr-xr-x 1 root root  153964 Sep 23  2020 dir
+  -rwxr-xr-x 1 root root   83644 Feb  8 04:38 dmesg
+  lrwxrwxrwx 1 root root       8 Nov  8  2019 dnsdomainname -> hostname
+  lrwxrwxrwx 1 root root       8 Nov  8  2019 domainname -> hostname
+  -rwxr-xr-x 1 root root   34664 Sep 23  2020 echo
+  -rwxr-xr-x 1 root root      28 Nov 10  2020 egrep
+  -rwxr-xr-x 1 root root   34664 Sep 23  2020 false
+  -rwxr-xr-x 1 root root      28 Nov 10  2020 fgrep
+  -rwxr-xr-x 1 root root   71928 Feb  8 04:38 findmnt
+  -rwsr-xr-x 1 root root   30112 Feb 27 06:12 fusermount
+  -rwxr-xr-x 1 root root  210488 Nov 10  2020 grep
+  -rwxr-xr-x 2 root root    2346 Mar  3 13:30 gunzip
+  -rwxr-xr-x 1 root root    6376 Mar  3 13:30 gzexe
+  -rwxr-xr-x 1 root root  100952 Mar  3 13:30 gzip
+  -rwxr-xr-x 1 root root   21916 Nov  8  2019 hostname
+  -rwxr-xr-x 1 root root   83980 Sep 23  2020 ln
+  -rwxr-xr-x 1 root root   55572 Feb  8  2020 login
+  -rwxr-xr-x 1 root root  153964 Sep 23  2020 ls
+  -rwxr-xr-x 1 root root  153124 Feb  8 04:38 lsblk
+  -rwxr-xr-x 1 root root   96328 Sep 23  2020 mkdir
+  -rwxr-xr-x 1 root root   79912 Sep 23  2020 mknod
+  -rwxr-xr-x 1 root root   47048 Sep 23  2020 mktemp
+  -rwxr-xr-x 1 root root   58920 Feb  8 04:38 more
+  -rwsr-xr-x 1 root root   50720 Feb  8 04:38 mount
+  -rwxr-xr-x 1 root root   13856 Feb  8 04:38 mountpoint
+  -rwxr-xr-x 1 root root  157996 Sep 23  2020 mv
+  lrwxrwxrwx 1 root root       8 Nov  8  2019 nisdomainname -> hostname
+  lrwxrwxrwx 1 root root      14 Apr 19 05:38 pidof -> /sbin/killall5
+  -rwxr-xr-x 1 root root   38824 Sep 23  2020 pwd
+  lrwxrwxrwx 1 root root       4 Feb 25 10:57 rbash -> bash
+  -rwxr-xr-x 1 root root   46984 Sep 23  2020 readlink
+  -rwxr-xr-x 1 root root   75720 Sep 23  2020 rm
+  -rwxr-xr-x 1 root root   46984 Sep 23  2020 rmdir
+  -rwxr-xr-x 1 root root   22292 Sep 28  2020 run-parts
+  -rwxr-xr-x 1 root root  125036 Dec 23  2018 sed
+  lrwxrwxrwx 1 root root       4 Jun  9 05:04 sh -> bash
+  lrwxrwxrwx 1 root root       4 Jun  8 23:26 sh.distrib -> dash
+  -rwxr-xr-x 1 root root   34696 Sep 23  2020 sleep
+  -rwxr-xr-x 1 root root   83880 Sep 23  2020 stty
+  -rwsr-xr-x 1 root root   79396 Feb  8 04:38 su
+  -rwxr-xr-x 1 root root   34696 Sep 23  2020 sync
+  -rwxr-xr-x 1 root root  602584 Feb 17 23:55 tar
+  -rwxr-xr-x 1 root root   13860 Sep 28  2020 tempfile
+  -rwxr-xr-x 1 root root  108520 Sep 23  2020 touch
+  -rwxr-xr-x 1 root root   34664 Sep 23  2020 true
+  -rwxr-xr-x 1 root root   17768 Feb 27 06:12 ulockmgr_server
+  -rwsr-xr-x 1 root root   30236 Feb  8 04:38 umount
+  -rwxr-xr-x 1 root root   34664 Sep 23  2020 uname
+  -rwxr-xr-x 2 root root    2346 Mar  3 13:30 uncompress
+  -rwxr-xr-x 1 root root  153964 Sep 23  2020 vdir
+  -rwxr-xr-x 1 root root   63024 Feb  8 04:38 wdctl
+  lrwxrwxrwx 1 root root       8 Nov  8  2019 ypdomainname -> hostname
+  -rwxr-xr-x 1 root root    1984 Mar  3 13:30 zcat
+  -rwxr-xr-x 1 root root    1678 Mar  3 13:30 zcmp
+  -rwxr-xr-x 1 root root    5880 Mar  3 13:30 zdiff
+  -rwxr-xr-x 1 root root      29 Mar  3 13:30 zegrep
+  -rwxr-xr-x 1 root root      29 Mar  3 13:30 zfgrep
+  -rwxr-xr-x 1 root root    2081 Mar  3 13:30 zforce
+  -rwxr-xr-x 1 root root    7585 Mar  3 13:30 zgrep
+  -rwxr-xr-x 1 root root    2206 Mar  3 13:30 zless
+  -rwxr-xr-x 1 root root    1842 Mar  3 13:30 zmore
+  -rwxr-xr-x 1 root root    4553 Mar  3 13:30 znew
+I: user script /srv/workspace/pbuilder/1422/tmp/hooks/D02_print_environment finished
  -> Attempting to satisfy build-dependencies
  -> Creating pbuilder-satisfydepends-dummy package
 Package: pbuilder-satisfydepends-dummy
@@ -231,7 +265,7 @@
 Get: 30 http://deb.debian.org/debian bullseye/main i386 po-debconf all 1.0.21+nmu1 [248 kB]
 Get: 31 http://deb.debian.org/debian bullseye/main i386 debhelper all 13.3.4 [1049 kB]
 Get: 32 http://deb.debian.org/debian bullseye/main i386 libsimde-dev all 0.7.2-4 [259 kB]
-Fetched 18.8 MB in 0s (68.1 MB/s)
+Fetched 18.8 MB in 12s (1579 kB/s)
 debconf: delaying package configuration, since apt-utils is not installed
 Selecting previously unselected package bsdextrautils.
 (Reading database ... 
(Reading database ... 5%
(Reading database ... 10%
(Reading database ... 15%
(Reading database ... 20%
(Reading database ... 25%
(Reading database ... 30%
(Reading database ... 35%
(Reading database ... 40%
(Reading database ... 45%
(Reading database ... 50%
(Reading database ... 55%
(Reading database ... 60%
(Reading database ... 65%
(Reading database ... 70%
(Reading database ... 75%
(Reading database ... 80%
(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 19675 files and directories currently installed.)
@@ -374,8 +408,44 @@
 Writing extended state information...
 Building tag database...
  -> Finished parsing the build-deps
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following additional packages will be installed:
+  libfile-find-rule-perl libnumber-compare-perl libtext-glob-perl
+The following NEW packages will be installed:
+  libfile-find-rule-perl libnumber-compare-perl libtext-glob-perl usrmerge
+0 upgraded, 4 newly installed, 0 to remove and 0 not upgraded.
+Need to get 59.5 kB of archives.
+After this operation, 157 kB of additional disk space will be used.
+Get:1 http://deb.debian.org/debian bullseye/main i386 libnumber-compare-perl all 0.03-1.1 [6956 B]
+Get:2 http://deb.debian.org/debian bullseye/main i386 libtext-glob-perl all 0.11-1 [8888 B]
+Get:3 http://deb.debian.org/debian bullseye/main i386 libfile-find-rule-perl all 0.34-1 [30.6 kB]
+Get:4 http://deb.debian.org/debian bullseye/main i386 usrmerge all 25 [13.0 kB]
+debconf: delaying package configuration, since apt-utils is not installed
+Fetched 59.5 kB in 0s (778 kB/s)
+Selecting previously unselected package libnumber-compare-perl.
+(Reading database ... 
(Reading database ... 5%
(Reading database ... 10%
(Reading database ... 15%
(Reading database ... 20%
(Reading database ... 25%
(Reading database ... 30%
(Reading database ... 35%
(Reading database ... 40%
(Reading database ... 45%
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(Reading database ... 21797 files and directories currently installed.)
+Preparing to unpack .../libnumber-compare-perl_0.03-1.1_all.deb ...
+Unpacking libnumber-compare-perl (0.03-1.1) ...
+Selecting previously unselected package libtext-glob-perl.
+Preparing to unpack .../libtext-glob-perl_0.11-1_all.deb ...
+Unpacking libtext-glob-perl (0.11-1) ...
+Selecting previously unselected package libfile-find-rule-perl.
+Preparing to unpack .../libfile-find-rule-perl_0.34-1_all.deb ...
+Unpacking libfile-find-rule-perl (0.34-1) ...
+Selecting previously unselected package usrmerge.
+Preparing to unpack .../archives/usrmerge_25_all.deb ...
+Unpacking usrmerge (25) ...
+Setting up libtext-glob-perl (0.11-1) ...
+Setting up libnumber-compare-perl (0.03-1.1) ...
+Setting up libfile-find-rule-perl (0.34-1) ...
+Setting up usrmerge (25) ...
+The system has been successfully converted.
+Processing triggers for man-db (2.9.4-2) ...
+Not building database; man-db/auto-update is not 'true'.
 I: Building the package
-I: Running cd /build/kalign-3.3/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b
+I: Running cd /build/kalign-3.3/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b
 dpkg-buildpackage: info: source package kalign
 dpkg-buildpackage: info: source version 1:3.3-1
 dpkg-buildpackage: info: source distribution unstable
@@ -418,8 +488,8 @@
 checking for gcc option to accept ISO C89... none needed
 checking whether gcc understands -c and -o together... yes
 checking how to run the C preprocessor... gcc -E
-checking for grep that handles long lines and -e... /bin/grep
-checking for egrep... /bin/grep -E
+checking for grep that handles long lines and -e... /usr/bin/grep
+checking for egrep... /usr/bin/grep -E
 checking for ANSI C header files... yes
 checking for sys/types.h... yes
 checking for sys/stat.h... yes
@@ -436,7 +506,7 @@
 checking whether it is safe to define __EXTENSIONS__... yes
 checking for a BSD-compatible install... /usr/bin/install -c
 checking whether build environment is sane... yes
-checking for a thread-safe mkdir -p... /bin/mkdir -p
+checking for a thread-safe mkdir -p... /usr/bin/mkdir -p
 checking for gawk... no
 checking for mawk... mawk
 checking whether make sets $(MAKE)... yes
@@ -458,8 +528,8 @@
 checking build system type... i686-pc-linux-gnu
 checking host system type... i686-pc-linux-gnu
 checking how to print strings... printf
-checking for a sed that does not truncate output... /bin/sed
-checking for fgrep... /bin/grep -F
+checking for a sed that does not truncate output... /usr/bin/sed
+checking for fgrep... /usr/bin/grep -F
 checking for ld used by gcc... /usr/bin/ld
 checking if the linker (/usr/bin/ld) is GNU ld... yes
 checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
@@ -479,8 +549,8 @@
 checking for ranlib... (cached) ranlib
 checking command to parse /usr/bin/nm -B output from gcc object... ok
 checking for sysroot... no
-checking for a working dd... /bin/dd
-checking how to truncate binary pipes... /bin/dd bs=4096 count=1
+checking for a working dd... /usr/bin/dd
+checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1
 checking for mt... no
 checking if : is a manifest tool... no
 checking for dlfcn.h... yes
@@ -580,7 +650,7 @@
 configure: General Information:
 configure:                Version: 3.3
 configure:          Configured on: 
-configure:          Configured by: pbuilder1
+configure:          Configured by: pbuilder2
 configure:            Host system: i686-pc-linux-gnu
 configure:      Uname information: 
 configure:     Installation point: /usr
@@ -631,8 +701,8 @@
 checking for gcc option to accept ISO C89... none needed
 checking whether gcc understands -c and -o together... yes
 checking how to run the C preprocessor... gcc -E
-checking for grep that handles long lines and -e... /bin/grep
-checking for egrep... /bin/grep -E
+checking for grep that handles long lines and -e... /usr/bin/grep
+checking for egrep... /usr/bin/grep -E
 checking for ANSI C header files... yes
 checking for sys/types.h... yes
 checking for sys/stat.h... yes
@@ -649,7 +719,7 @@
 checking whether it is safe to define __EXTENSIONS__... yes
 checking for a BSD-compatible install... /usr/bin/install -c
 checking whether build environment is sane... yes
-checking for a thread-safe mkdir -p... /bin/mkdir -p
+checking for a thread-safe mkdir -p... /usr/bin/mkdir -p
 checking for gawk... no
 checking for mawk... mawk
 checking whether make sets $(MAKE)... yes
@@ -671,8 +741,8 @@
 checking build system type... i686-pc-linux-gnu
 checking host system type... i686-pc-linux-gnu
 checking how to print strings... printf
-checking for a sed that does not truncate output... /bin/sed
-checking for fgrep... /bin/grep -F
+checking for a sed that does not truncate output... /usr/bin/sed
+checking for fgrep... /usr/bin/grep -F
 checking for ld used by gcc... /usr/bin/ld
 checking if the linker (/usr/bin/ld) is GNU ld... yes
 checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
@@ -692,8 +762,8 @@
 checking for ranlib... (cached) ranlib
 checking command to parse /usr/bin/nm -B output from gcc object... ok
 checking for sysroot... no
-checking for a working dd... /bin/dd
-checking how to truncate binary pipes... /bin/dd bs=4096 count=1
+checking for a working dd... /usr/bin/dd
+checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1
 checking for mt... no
 checking if : is a manifest tool... no
 checking for dlfcn.h... yes
@@ -794,7 +864,7 @@
 configure: General Information:
 configure:                Version: 3.3
 configure:          Configured on: 
-configure:          Configured by: pbuilder1
+configure:          Configured by: pbuilder2
 configure:            Host system: i686-pc-linux-gnu
 configure:      Uname information: 
 configure:     Installation point: /usr
@@ -803,7 +873,7 @@
 configure:                LDFLAGS: -Wl,-z,relro -Wl,-z,now
 configure:             SIMD flags: 
 configure: ---------------------------------------------------------
-	make -j18
+	make -j10
 make[2]: Entering directory '/build/kalign-3.3'
 Making all in src
 make[3]: Entering directory '/build/kalign-3.3/src'
@@ -923,18 +993,18 @@
       |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    68 |        __bos (__s), __fmt, __va_arg_pack ());
       |        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mavx2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kalign run_kalign.o idata.o tldevel.o tlmisc.o esl_stopwatch.o tlrng.o parameters.o alphabet.o alignment_parameters.o pick_anchor.o bisectingKmeans.o sequence_distance.o euclidean_dist.o weave_alignment.o rwalign.o misc.o bpm.o aln_task.o aln_mem.o aln_setup.o aln_run.o aln_controller.o aln_seqseq.o aln_seqprofile.o aln_profileprofile.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mavx2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mavx2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o timescorealn tldevel.o tlmisc.o esl_stopwatch.o time_and_score_aln.o parameters.o alphabet.o rwalign.o misc.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mavx2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mavx2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genruncmds tldevel.o create_run_cmds.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mavx2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genkaligndiffcmds tldevel.o tlmisc.o create_run_kalign_diff_cmds.o  -lpthread -lm 
-libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -mavx2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o genkaligndiffcmds tldevel.o tlmisc.o create_run_kalign_diff_cmds.o  -lpthread -lm -fopenmp
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mavx2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kalign run_kalign.o idata.o tldevel.o tlmisc.o esl_stopwatch.o tlrng.o parameters.o alphabet.o alignment_parameters.o pick_anchor.o bisectingKmeans.o sequence_distance.o euclidean_dist.o weave_alignment.o rwalign.o misc.o bpm.o aln_task.o aln_mem.o aln_setup.o aln_run.o aln_controller.o aln_seqseq.o aln_seqprofile.o aln_profileprofile.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mavx2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mavx2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o timescorealn tldevel.o tlmisc.o esl_stopwatch.o time_and_score_aln.o parameters.o alphabet.o rwalign.o misc.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mavx2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mavx2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genruncmds tldevel.o create_run_cmds.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mavx2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genkaligndiffcmds tldevel.o tlmisc.o create_run_kalign_diff_cmds.o  -lpthread -lm 
+libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -mavx2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm -fopenmp
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -mavx2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o kalign run_kalign.o idata.o tldevel.o tlmisc.o esl_stopwatch.o tlrng.o parameters.o alphabet.o alignment_parameters.o pick_anchor.o bisectingKmeans.o sequence_distance.o euclidean_dist.o weave_alignment.o rwalign.o misc.o bpm.o aln_task.o aln_mem.o aln_setup.o aln_run.o aln_controller.o aln_seqseq.o aln_seqprofile.o aln_profileprofile.o  -lpthread -lm -fopenmp
+libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -mavx2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o timescorealn tldevel.o tlmisc.o esl_stopwatch.o time_and_score_aln.o parameters.o alphabet.o rwalign.o misc.o  -lpthread -lm -fopenmp
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -mavx2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o genruncmds tldevel.o create_run_cmds.o  -lpthread -lm -fopenmp
-libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -mavx2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm -fopenmp
+libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -mavx2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o genkaligndiffcmds tldevel.o tlmisc.o create_run_kalign_diff_cmds.o  -lpthread -lm -fopenmp
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -mavx2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm -fopenmp
-libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -mavx2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o timescorealn tldevel.o tlmisc.o esl_stopwatch.o time_and_score_aln.o parameters.o alphabet.o rwalign.o misc.o  -lpthread -lm -fopenmp
 make[4]: Leaving directory '/build/kalign-3.3/src'
 make[3]: Leaving directory '/build/kalign-3.3/src'
 Making all in dev
@@ -982,8 +1052,8 @@
 checking for gcc option to accept ISO C89... none needed
 checking whether gcc understands -c and -o together... yes
 checking how to run the C preprocessor... gcc -E
-checking for grep that handles long lines and -e... /bin/grep
-checking for egrep... /bin/grep -E
+checking for grep that handles long lines and -e... /usr/bin/grep
+checking for egrep... /usr/bin/grep -E
 checking for ANSI C header files... yes
 checking for sys/types.h... yes
 checking for sys/stat.h... yes
@@ -1000,7 +1070,7 @@
 checking whether it is safe to define __EXTENSIONS__... yes
 checking for a BSD-compatible install... /usr/bin/install -c
 checking whether build environment is sane... yes
-checking for a thread-safe mkdir -p... /bin/mkdir -p
+checking for a thread-safe mkdir -p... /usr/bin/mkdir -p
 checking for gawk... no
 checking for mawk... mawk
 checking whether make sets $(MAKE)... yes
@@ -1022,8 +1092,8 @@
 checking build system type... i686-pc-linux-gnu
 checking host system type... i686-pc-linux-gnu
 checking how to print strings... printf
-checking for a sed that does not truncate output... /bin/sed
-checking for fgrep... /bin/grep -F
+checking for a sed that does not truncate output... /usr/bin/sed
+checking for fgrep... /usr/bin/grep -F
 checking for ld used by gcc... /usr/bin/ld
 checking if the linker (/usr/bin/ld) is GNU ld... yes
 checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
@@ -1043,8 +1113,8 @@
 checking for ranlib... (cached) ranlib
 checking command to parse /usr/bin/nm -B output from gcc object... ok
 checking for sysroot... no
-checking for a working dd... /bin/dd
-checking how to truncate binary pipes... /bin/dd bs=4096 count=1
+checking for a working dd... /usr/bin/dd
+checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1
 checking for mt... no
 checking if : is a manifest tool... no
 checking for dlfcn.h... yes
@@ -1145,7 +1215,7 @@
 configure: General Information:
 configure:                Version: 3.3
 configure:          Configured on: 
-configure:          Configured by: pbuilder1
+configure:          Configured by: pbuilder2
 configure:            Host system: i686-pc-linux-gnu
 configure:      Uname information: 
 configure:     Installation point: /usr
@@ -1154,7 +1224,7 @@
 configure:                LDFLAGS: -Wl,-z,relro -Wl,-z,now
 configure:             SIMD flags: 
 configure: ---------------------------------------------------------
-	make -j18
+	make -j10
 make[2]: Entering directory '/build/kalign-3.3'
 Making all in src
 make[3]: Entering directory '/build/kalign-3.3/src'
@@ -1274,18 +1344,18 @@
       |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    68 |        __bos (__s), __fmt, __va_arg_pack ());
       |        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mavx -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kalign run_kalign.o idata.o tldevel.o tlmisc.o esl_stopwatch.o tlrng.o parameters.o alphabet.o alignment_parameters.o pick_anchor.o bisectingKmeans.o sequence_distance.o euclidean_dist.o weave_alignment.o rwalign.o misc.o bpm.o aln_task.o aln_mem.o aln_setup.o aln_run.o aln_controller.o aln_seqseq.o aln_seqprofile.o aln_profileprofile.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mavx -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mavx -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o timescorealn tldevel.o tlmisc.o esl_stopwatch.o time_and_score_aln.o parameters.o alphabet.o rwalign.o misc.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mavx -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mavx -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genruncmds tldevel.o create_run_cmds.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mavx -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genkaligndiffcmds tldevel.o tlmisc.o create_run_kalign_diff_cmds.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mavx -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kalign run_kalign.o idata.o tldevel.o tlmisc.o esl_stopwatch.o tlrng.o parameters.o alphabet.o alignment_parameters.o pick_anchor.o bisectingKmeans.o sequence_distance.o euclidean_dist.o weave_alignment.o rwalign.o misc.o bpm.o aln_task.o aln_mem.o aln_setup.o aln_run.o aln_controller.o aln_seqseq.o aln_seqprofile.o aln_profileprofile.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mavx -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mavx -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o timescorealn tldevel.o tlmisc.o esl_stopwatch.o time_and_score_aln.o parameters.o alphabet.o rwalign.o misc.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mavx -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mavx -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genruncmds tldevel.o create_run_cmds.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mavx -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genkaligndiffcmds tldevel.o tlmisc.o create_run_kalign_diff_cmds.o  -lpthread -lm 
+libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -mavx -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm -fopenmp
+libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -mavx -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o genkaligndiffcmds tldevel.o tlmisc.o create_run_kalign_diff_cmds.o  -lpthread -lm -fopenmp
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -mavx -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm -fopenmp
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -mavx -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o timescorealn tldevel.o tlmisc.o esl_stopwatch.o time_and_score_aln.o parameters.o alphabet.o rwalign.o misc.o  -lpthread -lm -fopenmp
-libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -mavx -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o genruncmds tldevel.o create_run_cmds.o  -lpthread -lm -fopenmp
-libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -mavx -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o genkaligndiffcmds tldevel.o tlmisc.o create_run_kalign_diff_cmds.o  -lpthread -lm -fopenmp
-libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -mavx -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm -fopenmp
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -mavx -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o kalign run_kalign.o idata.o tldevel.o tlmisc.o esl_stopwatch.o tlrng.o parameters.o alphabet.o alignment_parameters.o pick_anchor.o bisectingKmeans.o sequence_distance.o euclidean_dist.o weave_alignment.o rwalign.o misc.o bpm.o aln_task.o aln_mem.o aln_setup.o aln_run.o aln_controller.o aln_seqseq.o aln_seqprofile.o aln_profileprofile.o  -lpthread -lm -fopenmp
+libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -mavx -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o genruncmds tldevel.o create_run_cmds.o  -lpthread -lm -fopenmp
 make[4]: Leaving directory '/build/kalign-3.3/src'
 make[3]: Leaving directory '/build/kalign-3.3/src'
 Making all in dev
@@ -1333,8 +1403,8 @@
 checking for gcc option to accept ISO C89... none needed
 checking whether gcc understands -c and -o together... yes
 checking how to run the C preprocessor... gcc -E
-checking for grep that handles long lines and -e... /bin/grep
-checking for egrep... /bin/grep -E
+checking for grep that handles long lines and -e... /usr/bin/grep
+checking for egrep... /usr/bin/grep -E
 checking for ANSI C header files... yes
 checking for sys/types.h... yes
 checking for sys/stat.h... yes
@@ -1351,7 +1421,7 @@
 checking whether it is safe to define __EXTENSIONS__... yes
 checking for a BSD-compatible install... /usr/bin/install -c
 checking whether build environment is sane... yes
-checking for a thread-safe mkdir -p... /bin/mkdir -p
+checking for a thread-safe mkdir -p... /usr/bin/mkdir -p
 checking for gawk... no
 checking for mawk... mawk
 checking whether make sets $(MAKE)... yes
@@ -1373,8 +1443,8 @@
 checking build system type... i686-pc-linux-gnu
 checking host system type... i686-pc-linux-gnu
 checking how to print strings... printf
-checking for a sed that does not truncate output... /bin/sed
-checking for fgrep... /bin/grep -F
+checking for a sed that does not truncate output... /usr/bin/sed
+checking for fgrep... /usr/bin/grep -F
 checking for ld used by gcc... /usr/bin/ld
 checking if the linker (/usr/bin/ld) is GNU ld... yes
 checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
@@ -1394,8 +1464,8 @@
 checking for ranlib... (cached) ranlib
 checking command to parse /usr/bin/nm -B output from gcc object... ok
 checking for sysroot... no
-checking for a working dd... /bin/dd
-checking how to truncate binary pipes... /bin/dd bs=4096 count=1
+checking for a working dd... /usr/bin/dd
+checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1
 checking for mt... no
 checking if : is a manifest tool... no
 checking for dlfcn.h... yes
@@ -1496,7 +1566,7 @@
 configure: General Information:
 configure:                Version: 3.3
 configure:          Configured on: 
-configure:          Configured by: pbuilder1
+configure:          Configured by: pbuilder2
 configure:            Host system: i686-pc-linux-gnu
 configure:      Uname information: 
 configure:     Installation point: /usr
@@ -1505,7 +1575,7 @@
 configure:                LDFLAGS: -Wl,-z,relro -Wl,-z,now
 configure:             SIMD flags: 
 configure: ---------------------------------------------------------
-	make -j18
+	make -j10
 make[2]: Entering directory '/build/kalign-3.3'
 Making all in src
 make[3]: Entering directory '/build/kalign-3.3/src'
@@ -1534,15 +1604,19 @@
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse4.1 -c -o aln_run.o aln_run.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse4.1 -c -o aln_controller.o aln_controller.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse4.1 -c -o aln_seqseq.o aln_seqseq.c
+euclidean_dist.c: In function 'hsum256_ps_avx':
+euclidean_dist.c:193:7: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6
+  193 | float hsum256_ps_avx(__m256 v)
+      |       ^~~~~~~~~~~~~~
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse4.1 -c -o aln_seqprofile.o aln_seqprofile.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse4.1 -c -o aln_profileprofile.o aln_profileprofile.c
+bpm.c: In function 'add256':
+bpm.c:590:9: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6
+  590 | __m256i add256(uint32_t carry, __m256i A, __m256i B)
+      |         ^~~~~~
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse4.1 -c -o queue.o queue.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse4.1 -c -o kchaos.o kchaos.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse4.1 -c -o time_and_score_aln.o time_and_score_aln.c
-euclidean_dist.c: In function 'hsum256_ps_avx':
-euclidean_dist.c:193:7: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6
-  193 | float hsum256_ps_avx(__m256 v)
-      |       ^~~~~~~~~~~~~~
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse4.1 -c -o benchrunner.o benchrunner.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse4.1 -c -o create_run_cmds.o create_run_cmds.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse4.1 -c -o create_run_kalign_diff_cmds.o create_run_kalign_diff_cmds.c
@@ -1561,10 +1635,6 @@
       |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    68 |        __bos (__s), __fmt, __va_arg_pack ());
       |        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-bpm.c: In function 'add256':
-bpm.c:590:9: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6
-  590 | __m256i add256(uint32_t carry, __m256i A, __m256i B)
-      |         ^~~~~~
 create_run_kalign_diff_cmds.c: In function 'main':
 create_run_kalign_diff_cmds.c:158:42: warning: '%s' directive output may be truncated writing up to 8191 bytes into a region of size 512 [-Wformat-truncation=]
   158 |                 snprintf(filename, 512, "%s", ret);
@@ -1633,18 +1703,18 @@
       |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    68 |        __bos (__s), __fmt, __va_arg_pack ());
       |        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse4.1 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kalign run_kalign.o idata.o tldevel.o tlmisc.o esl_stopwatch.o tlrng.o parameters.o alphabet.o alignment_parameters.o pick_anchor.o bisectingKmeans.o sequence_distance.o euclidean_dist.o weave_alignment.o rwalign.o misc.o bpm.o aln_task.o aln_mem.o aln_setup.o aln_run.o aln_controller.o aln_seqseq.o aln_seqprofile.o aln_profileprofile.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse4.1 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse4.1 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o timescorealn tldevel.o tlmisc.o esl_stopwatch.o time_and_score_aln.o parameters.o alphabet.o rwalign.o misc.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse4.1 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse4.1 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genruncmds tldevel.o create_run_cmds.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse4.1 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genkaligndiffcmds tldevel.o tlmisc.o create_run_kalign_diff_cmds.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse4.1 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kalign run_kalign.o idata.o tldevel.o tlmisc.o esl_stopwatch.o tlrng.o parameters.o alphabet.o alignment_parameters.o pick_anchor.o bisectingKmeans.o sequence_distance.o euclidean_dist.o weave_alignment.o rwalign.o misc.o bpm.o aln_task.o aln_mem.o aln_setup.o aln_run.o aln_controller.o aln_seqseq.o aln_seqprofile.o aln_profileprofile.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse4.1 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse4.1 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o timescorealn tldevel.o tlmisc.o esl_stopwatch.o time_and_score_aln.o parameters.o alphabet.o rwalign.o misc.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse4.1 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse4.1 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genruncmds tldevel.o create_run_cmds.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse4.1 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genkaligndiffcmds tldevel.o tlmisc.o create_run_kalign_diff_cmds.o  -lpthread -lm 
+libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse4.1 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm -fopenmp
+libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse4.1 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm -fopenmp
+libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse4.1 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o genkaligndiffcmds tldevel.o tlmisc.o create_run_kalign_diff_cmds.o  -lpthread -lm -fopenmp
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse4.1 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o genruncmds tldevel.o create_run_cmds.o  -lpthread -lm -fopenmp
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse4.1 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o timescorealn tldevel.o tlmisc.o esl_stopwatch.o time_and_score_aln.o parameters.o alphabet.o rwalign.o misc.o  -lpthread -lm -fopenmp
-libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse4.1 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm -fopenmp
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse4.1 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o kalign run_kalign.o idata.o tldevel.o tlmisc.o esl_stopwatch.o tlrng.o parameters.o alphabet.o alignment_parameters.o pick_anchor.o bisectingKmeans.o sequence_distance.o euclidean_dist.o weave_alignment.o rwalign.o misc.o bpm.o aln_task.o aln_mem.o aln_setup.o aln_run.o aln_controller.o aln_seqseq.o aln_seqprofile.o aln_profileprofile.o  -lpthread -lm -fopenmp
-libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse4.1 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm -fopenmp
-libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse4.1 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o genkaligndiffcmds tldevel.o tlmisc.o create_run_kalign_diff_cmds.o  -lpthread -lm -fopenmp
 make[4]: Leaving directory '/build/kalign-3.3/src'
 make[3]: Leaving directory '/build/kalign-3.3/src'
 Making all in dev
@@ -1692,8 +1762,8 @@
 checking for gcc option to accept ISO C89... none needed
 checking whether gcc understands -c and -o together... yes
 checking how to run the C preprocessor... gcc -E
-checking for grep that handles long lines and -e... /bin/grep
-checking for egrep... /bin/grep -E
+checking for grep that handles long lines and -e... /usr/bin/grep
+checking for egrep... /usr/bin/grep -E
 checking for ANSI C header files... yes
 checking for sys/types.h... yes
 checking for sys/stat.h... yes
@@ -1710,7 +1780,7 @@
 checking whether it is safe to define __EXTENSIONS__... yes
 checking for a BSD-compatible install... /usr/bin/install -c
 checking whether build environment is sane... yes
-checking for a thread-safe mkdir -p... /bin/mkdir -p
+checking for a thread-safe mkdir -p... /usr/bin/mkdir -p
 checking for gawk... no
 checking for mawk... mawk
 checking whether make sets $(MAKE)... yes
@@ -1732,8 +1802,8 @@
 checking build system type... i686-pc-linux-gnu
 checking host system type... i686-pc-linux-gnu
 checking how to print strings... printf
-checking for a sed that does not truncate output... /bin/sed
-checking for fgrep... /bin/grep -F
+checking for a sed that does not truncate output... /usr/bin/sed
+checking for fgrep... /usr/bin/grep -F
 checking for ld used by gcc... /usr/bin/ld
 checking if the linker (/usr/bin/ld) is GNU ld... yes
 checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
@@ -1753,8 +1823,8 @@
 checking for ranlib... (cached) ranlib
 checking command to parse /usr/bin/nm -B output from gcc object... ok
 checking for sysroot... no
-checking for a working dd... /bin/dd
-checking how to truncate binary pipes... /bin/dd bs=4096 count=1
+checking for a working dd... /usr/bin/dd
+checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1
 checking for mt... no
 checking if : is a manifest tool... no
 checking for dlfcn.h... yes
@@ -1855,7 +1925,7 @@
 configure: General Information:
 configure:                Version: 3.3
 configure:          Configured on: 
-configure:          Configured by: pbuilder1
+configure:          Configured by: pbuilder2
 configure:            Host system: i686-pc-linux-gnu
 configure:      Uname information: 
 configure:     Installation point: /usr
@@ -1864,7 +1934,7 @@
 configure:                LDFLAGS: -Wl,-z,relro -Wl,-z,now
 configure:             SIMD flags: 
 configure: ---------------------------------------------------------
-	make -j18
+	make -j10
 make[2]: Entering directory '/build/kalign-3.3'
 Making all in src
 make[3]: Entering directory '/build/kalign-3.3/src'
@@ -1889,22 +1959,25 @@
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mssse3 -c -o bpm.o bpm.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mssse3 -c -o aln_task.o aln_task.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mssse3 -c -o aln_mem.o aln_mem.c
+euclidean_dist.c: In function 'hsum256_ps_avx':
+euclidean_dist.c:193:7: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6
+  193 | float hsum256_ps_avx(__m256 v)
+      |       ^~~~~~~~~~~~~~
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mssse3 -c -o aln_setup.o aln_setup.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mssse3 -c -o aln_run.o aln_run.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mssse3 -c -o aln_controller.o aln_controller.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mssse3 -c -o aln_seqseq.o aln_seqseq.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mssse3 -c -o aln_seqprofile.o aln_seqprofile.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mssse3 -c -o aln_profileprofile.o aln_profileprofile.c
+bpm.c: In function 'add256':
+bpm.c:590:9: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6
+  590 | __m256i add256(uint32_t carry, __m256i A, __m256i B)
+      |         ^~~~~~
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mssse3 -c -o queue.o queue.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mssse3 -c -o kchaos.o kchaos.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mssse3 -c -o time_and_score_aln.o time_and_score_aln.c
-euclidean_dist.c: In function 'hsum256_ps_avx':
-euclidean_dist.c:193:7: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6
-  193 | float hsum256_ps_avx(__m256 v)
-      |       ^~~~~~~~~~~~~~
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mssse3 -c -o benchrunner.o benchrunner.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mssse3 -c -o create_run_cmds.o create_run_cmds.c
-gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mssse3 -c -o create_run_kalign_diff_cmds.o create_run_kalign_diff_cmds.c
 create_run_cmds.c: In function 'main':
 create_run_cmds.c:54:164: warning: '%s' directive output may be truncated writing up to 8191 bytes into a region of size between 6845 and 8101 [-Wformat-truncation=]
    54 |                                                 rc = snprintf(out, BUFSIZ, "benchrunner --scratch ~/tmp --gpo %f -gpe %f -tgpe %f -matadd %f -program kalign -test %s -ref %s -o big_run_out.csv -u %d \n", gpo,gpe,tgpe,matadd, ret,ret,  i << 12| j << 8 | c << 4 | f);
@@ -1920,10 +1993,7 @@
       |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    68 |        __bos (__s), __fmt, __va_arg_pack ());
       |        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-bpm.c: In function 'add256':
-bpm.c:590:9: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6
-  590 | __m256i add256(uint32_t carry, __m256i A, __m256i B)
-      |         ^~~~~~
+gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mssse3 -c -o create_run_kalign_diff_cmds.o create_run_kalign_diff_cmds.c
 create_run_kalign_diff_cmds.c: In function 'main':
 create_run_kalign_diff_cmds.c:158:42: warning: '%s' directive output may be truncated writing up to 8191 bytes into a region of size 512 [-Wformat-truncation=]
   158 |                 snprintf(filename, 512, "%s", ret);
@@ -1992,18 +2062,18 @@
       |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    68 |        __bos (__s), __fmt, __va_arg_pack ());
       |        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mssse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kalign run_kalign.o idata.o tldevel.o tlmisc.o esl_stopwatch.o tlrng.o parameters.o alphabet.o alignment_parameters.o pick_anchor.o bisectingKmeans.o sequence_distance.o euclidean_dist.o weave_alignment.o rwalign.o misc.o bpm.o aln_task.o aln_mem.o aln_setup.o aln_run.o aln_controller.o aln_seqseq.o aln_seqprofile.o aln_profileprofile.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mssse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mssse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o timescorealn tldevel.o tlmisc.o esl_stopwatch.o time_and_score_aln.o parameters.o alphabet.o rwalign.o misc.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mssse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mssse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genruncmds tldevel.o create_run_cmds.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mssse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genkaligndiffcmds tldevel.o tlmisc.o create_run_kalign_diff_cmds.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mssse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mssse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genruncmds tldevel.o create_run_cmds.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mssse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genkaligndiffcmds tldevel.o tlmisc.o create_run_kalign_diff_cmds.o  -lpthread -lm 
+libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -mssse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm -fopenmp
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mssse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kalign run_kalign.o idata.o tldevel.o tlmisc.o esl_stopwatch.o tlrng.o parameters.o alphabet.o alignment_parameters.o pick_anchor.o bisectingKmeans.o sequence_distance.o euclidean_dist.o weave_alignment.o rwalign.o misc.o bpm.o aln_task.o aln_mem.o aln_setup.o aln_run.o aln_controller.o aln_seqseq.o aln_seqprofile.o aln_profileprofile.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mssse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o timescorealn tldevel.o tlmisc.o esl_stopwatch.o time_and_score_aln.o parameters.o alphabet.o rwalign.o misc.o  -lpthread -lm 
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -mssse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o genkaligndiffcmds tldevel.o tlmisc.o create_run_kalign_diff_cmds.o  -lpthread -lm -fopenmp
-libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -mssse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o timescorealn tldevel.o tlmisc.o esl_stopwatch.o time_and_score_aln.o parameters.o alphabet.o rwalign.o misc.o  -lpthread -lm -fopenmp
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -mssse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm 
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -mssse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o genruncmds tldevel.o create_run_cmds.o  -lpthread -lm -fopenmp
-libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -mssse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm -fopenmp
-libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -mssse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm -fopenmp
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -mssse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o kalign run_kalign.o idata.o tldevel.o tlmisc.o esl_stopwatch.o tlrng.o parameters.o alphabet.o alignment_parameters.o pick_anchor.o bisectingKmeans.o sequence_distance.o euclidean_dist.o weave_alignment.o rwalign.o misc.o bpm.o aln_task.o aln_mem.o aln_setup.o aln_run.o aln_controller.o aln_seqseq.o aln_seqprofile.o aln_profileprofile.o  -lpthread -lm -fopenmp
+libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -mssse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o timescorealn tldevel.o tlmisc.o esl_stopwatch.o time_and_score_aln.o parameters.o alphabet.o rwalign.o misc.o  -lpthread -lm -fopenmp
+libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -mssse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm -fopenmp
 make[4]: Leaving directory '/build/kalign-3.3/src'
 make[3]: Leaving directory '/build/kalign-3.3/src'
 Making all in dev
@@ -2051,8 +2121,8 @@
 checking for gcc option to accept ISO C89... none needed
 checking whether gcc understands -c and -o together... yes
 checking how to run the C preprocessor... gcc -E
-checking for grep that handles long lines and -e... /bin/grep
-checking for egrep... /bin/grep -E
+checking for grep that handles long lines and -e... /usr/bin/grep
+checking for egrep... /usr/bin/grep -E
 checking for ANSI C header files... yes
 checking for sys/types.h... yes
 checking for sys/stat.h... yes
@@ -2069,7 +2139,7 @@
 checking whether it is safe to define __EXTENSIONS__... yes
 checking for a BSD-compatible install... /usr/bin/install -c
 checking whether build environment is sane... yes
-checking for a thread-safe mkdir -p... /bin/mkdir -p
+checking for a thread-safe mkdir -p... /usr/bin/mkdir -p
 checking for gawk... no
 checking for mawk... mawk
 checking whether make sets $(MAKE)... yes
@@ -2091,8 +2161,8 @@
 checking build system type... i686-pc-linux-gnu
 checking host system type... i686-pc-linux-gnu
 checking how to print strings... printf
-checking for a sed that does not truncate output... /bin/sed
-checking for fgrep... /bin/grep -F
+checking for a sed that does not truncate output... /usr/bin/sed
+checking for fgrep... /usr/bin/grep -F
 checking for ld used by gcc... /usr/bin/ld
 checking if the linker (/usr/bin/ld) is GNU ld... yes
 checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
@@ -2112,8 +2182,8 @@
 checking for ranlib... (cached) ranlib
 checking command to parse /usr/bin/nm -B output from gcc object... ok
 checking for sysroot... no
-checking for a working dd... /bin/dd
-checking how to truncate binary pipes... /bin/dd bs=4096 count=1
+checking for a working dd... /usr/bin/dd
+checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1
 checking for mt... no
 checking if : is a manifest tool... no
 checking for dlfcn.h... yes
@@ -2214,7 +2284,7 @@
 configure: General Information:
 configure:                Version: 3.3
 configure:          Configured on: 
-configure:          Configured by: pbuilder1
+configure:          Configured by: pbuilder2
 configure:            Host system: i686-pc-linux-gnu
 configure:      Uname information: 
 configure:     Installation point: /usr
@@ -2223,7 +2293,7 @@
 configure:                LDFLAGS: -Wl,-z,relro -Wl,-z,now
 configure:             SIMD flags: 
 configure: ---------------------------------------------------------
-	make -j18
+	make -j10
 make[2]: Entering directory '/build/kalign-3.3'
 Making all in src
 make[3]: Entering directory '/build/kalign-3.3/src'
@@ -2247,6 +2317,10 @@
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse3 -c -o misc.o misc.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse3 -c -o bpm.o bpm.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse3 -c -o aln_task.o aln_task.c
+euclidean_dist.c: In function 'hsum256_ps_avx':
+euclidean_dist.c:193:7: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6
+  193 | float hsum256_ps_avx(__m256 v)
+      |       ^~~~~~~~~~~~~~
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse3 -c -o aln_mem.o aln_mem.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse3 -c -o aln_setup.o aln_setup.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse3 -c -o aln_run.o aln_run.c
@@ -2254,13 +2328,13 @@
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse3 -c -o aln_seqseq.o aln_seqseq.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse3 -c -o aln_seqprofile.o aln_seqprofile.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse3 -c -o aln_profileprofile.o aln_profileprofile.c
+bpm.c: In function 'add256':
+bpm.c:590:9: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6
+  590 | __m256i add256(uint32_t carry, __m256i A, __m256i B)
+      |         ^~~~~~
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse3 -c -o queue.o queue.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse3 -c -o kchaos.o kchaos.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse3 -c -o time_and_score_aln.o time_and_score_aln.c
-euclidean_dist.c: In function 'hsum256_ps_avx':
-euclidean_dist.c:193:7: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6
-  193 | float hsum256_ps_avx(__m256 v)
-      |       ^~~~~~~~~~~~~~
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse3 -c -o benchrunner.o benchrunner.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse3 -c -o create_run_cmds.o create_run_cmds.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse3 -c -o create_run_kalign_diff_cmds.o create_run_kalign_diff_cmds.c
@@ -2347,20 +2421,16 @@
       |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    68 |        __bos (__s), __fmt, __va_arg_pack ());
       |        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-bpm.c: In function 'add256':
-bpm.c:590:9: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6
-  590 | __m256i add256(uint32_t carry, __m256i A, __m256i B)
-      |         ^~~~~~
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kalign run_kalign.o idata.o tldevel.o tlmisc.o esl_stopwatch.o tlrng.o parameters.o alphabet.o alignment_parameters.o pick_anchor.o bisectingKmeans.o sequence_distance.o euclidean_dist.o weave_alignment.o rwalign.o misc.o bpm.o aln_task.o aln_mem.o aln_setup.o aln_run.o aln_controller.o aln_seqseq.o aln_seqprofile.o aln_profileprofile.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o timescorealn tldevel.o tlmisc.o esl_stopwatch.o time_and_score_aln.o parameters.o alphabet.o rwalign.o misc.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genruncmds tldevel.o create_run_cmds.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genkaligndiffcmds tldevel.o tlmisc.o create_run_kalign_diff_cmds.o  -lpthread -lm 
-libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm -fopenmp
-libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o genkaligndiffcmds tldevel.o tlmisc.o create_run_kalign_diff_cmds.o  -lpthread -lm -fopenmp
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genruncmds tldevel.o create_run_cmds.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genkaligndiffcmds tldevel.o tlmisc.o create_run_kalign_diff_cmds.o  -lpthread -lm 
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm -fopenmp
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o genruncmds tldevel.o create_run_cmds.o  -lpthread -lm -fopenmp
+libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o genkaligndiffcmds tldevel.o tlmisc.o create_run_kalign_diff_cmds.o  -lpthread -lm -fopenmp
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kalign run_kalign.o idata.o tldevel.o tlmisc.o esl_stopwatch.o tlrng.o parameters.o alphabet.o alignment_parameters.o pick_anchor.o bisectingKmeans.o sequence_distance.o euclidean_dist.o weave_alignment.o rwalign.o misc.o bpm.o aln_task.o aln_mem.o aln_setup.o aln_run.o aln_controller.o aln_seqseq.o aln_seqprofile.o aln_profileprofile.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o timescorealn tldevel.o tlmisc.o esl_stopwatch.o time_and_score_aln.o parameters.o alphabet.o rwalign.o misc.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm 
+libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm -fopenmp
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o timescorealn tldevel.o tlmisc.o esl_stopwatch.o time_and_score_aln.o parameters.o alphabet.o rwalign.o misc.o  -lpthread -lm -fopenmp
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse3 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o kalign run_kalign.o idata.o tldevel.o tlmisc.o esl_stopwatch.o tlrng.o parameters.o alphabet.o alignment_parameters.o pick_anchor.o bisectingKmeans.o sequence_distance.o euclidean_dist.o weave_alignment.o rwalign.o misc.o bpm.o aln_task.o aln_mem.o aln_setup.o aln_run.o aln_controller.o aln_seqseq.o aln_seqprofile.o aln_profileprofile.o  -lpthread -lm -fopenmp
 make[4]: Leaving directory '/build/kalign-3.3/src'
@@ -2413,8 +2483,8 @@
 checking for gcc option to accept ISO C89... none needed
 checking whether gcc understands -c and -o together... yes
 checking how to run the C preprocessor... gcc -E
-checking for grep that handles long lines and -e... /bin/grep
-checking for egrep... /bin/grep -E
+checking for grep that handles long lines and -e... /usr/bin/grep
+checking for egrep... /usr/bin/grep -E
 checking for ANSI C header files... yes
 checking for sys/types.h... yes
 checking for sys/stat.h... yes
@@ -2431,7 +2501,7 @@
 checking whether it is safe to define __EXTENSIONS__... yes
 checking for a BSD-compatible install... /usr/bin/install -c
 checking whether build environment is sane... yes
-checking for a thread-safe mkdir -p... /bin/mkdir -p
+checking for a thread-safe mkdir -p... /usr/bin/mkdir -p
 checking for gawk... no
 checking for mawk... mawk
 checking whether make sets $(MAKE)... yes
@@ -2453,8 +2523,8 @@
 checking build system type... i686-pc-linux-gnu
 checking host system type... i686-pc-linux-gnu
 checking how to print strings... printf
-checking for a sed that does not truncate output... /bin/sed
-checking for fgrep... /bin/grep -F
+checking for a sed that does not truncate output... /usr/bin/sed
+checking for fgrep... /usr/bin/grep -F
 checking for ld used by gcc... /usr/bin/ld
 checking if the linker (/usr/bin/ld) is GNU ld... yes
 checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
@@ -2474,8 +2544,8 @@
 checking for ranlib... (cached) ranlib
 checking command to parse /usr/bin/nm -B output from gcc object... ok
 checking for sysroot... no
-checking for a working dd... /bin/dd
-checking how to truncate binary pipes... /bin/dd bs=4096 count=1
+checking for a working dd... /usr/bin/dd
+checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1
 checking for mt... no
 checking if : is a manifest tool... no
 checking for dlfcn.h... yes
@@ -2576,7 +2646,7 @@
 configure: General Information:
 configure:                Version: 3.3
 configure:          Configured on: 
-configure:          Configured by: pbuilder1
+configure:          Configured by: pbuilder2
 configure:            Host system: i686-pc-linux-gnu
 configure:      Uname information: 
 configure:     Installation point: /usr
@@ -2585,7 +2655,7 @@
 configure:                LDFLAGS: -Wl,-z,relro -Wl,-z,now
 configure:             SIMD flags: 
 configure: ---------------------------------------------------------
-	make -j18
+	make -j10
 make[2]: Entering directory '/build/kalign-3.3'
 Making all in src
 make[3]: Entering directory '/build/kalign-3.3/src'
@@ -2612,20 +2682,23 @@
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -c -o aln_mem.o aln_mem.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -c -o aln_setup.o aln_setup.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -c -o aln_run.o aln_run.c
+euclidean_dist.c: In function 'hsum256_ps_avx':
+euclidean_dist.c:193:7: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6
+  193 | float hsum256_ps_avx(__m256 v)
+      |       ^~~~~~~~~~~~~~
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -c -o aln_controller.o aln_controller.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -c -o aln_seqseq.o aln_seqseq.c
+bpm.c: In function 'add256':
+bpm.c:590:9: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6
+  590 | __m256i add256(uint32_t carry, __m256i A, __m256i B)
+      |         ^~~~~~
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -c -o aln_seqprofile.o aln_seqprofile.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -c -o aln_profileprofile.o aln_profileprofile.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -c -o queue.o queue.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -c -o kchaos.o kchaos.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -c -o time_and_score_aln.o time_and_score_aln.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -c -o benchrunner.o benchrunner.c
-euclidean_dist.c: In function 'hsum256_ps_avx':
-euclidean_dist.c:193:7: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6
-  193 | float hsum256_ps_avx(__m256 v)
-      |       ^~~~~~~~~~~~~~
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -c -o create_run_cmds.o create_run_cmds.c
-gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -c -o create_run_kalign_diff_cmds.o create_run_kalign_diff_cmds.c
 create_run_cmds.c: In function 'main':
 create_run_cmds.c:54:164: warning: '%s' directive output may be truncated writing up to 8191 bytes into a region of size between 6845 and 8101 [-Wformat-truncation=]
    54 |                                                 rc = snprintf(out, BUFSIZ, "benchrunner --scratch ~/tmp --gpo %f -gpe %f -tgpe %f -matadd %f -program kalign -test %s -ref %s -o big_run_out.csv -u %d \n", gpo,gpe,tgpe,matadd, ret,ret,  i << 12| j << 8 | c << 4 | f);
@@ -2641,6 +2714,7 @@
       |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    68 |        __bos (__s), __fmt, __va_arg_pack ());
       |        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -c -o create_run_kalign_diff_cmds.o create_run_kalign_diff_cmds.c
 create_run_kalign_diff_cmds.c: In function 'main':
 create_run_kalign_diff_cmds.c:158:42: warning: '%s' directive output may be truncated writing up to 8191 bytes into a region of size 512 [-Wformat-truncation=]
   158 |                 snprintf(filename, 512, "%s", ret);
@@ -2709,19 +2783,15 @@
       |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    68 |        __bos (__s), __fmt, __va_arg_pack ());
       |        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-bpm.c: In function 'add256':
-bpm.c:590:9: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6
-  590 | __m256i add256(uint32_t carry, __m256i A, __m256i B)
-      |         ^~~~~~
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genruncmds tldevel.o create_run_cmds.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genkaligndiffcmds tldevel.o tlmisc.o create_run_kalign_diff_cmds.o  -lpthread -lm 
-libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm -fopenmp
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genruncmds tldevel.o create_run_cmds.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genkaligndiffcmds tldevel.o tlmisc.o create_run_kalign_diff_cmds.o  -lpthread -lm 
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o genruncmds tldevel.o create_run_cmds.o  -lpthread -lm -fopenmp
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o genkaligndiffcmds tldevel.o tlmisc.o create_run_kalign_diff_cmds.o  -lpthread -lm -fopenmp
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kalign run_kalign.o idata.o tldevel.o tlmisc.o esl_stopwatch.o tlrng.o parameters.o alphabet.o alignment_parameters.o pick_anchor.o bisectingKmeans.o sequence_distance.o euclidean_dist.o weave_alignment.o rwalign.o misc.o bpm.o aln_task.o aln_mem.o aln_setup.o aln_run.o aln_controller.o aln_seqseq.o aln_seqprofile.o aln_profileprofile.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o timescorealn tldevel.o tlmisc.o esl_stopwatch.o time_and_score_aln.o parameters.o alphabet.o rwalign.o misc.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm 
+libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm -fopenmp
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kalign run_kalign.o idata.o tldevel.o tlmisc.o esl_stopwatch.o tlrng.o parameters.o alphabet.o alignment_parameters.o pick_anchor.o bisectingKmeans.o sequence_distance.o euclidean_dist.o weave_alignment.o rwalign.o misc.o bpm.o aln_task.o aln_mem.o aln_setup.o aln_run.o aln_controller.o aln_seqseq.o aln_seqprofile.o aln_profileprofile.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o timescorealn tldevel.o tlmisc.o esl_stopwatch.o time_and_score_aln.o parameters.o alphabet.o rwalign.o misc.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm 
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm -fopenmp
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o timescorealn tldevel.o tlmisc.o esl_stopwatch.o time_and_score_aln.o parameters.o alphabet.o rwalign.o misc.o  -lpthread -lm -fopenmp
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o kalign run_kalign.o idata.o tldevel.o tlmisc.o esl_stopwatch.o tlrng.o parameters.o alphabet.o alignment_parameters.o pick_anchor.o bisectingKmeans.o sequence_distance.o euclidean_dist.o weave_alignment.o rwalign.o misc.o bpm.o aln_task.o aln_mem.o aln_setup.o aln_run.o aln_controller.o aln_seqseq.o aln_seqprofile.o aln_profileprofile.o  -lpthread -lm -fopenmp
@@ -2773,8 +2843,8 @@
 checking for gcc option to accept ISO C89... none needed
 checking whether gcc understands -c and -o together... yes
 checking how to run the C preprocessor... gcc -E
-checking for grep that handles long lines and -e... /bin/grep
-checking for egrep... /bin/grep -E
+checking for grep that handles long lines and -e... /usr/bin/grep
+checking for egrep... /usr/bin/grep -E
 checking for ANSI C header files... yes
 checking for sys/types.h... yes
 checking for sys/stat.h... yes
@@ -2791,7 +2861,7 @@
 checking whether it is safe to define __EXTENSIONS__... yes
 checking for a BSD-compatible install... /usr/bin/install -c
 checking whether build environment is sane... yes
-checking for a thread-safe mkdir -p... /bin/mkdir -p
+checking for a thread-safe mkdir -p... /usr/bin/mkdir -p
 checking for gawk... no
 checking for mawk... mawk
 checking whether make sets $(MAKE)... yes
@@ -2813,8 +2883,8 @@
 checking build system type... i686-pc-linux-gnu
 checking host system type... i686-pc-linux-gnu
 checking how to print strings... printf
-checking for a sed that does not truncate output... /bin/sed
-checking for fgrep... /bin/grep -F
+checking for a sed that does not truncate output... /usr/bin/sed
+checking for fgrep... /usr/bin/grep -F
 checking for ld used by gcc... /usr/bin/ld
 checking if the linker (/usr/bin/ld) is GNU ld... yes
 checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
@@ -2834,8 +2904,8 @@
 checking for ranlib... (cached) ranlib
 checking command to parse /usr/bin/nm -B output from gcc object... ok
 checking for sysroot... no
-checking for a working dd... /bin/dd
-checking how to truncate binary pipes... /bin/dd bs=4096 count=1
+checking for a working dd... /usr/bin/dd
+checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1
 checking for mt... no
 checking if : is a manifest tool... no
 checking for dlfcn.h... yes
@@ -2936,7 +3006,7 @@
 configure: General Information:
 configure:                Version: 3.3
 configure:          Configured on: 
-configure:          Configured by: pbuilder1
+configure:          Configured by: pbuilder2
 configure:            Host system: i686-pc-linux-gnu
 configure:      Uname information: 
 configure:     Installation point: /usr
@@ -2945,7 +3015,7 @@
 configure:                LDFLAGS: -Wl,-z,relro -Wl,-z,now
 configure:             SIMD flags: 
 configure: ---------------------------------------------------------
-	make -j18
+	make -j10
 make[2]: Entering directory '/build/kalign-3.3'
 Making all in src
 make[3]: Entering directory '/build/kalign-3.3/src'
@@ -2967,6 +3037,10 @@
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse2 -c -o weave_alignment.o weave_alignment.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse2 -c -o rwalign.o rwalign.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse2 -c -o misc.o misc.c
+euclidean_dist.c: In function 'hsum256_ps_avx':
+euclidean_dist.c:193:7: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6
+  193 | float hsum256_ps_avx(__m256 v)
+      |       ^~~~~~~~~~~~~~
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse2 -c -o bpm.o bpm.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse2 -c -o aln_task.o aln_task.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse2 -c -o aln_mem.o aln_mem.c
@@ -2976,13 +3050,13 @@
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse2 -c -o aln_seqseq.o aln_seqseq.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse2 -c -o aln_seqprofile.o aln_seqprofile.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse2 -c -o aln_profileprofile.o aln_profileprofile.c
+bpm.c: In function 'add256':
+bpm.c:590:9: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6
+  590 | __m256i add256(uint32_t carry, __m256i A, __m256i B)
+      |         ^~~~~~
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse2 -c -o queue.o queue.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse2 -c -o kchaos.o kchaos.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse2 -c -o time_and_score_aln.o time_and_score_aln.c
-euclidean_dist.c: In function 'hsum256_ps_avx':
-euclidean_dist.c:193:7: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6
-  193 | float hsum256_ps_avx(__m256 v)
-      |       ^~~~~~~~~~~~~~
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse2 -c -o benchrunner.o benchrunner.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse2 -c -o create_run_cmds.o create_run_cmds.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse2 -c -o create_run_kalign_diff_cmds.o create_run_kalign_diff_cmds.c
@@ -3069,22 +3143,18 @@
       |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    68 |        __bos (__s), __fmt, __va_arg_pack ());
       |        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-bpm.c: In function 'add256':
-bpm.c:590:9: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6
-  590 | __m256i add256(uint32_t carry, __m256i A, __m256i B)
-      |         ^~~~~~
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kalign run_kalign.o idata.o tldevel.o tlmisc.o esl_stopwatch.o tlrng.o parameters.o alphabet.o alignment_parameters.o pick_anchor.o bisectingKmeans.o sequence_distance.o euclidean_dist.o weave_alignment.o rwalign.o misc.o bpm.o aln_task.o aln_mem.o aln_setup.o aln_run.o aln_controller.o aln_seqseq.o aln_seqprofile.o aln_profileprofile.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o timescorealn tldevel.o tlmisc.o esl_stopwatch.o time_and_score_aln.o parameters.o alphabet.o rwalign.o misc.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genruncmds tldevel.o create_run_cmds.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genkaligndiffcmds tldevel.o tlmisc.o create_run_kalign_diff_cmds.o  -lpthread -lm 
-libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm -fopenmp
-libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o genruncmds tldevel.o create_run_cmds.o  -lpthread -lm -fopenmp
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kalign run_kalign.o idata.o tldevel.o tlmisc.o esl_stopwatch.o tlrng.o parameters.o alphabet.o alignment_parameters.o pick_anchor.o bisectingKmeans.o sequence_distance.o euclidean_dist.o weave_alignment.o rwalign.o misc.o bpm.o aln_task.o aln_mem.o aln_setup.o aln_run.o aln_controller.o aln_seqseq.o aln_seqprofile.o aln_profileprofile.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o timescorealn tldevel.o tlmisc.o esl_stopwatch.o time_and_score_aln.o parameters.o alphabet.o rwalign.o misc.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genruncmds tldevel.o create_run_cmds.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genkaligndiffcmds tldevel.o tlmisc.o create_run_kalign_diff_cmds.o  -lpthread -lm 
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm -fopenmp
-libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o kalign run_kalign.o idata.o tldevel.o tlmisc.o esl_stopwatch.o tlrng.o parameters.o alphabet.o alignment_parameters.o pick_anchor.o bisectingKmeans.o sequence_distance.o euclidean_dist.o weave_alignment.o rwalign.o misc.o bpm.o aln_task.o aln_mem.o aln_setup.o aln_run.o aln_controller.o aln_seqseq.o aln_seqprofile.o aln_profileprofile.o  -lpthread -lm -fopenmp
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o genkaligndiffcmds tldevel.o tlmisc.o create_run_kalign_diff_cmds.o  -lpthread -lm -fopenmp
+libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm -fopenmp
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o timescorealn tldevel.o tlmisc.o esl_stopwatch.o time_and_score_aln.o parameters.o alphabet.o rwalign.o misc.o  -lpthread -lm -fopenmp
+libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o genruncmds tldevel.o create_run_cmds.o  -lpthread -lm -fopenmp
+libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse2 -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o kalign run_kalign.o idata.o tldevel.o tlmisc.o esl_stopwatch.o tlrng.o parameters.o alphabet.o alignment_parameters.o pick_anchor.o bisectingKmeans.o sequence_distance.o euclidean_dist.o weave_alignment.o rwalign.o misc.o bpm.o aln_task.o aln_mem.o aln_setup.o aln_run.o aln_controller.o aln_seqseq.o aln_seqprofile.o aln_profileprofile.o  -lpthread -lm -fopenmp
 make[4]: Leaving directory '/build/kalign-3.3/src'
 make[3]: Leaving directory '/build/kalign-3.3/src'
 Making all in dev
@@ -3132,8 +3202,8 @@
 checking for gcc option to accept ISO C89... none needed
 checking whether gcc understands -c and -o together... yes
 checking how to run the C preprocessor... gcc -E
-checking for grep that handles long lines and -e... /bin/grep
-checking for egrep... /bin/grep -E
+checking for grep that handles long lines and -e... /usr/bin/grep
+checking for egrep... /usr/bin/grep -E
 checking for ANSI C header files... yes
 checking for sys/types.h... yes
 checking for sys/stat.h... yes
@@ -3150,7 +3220,7 @@
 checking whether it is safe to define __EXTENSIONS__... yes
 checking for a BSD-compatible install... /usr/bin/install -c
 checking whether build environment is sane... yes
-checking for a thread-safe mkdir -p... /bin/mkdir -p
+checking for a thread-safe mkdir -p... /usr/bin/mkdir -p
 checking for gawk... no
 checking for mawk... mawk
 checking whether make sets $(MAKE)... yes
@@ -3172,8 +3242,8 @@
 checking build system type... i686-pc-linux-gnu
 checking host system type... i686-pc-linux-gnu
 checking how to print strings... printf
-checking for a sed that does not truncate output... /bin/sed
-checking for fgrep... /bin/grep -F
+checking for a sed that does not truncate output... /usr/bin/sed
+checking for fgrep... /usr/bin/grep -F
 checking for ld used by gcc... /usr/bin/ld
 checking if the linker (/usr/bin/ld) is GNU ld... yes
 checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
@@ -3193,8 +3263,8 @@
 checking for ranlib... (cached) ranlib
 checking command to parse /usr/bin/nm -B output from gcc object... ok
 checking for sysroot... no
-checking for a working dd... /bin/dd
-checking how to truncate binary pipes... /bin/dd bs=4096 count=1
+checking for a working dd... /usr/bin/dd
+checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1
 checking for mt... no
 checking if : is a manifest tool... no
 checking for dlfcn.h... yes
@@ -3295,7 +3365,7 @@
 configure: General Information:
 configure:                Version: 3.3
 configure:          Configured on: 
-configure:          Configured by: pbuilder1
+configure:          Configured by: pbuilder2
 configure:            Host system: i686-pc-linux-gnu
 configure:      Uname information: 
 configure:     Installation point: /usr
@@ -3304,7 +3374,7 @@
 configure:                LDFLAGS: -Wl,-z,relro -Wl,-z,now
 configure:             SIMD flags: 
 configure: ---------------------------------------------------------
-	make -j18
+	make -j10
 make[2]: Entering directory '/build/kalign-3.3'
 Making all in src
 make[3]: Entering directory '/build/kalign-3.3/src'
@@ -3327,6 +3397,10 @@
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -c -o rwalign.o rwalign.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -c -o misc.o misc.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -c -o bpm.o bpm.c
+euclidean_dist.c: In function 'hsum256_ps_avx':
+euclidean_dist.c:193:7: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6
+  193 | float hsum256_ps_avx(__m256 v)
+      |       ^~~~~~~~~~~~~~
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -c -o aln_task.o aln_task.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -c -o aln_mem.o aln_mem.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -c -o aln_setup.o aln_setup.c
@@ -3339,10 +3413,6 @@
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -c -o kchaos.o kchaos.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -c -o time_and_score_aln.o time_and_score_aln.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -c -o benchrunner.o benchrunner.c
-euclidean_dist.c: In function 'hsum256_ps_avx':
-euclidean_dist.c:193:7: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6
-  193 | float hsum256_ps_avx(__m256 v)
-      |       ^~~~~~~~~~~~~~
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -c -o create_run_cmds.o create_run_cmds.c
 gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -c -o create_run_kalign_diff_cmds.o create_run_kalign_diff_cmds.c
 create_run_cmds.c: In function 'main':
@@ -3432,17 +3502,17 @@
 bpm.c:590:9: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6
   590 | __m256i add256(uint32_t carry, __m256i A, __m256i B)
       |         ^~~~~~
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genruncmds tldevel.o create_run_cmds.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genkaligndiffcmds tldevel.o tlmisc.o create_run_kalign_diff_cmds.o  -lpthread -lm 
-libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o genruncmds tldevel.o create_run_cmds.o  -lpthread -lm -fopenmp
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genruncmds tldevel.o create_run_cmds.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o genkaligndiffcmds tldevel.o tlmisc.o create_run_kalign_diff_cmds.o  -lpthread -lm 
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o kchaos tldevel.o queue.o kchaos.o  -lpthread -lm -fopenmp
+libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o genruncmds tldevel.o create_run_cmds.o  -lpthread -lm -fopenmp
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o genkaligndiffcmds tldevel.o tlmisc.o create_run_kalign_diff_cmds.o  -lpthread -lm -fopenmp
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o timescorealn tldevel.o tlmisc.o esl_stopwatch.o time_and_score_aln.o parameters.o alphabet.o rwalign.o misc.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kalign run_kalign.o idata.o tldevel.o tlmisc.o esl_stopwatch.o tlrng.o parameters.o alphabet.o alignment_parameters.o pick_anchor.o bisectingKmeans.o sequence_distance.o euclidean_dist.o weave_alignment.o rwalign.o misc.o bpm.o aln_task.o aln_mem.o aln_setup.o aln_run.o aln_controller.o aln_seqseq.o aln_seqprofile.o aln_profileprofile.o  -lpthread -lm 
-libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm -fopenmp
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o timescorealn tldevel.o tlmisc.o esl_stopwatch.o time_and_score_aln.o parameters.o alphabet.o rwalign.o misc.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o kalign run_kalign.o idata.o tldevel.o tlmisc.o esl_stopwatch.o tlrng.o parameters.o alphabet.o alignment_parameters.o pick_anchor.o bisectingKmeans.o sequence_distance.o euclidean_dist.o weave_alignment.o rwalign.o misc.o bpm.o aln_task.o aln_mem.o aln_setup.o aln_run.o aln_controller.o aln_seqseq.o aln_seqprofile.o aln_profileprofile.o  -lpthread -lm 
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o timescorealn tldevel.o tlmisc.o esl_stopwatch.o time_and_score_aln.o parameters.o alphabet.o rwalign.o misc.o  -lpthread -lm -fopenmp
+libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o benchrunner benchrunner.o tldevel.o tlmisc.o rwalign.o esl_stopwatch.o alphabet.o  -lpthread -lm -fopenmp
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o kalign run_kalign.o idata.o tldevel.o tlmisc.o esl_stopwatch.o tlrng.o parameters.o alphabet.o alignment_parameters.o pick_anchor.o bisectingKmeans.o sequence_distance.o euclidean_dist.o weave_alignment.o rwalign.o misc.o bpm.o aln_task.o aln_mem.o aln_setup.o aln_run.o aln_controller.o aln_seqseq.o aln_seqprofile.o aln_profileprofile.o  -lpthread -lm -fopenmp
 make[4]: Leaving directory '/build/kalign-3.3/src'
 make[3]: Leaving directory '/build/kalign-3.3/src'
@@ -3456,7 +3526,7 @@
 make[2]: Leaving directory '/build/kalign-3.3'
 make[1]: Leaving directory '/build/kalign-3.3'
    dh_auto_test
-	make -j18 check VERBOSE=1
+	make -j10 check VERBOSE=1
 make[1]: Entering directory '/build/kalign-3.3'
 Making check in src
 make[2]: Entering directory '/build/kalign-3.3/src'
@@ -3479,10 +3549,11 @@
 gcc -DHAVE_CONFIG_H -I.   -DBPM_UTEST -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -c -o bpm_test-alphabet.o `test -f 'alphabet.c' || echo './'`alphabet.c
 gcc -DHAVE_CONFIG_H -I.   -DRWALIGN_TEST -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -c -o rwaln-tldevel.o `test -f 'tldevel.c' || echo './'`tldevel.c
 gcc -DHAVE_CONFIG_H -I.   -DRWALIGN_TEST -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -c -o rwaln-tlmisc.o `test -f 'tlmisc.c' || echo './'`tlmisc.c
+euclidean_dist.c: In function 'hsum256_ps_avx':
+euclidean_dist.c:193:7: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6
+  193 | float hsum256_ps_avx(__m256 v)
+      |       ^~~~~~~~~~~~~~
 gcc -DHAVE_CONFIG_H -I.   -DRWALIGN_TEST -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -c -o rwaln-esl_stopwatch.o `test -f 'esl_stopwatch.c' || echo './'`esl_stopwatch.c
-gcc -DHAVE_CONFIG_H -I.   -DRWALIGN_TEST -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -c -o rwaln-rwalign.o `test -f 'rwalign.c' || echo './'`rwalign.c
-gcc -DHAVE_CONFIG_H -I.   -DRWALIGN_TEST -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -c -o rwaln-alphabet.o `test -f 'alphabet.c' || echo './'`alphabet.c
-gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -c -o read_from_stdin_test.o read_from_stdin_test.c
 bpm.c: In function 'print_256':
 bpm.c:365:27: warning: format '%lu' expects argument of type 'long unsigned int', but argument 3 has type 'uint64_t' {aka 'long long unsigned int'} [-Wformat=]
   365 |         fprintf(stdout,"%lu ", debug[0]);
@@ -3499,26 +3570,25 @@
       |                                   |         uint64_t {aka long long unsigned int}
       |                                   long unsigned int
       |                                 %llu
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o rstdin_test read_from_stdin_test.o tldevel.o  -lpthread -lm 
-libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o rstdin_test read_from_stdin_test.o tldevel.o  -lpthread -lm -fopenmp
+gcc -DHAVE_CONFIG_H -I.   -DRWALIGN_TEST -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -c -o rwaln-rwalign.o `test -f 'rwalign.c' || echo './'`rwalign.c
+gcc -DHAVE_CONFIG_H -I.   -DRWALIGN_TEST -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -c -o rwaln-alphabet.o `test -f 'alphabet.c' || echo './'`alphabet.c
+gcc -DHAVE_CONFIG_H -I.   -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -c -o read_from_stdin_test.o read_from_stdin_test.c
 bpm.c: In function 'print_256':
 bpm.c:361:6: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6
   361 | void print_256(__m256i X)
       |      ^~~~~~~~~
-euclidean_dist.c: In function 'hsum256_ps_avx':
-euclidean_dist.c:193:7: note: the ABI for passing parameters with 32-byte alignment has changed in GCC 4.6
-  193 | float hsum256_ps_avx(__m256 v)
-      |       ^~~~~~~~~~~~~~
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o edist edist-tldevel.o edist-esl_stopwatch.o edist-tlrng.o edist-euclidean_dist.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o misc_test misc_test-tldevel.o misc_test-tlrng.o misc_test-misc.o misc_test-alphabet.o  -lpthread -lm 
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o alphabet alphabet-tldevel.o alphabet-alphabet.o  -lpthread -lm 
-libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o misc_test misc_test-tldevel.o misc_test-tlrng.o misc_test-misc.o misc_test-alphabet.o  -lpthread -lm -fopenmp
-libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o edist edist-tldevel.o edist-esl_stopwatch.o edist-tlrng.o edist-euclidean_dist.o  -lpthread -lm -fopenmp
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o alphabet alphabet-tldevel.o alphabet-alphabet.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o rstdin_test read_from_stdin_test.o tldevel.o  -lpthread -lm 
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o alphabet alphabet-tldevel.o alphabet-alphabet.o  -lpthread -lm -fopenmp
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o rwaln rwaln-tldevel.o rwaln-tlmisc.o rwaln-esl_stopwatch.o rwaln-rwalign.o rwaln-alphabet.o  -lpthread -lm 
-libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o rwaln rwaln-tldevel.o rwaln-tlmisc.o rwaln-esl_stopwatch.o rwaln-rwalign.o rwaln-alphabet.o  -lpthread -lm -fopenmp
-/bin/bash ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o bpm_test bpm_test-tldevel.o bpm_test-esl_stopwatch.o bpm_test-tlrng.o bpm_test-bpm.o bpm_test-alphabet.o  -lpthread -lm 
+libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o rstdin_test read_from_stdin_test.o tldevel.o  -lpthread -lm -fopenmp
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o edist edist-tldevel.o edist-esl_stopwatch.o edist-tlrng.o edist-euclidean_dist.o  -lpthread -lm 
+libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o edist edist-tldevel.o edist-esl_stopwatch.o edist-tlrng.o edist-euclidean_dist.o  -lpthread -lm -fopenmp
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o misc_test misc_test-tldevel.o misc_test-tlrng.o misc_test-misc.o misc_test-alphabet.o  -lpthread -lm 
+libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o misc_test misc_test-tldevel.o misc_test-tlrng.o misc_test-misc.o misc_test-alphabet.o  -lpthread -lm -fopenmp
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o bpm_test bpm_test-tldevel.o bpm_test-esl_stopwatch.o bpm_test-tlrng.o bpm_test-bpm.o bpm_test-alphabet.o  -lpthread -lm 
+/bin/sh ../libtool  --tag=CC   --mode=link gcc -fopenmp  -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g  -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd  -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z,relro -Wl,-z,now -o rwaln rwaln-tldevel.o rwaln-tlmisc.o rwaln-esl_stopwatch.o rwaln-rwalign.o rwaln-alphabet.o  -lpthread -lm 
 libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o bpm_test bpm_test-tldevel.o bpm_test-esl_stopwatch.o bpm_test-tlrng.o bpm_test-bpm.o bpm_test-alphabet.o  -lpthread -lm -fopenmp
+libtool: link: gcc -fopenmp -D_FORTIFY_SOURCE=2 -ffunction-sections -fdata-sections -O3 -std=gnu11 -g -fdebug-prefix-map=/build/kalign-3.3=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -msse -Wl,--gc-sections -Wl,--as-needed -Wno-undef -Wl,-z -Wl,relro -Wl,-z -Wl,now -o rwaln rwaln-tldevel.o rwaln-tlmisc.o rwaln-esl_stopwatch.o rwaln-rwalign.o rwaln-alphabet.o  -lpthread -lm -fopenmp
 make[3]: Leaving directory '/build/kalign-3.3/src'
 make  check-TESTS
 make[3]: Entering directory '/build/kalign-3.3/src'
@@ -3619,20 +3689,22 @@
 make[1]: Leaving directory '/build/kalign-3.3'
    dh_md5sums
    dh_builddeb
-dpkg-deb: building package 'kalign' in '../kalign_3.3-1_i386.deb'.
 dpkg-deb: building package 'kalign-dbgsym' in '../kalign-dbgsym_3.3-1_i386.deb'.
+dpkg-deb: building package 'kalign' in '../kalign_3.3-1_i386.deb'.
  dpkg-genbuildinfo --build=binary
  dpkg-genchanges --build=binary >../kalign_3.3-1_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)
 I: copying local configuration
+I: user script /srv/workspace/pbuilder/1422/tmp/hooks/B01_cleanup starting
+I: user script /srv/workspace/pbuilder/1422/tmp/hooks/B01_cleanup finished
 I: unmounting dev/ptmx filesystem
 I: unmounting dev/pts filesystem
 I: unmounting dev/shm filesystem
 I: unmounting proc filesystem
 I: unmounting sys filesystem
 I: cleaning the build env 
-I: removing directory /srv/workspace/pbuilder/56904 and its subdirectories
-I: Current time: Mon Jul 11 09:23:58 -12 2022
-I: pbuilder-time-stamp: 1657574638
+I: removing directory /srv/workspace/pbuilder/1422 and its subdirectories
+I: Current time: Wed Jun  9 05:08:52 +14 2021
+I: pbuilder-time-stamp: 1623164932