I: pbuilder: network access will be disabled during build I: Current time: Thu Feb 2 20:03:55 +14 2023 I: pbuilder-time-stamp: 1675317835 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [pftools_3.2.6-1.dsc] I: copying [./pftools_3.2.6.orig.tar.gz] I: copying [./pftools_3.2.6-1.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.4ODY2YCZ/trustedkeys.kbx': General error gpgv: Signature made Fri Dec 18 22:57:23 2020 +14 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./pftools_3.2.6-1.dsc dpkg-source: info: extracting pftools in pftools-3.2.6 dpkg-source: info: unpacking pftools_3.2.6.orig.tar.gz dpkg-source: info: unpacking pftools_3.2.6-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying spelling.patch dpkg-source: info: applying 0001-Harmonize-bin-env-path-Cleaning.patch dpkg-source: info: applying fix_perl_interpreter.patch dpkg-source: info: applying destdir_for_examples.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2355030/tmp/hooks/D01_modify_environment starting debug: Running on ionos15-amd64. 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/2355030/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/2355030/tmp/hooks/D02_print_environment starting I: set 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]="x86_64-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=amd64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=16' DIRSTACK=() DISTRIBUTION= EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=x86_64 HOST_ARCH=amd64 IFS=' ' INVOCATION_ID=617a656780ae44f8a2c7bac27b4d9549 LANG=C LANGUAGE=et_EE:et LC_ALL=C MACHTYPE=x86_64-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=2355030 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.P0DKRlJY5o/pbuilderrc_emR2 --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.P0DKRlJY5o/b2 --logfile b2/build.log pftools_3.2.6-1.dsc' SUDO_GID=111 SUDO_UID=106 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://85.184.249.68:3128 I: uname -a Linux i-capture-the-hostname 5.14.0-0.bpo.2-amd64 #1 SMP Debian 5.14.9-2~bpo11+1 (2021-10-10) x86_64 GNU/Linux I: ls -l /bin total 5476 -rwxr-xr-x 1 root root 1234376 Aug 5 2021 bash -rwxr-xr-x 3 root root 38984 Jul 21 2020 bunzip2 -rwxr-xr-x 3 root root 38984 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 38984 Jul 21 2020 bzip2 -rwxr-xr-x 1 root root 18424 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 43936 Sep 24 2020 cat -rwxr-xr-x 1 root root 72672 Sep 24 2020 chgrp -rwxr-xr-x 1 root root 64448 Sep 24 2020 chmod -rwxr-xr-x 1 root root 72672 Sep 24 2020 chown -rwxr-xr-x 1 root root 151168 Sep 24 2020 cp -rwxr-xr-x 1 root root 125560 Dec 11 2020 dash -rwxr-xr-x 1 root root 113664 Sep 24 2020 date -rwxr-xr-x 1 root root 80968 Sep 24 2020 dd -rwxr-xr-x 1 root root 93936 Sep 24 2020 df -rwxr-xr-x 1 root root 147176 Sep 24 2020 dir -rwxr-xr-x 1 root root 84440 Jul 29 2021 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 39712 Sep 24 2020 echo -rwxr-xr-x 1 root root 28 Nov 10 2020 egrep -rwxr-xr-x 1 root root 39680 Sep 24 2020 false -rwxr-xr-x 1 root root 28 Nov 10 2020 fgrep -rwxr-xr-x 1 root root 69032 Jul 29 2021 findmnt -rwsr-xr-x 1 root root 34896 Feb 27 2021 fusermount -rwxr-xr-x 1 root root 203072 Nov 10 2020 grep -rwxr-xr-x 2 root root 2346 Mar 3 2021 gunzip -rwxr-xr-x 1 root root 6376 Mar 3 2021 gzexe -rwxr-xr-x 1 root root 98048 Mar 3 2021 gzip -rwxr-xr-x 1 root root 22600 Nov 8 2019 hostname -rwxr-xr-x 1 root root 72840 Sep 24 2020 ln -rwxr-xr-x 1 root root 56952 Feb 8 2020 login -rwxr-xr-x 1 root root 147176 Sep 24 2020 ls -rwxr-xr-x 1 root root 149736 Jul 29 2021 lsblk -rwxr-xr-x 1 root root 85184 Sep 24 2020 mkdir -rwxr-xr-x 1 root root 76896 Sep 24 2020 mknod -rwxr-xr-x 1 root root 48064 Sep 24 2020 mktemp -rwxr-xr-x 1 root root 59632 Jul 29 2021 more -rwsr-xr-x 1 root root 55528 Jul 29 2021 mount -rwxr-xr-x 1 root root 18664 Jul 29 2021 mountpoint -rwxr-xr-x 1 root root 147080 Sep 24 2020 mv lrwxrwxrwx 1 root root 8 Nov 8 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 19 2021 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 43872 Sep 24 2020 pwd lrwxrwxrwx 1 root root 4 Aug 5 2021 rbash -> bash -rwxr-xr-x 1 root root 52032 Sep 24 2020 readlink -rwxr-xr-x 1 root root 72704 Sep 24 2020 rm -rwxr-xr-x 1 root root 52032 Sep 24 2020 rmdir -rwxr-xr-x 1 root root 27472 Sep 28 2020 run-parts -rwxr-xr-x 1 root root 122224 Dec 23 2018 sed lrwxrwxrwx 1 root root 4 Feb 2 20:04 sh -> bash lrwxrwxrwx 1 root root 4 Jan 24 05:47 sh.distrib -> dash -rwxr-xr-x 1 root root 43808 Sep 24 2020 sleep -rwxr-xr-x 1 root root 84928 Sep 24 2020 stty -rwsr-xr-x 1 root root 71912 Jul 29 2021 su -rwxr-xr-x 1 root root 39744 Sep 24 2020 sync -rwxr-xr-x 1 root root 531928 Feb 17 2021 tar -rwxr-xr-x 1 root root 14456 Sep 28 2020 tempfile -rwxr-xr-x 1 root root 101408 Sep 24 2020 touch -rwxr-xr-x 1 root root 39680 Sep 24 2020 true -rwxr-xr-x 1 root root 14328 Feb 27 2021 ulockmgr_server -rwsr-xr-x 1 root root 35040 Jul 29 2021 umount -rwxr-xr-x 1 root root 39744 Sep 24 2020 uname -rwxr-xr-x 2 root root 2346 Mar 3 2021 uncompress -rwxr-xr-x 1 root root 147176 Sep 24 2020 vdir -rwxr-xr-x 1 root root 63744 Jul 29 2021 wdctl lrwxrwxrwx 1 root root 8 Nov 8 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 3 2021 zcat -rwxr-xr-x 1 root root 1678 Mar 3 2021 zcmp -rwxr-xr-x 1 root root 5880 Mar 3 2021 zdiff -rwxr-xr-x 1 root root 29 Mar 3 2021 zegrep -rwxr-xr-x 1 root root 29 Mar 3 2021 zfgrep -rwxr-xr-x 1 root root 2081 Mar 3 2021 zforce -rwxr-xr-x 1 root root 7585 Mar 3 2021 zgrep -rwxr-xr-x 1 root root 2206 Mar 3 2021 zless -rwxr-xr-x 1 root root 1842 Mar 3 2021 zmore -rwxr-xr-x 1 root root 4553 Mar 3 2021 znew I: user script /srv/workspace/pbuilder/2355030/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), gfortran, cmake, libfile-slurp-perl, libbz2-dev, libpcre3-dev, libreadline-dev, zlib1g-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19655 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on gfortran; however: Package gfortran is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on libfile-slurp-perl; however: Package libfile-slurp-perl is not installed. pbuilder-satisfydepends-dummy depends on libbz2-dev; however: Package libbz2-dev is not installed. pbuilder-satisfydepends-dummy depends on libpcre3-dev; however: Package libpcre3-dev is not installed. pbuilder-satisfydepends-dummy depends on libreadline-dev; however: Package libreadline-dev is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} cmake{a} cmake-data{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} gfortran{a} gfortran-10{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13{a} libbrotli1{a} libbz2-dev{a} libcurl4{a} libdebhelper-perl{a} libelf1{a} libexpat1{a} libfile-slurp-perl{a} libfile-stripnondeterminism-perl{a} libgfortran-10-dev{a} libgfortran5{a} libicu67{a} libjsoncpp24{a} libldap-2.4-2{a} libmagic-mgc{a} libmagic1{a} libncurses-dev{a} libncurses6{a} libnghttp2-14{a} libpcre16-3{a} libpcre3-dev{a} libpcre32-3{a} libpcrecpp0v5{a} libpipeline1{a} libprocps8{a} libpsl5{a} libreadline-dev{a} libreadline8{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsigsegv2{a} libssh2-1{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libuv1{a} libxml2{a} m4{a} man-db{a} po-debconf{a} procps{a} readline-common{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc ca-certificates curl libarchive-cpio-perl libgpm2 libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx psmisc publicsuffix wget 0 packages upgraded, 65 newly installed, 0 to remove and 0 not upgraded. Need to get 41.7 MB of archives. After unpacking 152 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main amd64 bsdextrautils amd64 2.36.1-8 [145 kB] Get: 2 http://deb.debian.org/debian bullseye/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get: 3 http://deb.debian.org/debian bullseye/main amd64 groff-base amd64 1.22.4-6 [936 kB] Get: 4 http://deb.debian.org/debian bullseye/main amd64 libpipeline1 amd64 1.5.3-1 [34.3 kB] Get: 5 http://deb.debian.org/debian bullseye/main amd64 man-db amd64 2.9.4-2 [1354 kB] Get: 6 http://deb.debian.org/debian bullseye/main amd64 readline-common all 8.1-1 [73.7 kB] Get: 7 http://deb.debian.org/debian bullseye/main amd64 libreadline8 amd64 8.1-1 [169 kB] Get: 8 http://deb.debian.org/debian bullseye/main amd64 libncurses6 amd64 6.2+20201114-2 [102 kB] Get: 9 http://deb.debian.org/debian bullseye/main amd64 libprocps8 amd64 2:3.3.17-5 [63.9 kB] Get: 10 http://deb.debian.org/debian bullseye/main amd64 procps amd64 2:3.3.17-5 [502 kB] Get: 11 http://deb.debian.org/debian bullseye/main amd64 sensible-utils all 0.0.14 [14.8 kB] Get: 12 http://deb.debian.org/debian bullseye/main amd64 libmagic-mgc amd64 1:5.39-3 [273 kB] Get: 13 http://deb.debian.org/debian bullseye/main amd64 libmagic1 amd64 1:5.39-3 [126 kB] Get: 14 http://deb.debian.org/debian bullseye/main amd64 file amd64 1:5.39-3 [69.1 kB] Get: 15 http://deb.debian.org/debian bullseye/main amd64 gettext-base amd64 0.21-4 [175 kB] Get: 16 http://deb.debian.org/debian bullseye/main amd64 libsigsegv2 amd64 2.13-1 [34.8 kB] Get: 17 http://deb.debian.org/debian bullseye/main amd64 m4 amd64 1.4.18-5 [204 kB] Get: 18 http://deb.debian.org/debian bullseye/main amd64 autoconf all 2.69-14 [313 kB] Get: 19 http://deb.debian.org/debian bullseye/main amd64 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 20 http://deb.debian.org/debian bullseye/main amd64 automake all 1:1.16.3-2 [814 kB] Get: 21 http://deb.debian.org/debian bullseye/main amd64 autopoint all 0.21-4 [510 kB] Get: 22 http://deb.debian.org/debian bullseye/main amd64 cmake-data all 3.18.4-2+deb11u1 [1725 kB] Get: 23 http://deb.debian.org/debian bullseye/main amd64 libicu67 amd64 67.1-7 [8622 kB] Get: 24 http://deb.debian.org/debian bullseye/main amd64 libxml2 amd64 2.9.10+dfsg-6.7 [693 kB] Get: 25 http://deb.debian.org/debian bullseye/main amd64 libarchive13 amd64 3.4.3-2+b1 [343 kB] Get: 26 http://deb.debian.org/debian bullseye/main amd64 libbrotli1 amd64 1.0.9-2+b2 [279 kB] Get: 27 http://deb.debian.org/debian bullseye/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-2.1 [69.1 kB] Get: 28 http://deb.debian.org/debian bullseye/main amd64 libsasl2-2 amd64 2.1.27+dfsg-2.1 [106 kB] Get: 29 http://deb.debian.org/debian bullseye/main amd64 libldap-2.4-2 amd64 2.4.57+dfsg-3 [232 kB] Get: 30 http://deb.debian.org/debian bullseye/main amd64 libnghttp2-14 amd64 1.43.0-1 [77.1 kB] Get: 31 http://deb.debian.org/debian bullseye/main amd64 libpsl5 amd64 0.21.0-1.2 [57.3 kB] Get: 32 http://deb.debian.org/debian bullseye/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get: 33 http://deb.debian.org/debian bullseye/main amd64 libssh2-1 amd64 1.9.0-2 [156 kB] Get: 34 http://deb.debian.org/debian bullseye/main amd64 libcurl4 amd64 7.74.0-1.3+deb11u1 [341 kB] Get: 35 http://deb.debian.org/debian bullseye/main amd64 libexpat1 amd64 2.2.10-2 [96.9 kB] Get: 36 http://deb.debian.org/debian bullseye/main amd64 libjsoncpp24 amd64 1.9.4-4 [78.9 kB] Get: 37 http://deb.debian.org/debian bullseye/main amd64 librhash0 amd64 1.4.1-2 [129 kB] Get: 38 http://deb.debian.org/debian bullseye/main amd64 libuv1 amd64 1.40.0-2 [132 kB] Get: 39 http://deb.debian.org/debian bullseye/main amd64 cmake amd64 3.18.4-2+deb11u1 [5593 kB] Get: 40 http://deb.debian.org/debian bullseye/main amd64 libdebhelper-perl all 13.3.4 [189 kB] Get: 41 http://deb.debian.org/debian bullseye/main amd64 libtool all 2.4.6-15 [513 kB] Get: 42 http://deb.debian.org/debian bullseye/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 43 http://deb.debian.org/debian bullseye/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 44 http://deb.debian.org/debian bullseye/main amd64 libsub-override-perl all 0.09-2 [10.2 kB] Get: 45 http://deb.debian.org/debian bullseye/main amd64 libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB] Get: 46 http://deb.debian.org/debian bullseye/main amd64 dh-strip-nondeterminism all 1.12.0-1 [15.4 kB] Get: 47 http://deb.debian.org/debian bullseye/main amd64 libelf1 amd64 0.183-1 [165 kB] Get: 48 http://deb.debian.org/debian bullseye/main amd64 dwz amd64 0.13+20210201-1 [175 kB] Get: 49 http://deb.debian.org/debian bullseye/main amd64 gettext amd64 0.21-4 [1311 kB] Get: 50 http://deb.debian.org/debian bullseye/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 51 http://deb.debian.org/debian bullseye/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 52 http://deb.debian.org/debian bullseye/main amd64 debhelper all 13.3.4 [1049 kB] Get: 53 http://deb.debian.org/debian bullseye/main amd64 libgfortran5 amd64 10.2.1-6 [727 kB] Get: 54 http://deb.debian.org/debian bullseye/main amd64 libgfortran-10-dev amd64 10.2.1-6 [769 kB] Get: 55 http://deb.debian.org/debian bullseye/main amd64 gfortran-10 amd64 10.2.1-6 [9447 kB] Get: 56 http://deb.debian.org/debian bullseye/main amd64 gfortran amd64 4:10.2.1-1 [1428 B] Get: 57 http://deb.debian.org/debian bullseye/main amd64 libbz2-dev amd64 1.0.8-4 [30.1 kB] Get: 58 http://deb.debian.org/debian bullseye/main amd64 libfile-slurp-perl all 9999.32-1 [28.1 kB] Get: 59 http://deb.debian.org/debian bullseye/main amd64 libncurses-dev amd64 6.2+20201114-2 [344 kB] Get: 60 http://deb.debian.org/debian bullseye/main amd64 libpcre16-3 amd64 2:8.39-13 [259 kB] Get: 61 http://deb.debian.org/debian bullseye/main amd64 libpcre32-3 amd64 2:8.39-13 [250 kB] Get: 62 http://deb.debian.org/debian bullseye/main amd64 libpcrecpp0v5 amd64 2:8.39-13 [152 kB] Get: 63 http://deb.debian.org/debian bullseye/main amd64 libpcre3-dev amd64 2:8.39-13 [650 kB] Get: 64 http://deb.debian.org/debian bullseye/main amd64 libreadline-dev amd64 8.1-1 [148 kB] Get: 65 http://deb.debian.org/debian bullseye/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-2 [190 kB] Fetched 41.7 MB in 0s (90.9 MB/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 ... 19655 files and directories currently installed.) Preparing to unpack .../00-bsdextrautils_2.36.1-8_amd64.deb ... Unpacking bsdextrautils (2.36.1-8) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../01-libuchardet0_0.0.7-1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.4-6_amd64.deb ... Unpacking groff-base (1.22.4-6) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../03-libpipeline1_1.5.3-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.3-1) ... Selecting previously unselected package man-db. Preparing to unpack .../04-man-db_2.9.4-2_amd64.deb ... Unpacking man-db (2.9.4-2) ... Selecting previously unselected package readline-common. Preparing to unpack .../05-readline-common_8.1-1_all.deb ... Unpacking readline-common (8.1-1) ... Selecting previously unselected package libreadline8:amd64. Preparing to unpack .../06-libreadline8_8.1-1_amd64.deb ... Unpacking libreadline8:amd64 (8.1-1) ... Selecting previously unselected package libncurses6:amd64. Preparing to unpack .../07-libncurses6_6.2+20201114-2_amd64.deb ... Unpacking libncurses6:amd64 (6.2+20201114-2) ... Selecting previously unselected package libprocps8:amd64. Preparing to unpack .../08-libprocps8_2%3a3.3.17-5_amd64.deb ... Unpacking libprocps8:amd64 (2:3.3.17-5) ... 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Setting up automake (1:1.16.3-2) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Setting up gfortran (4:10.2.1-1) ... update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode Setting up dh-autoreconf (20) ... Setting up cmake (3.18.4-2+deb11u1) ... Setting up debhelper (13.3.4) ... Processing triggers for libc-bin (2.31-13+deb11u2) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package hostname: Name or service not known I: Running cd /build/pftools-3.2.6/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../pftools_3.2.6-1_source.changes dpkg-buildpackage: info: source package pftools dpkg-buildpackage: info: source version 3.2.6-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Nilesh Patra dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/build/pftools-3.2.6' dh_auto_clean rm -rf data/test.* make[1]: Leaving directory '/build/pftools-3.2.6' dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure make[1]: Entering directory '/build/pftools-3.2.6' if [ ! -e src/C/config.h.cmake ] ; then cp -a debian/missing-sources/config.h.cmake src/C/ ; fi dh_auto_configure cd obj-x86_64-linux-gnu && cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu .. -- +--------------------------------------------------------------------+ -- | PfTools v3.2.6 | -- +--------------------------------------------------------------------+ -- | (C) Copyright SIB Swiss Institute of Bioinformatics | -- | Thierry Schuepbach (projects@vital-it.ch) | -- | | -- | PfTools is available from | -- | https://github.com/sib-swiss/pftools3 | -- | under the GPL v2. See LICENSE. | -- | | -- +--------------------------------------------------------------------+ -- The Fortran compiler identification is GNU 10.2.1 -- The C compiler identification is GNU 10.2.1 -- Detecting Fortran compiler ABI info -- Detecting Fortran compiler ABI info - done -- Check for working Fortran compiler: /usr/bin/f95 - skipped -- Checking whether /usr/bin/f95 supports Fortran 90 -- Checking whether /usr/bin/f95 supports Fortran 90 - yes -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Compilation on architecture x86_64. -- Performing Test HANDLE_SSE -- Performing Test HANDLE_SSE - Success -- Performing Test HANDLE_SSE2 -- Performing Test HANDLE_SSE2 - Success -- testing flag -msse4.1... -- Performing Test HANDLE_SSE41 -- Performing Test HANDLE_SSE41 - Success -- Performing Test HANDLE_C99 -- Performing Test HANDLE_C99 - Success -- Add -std=c99 to C compiler options -- Add SSE2 to C compiler options -- Performing Test MS_EXTENSION -- Performing Test MS_EXTENSION - Success -- Looking for pthread.h -- Looking for pthread.h - found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Failed -- Looking for pthread_create in pthreads -- Looking for pthread_create in pthreads - not found -- Looking for pthread_create in pthread -- Looking for pthread_create in pthread - found -- Found Threads: TRUE -- Found Perl: /usr/bin/perl (found version "5.32.1") -- Perl found - full test suite usable -- Found PCRE: /usr/lib/x86_64-linux-gnu/libpcre.so -- Looking for include file emmintrin.h -- Looking for include file emmintrin.h - found -- Looking for include file smmintrin.h -- Looking for include file smmintrin.h - found -- Looking for include file mm_malloc.h -- Looking for include file mm_malloc.h - found -- Looking for include file alloca.h -- Looking for include file alloca.h - found -- Check Perl script syntax compare_2_profiles.pl - syntax OK fasta_to_fastq.pl - syntax OK make_iupac_cmp.pl - syntax OK ps_scan.pl - syntax OK scramble_fasta.pl - syntax OK sort_fasta.pl - syntax OK split_profile_file.pl - syntax OK -- -- PfTools Software Suite configuration summary: -- -- System name ......................: Linux -- Build type .......................: None -- -- Integer format ...................: 16 bits -- -- Install prefix .................. : /usr -- C compiler ...................... : /usr/bin/cc -- Fortran compiler ................ : /usr/bin/f95 -- C compiler flags ................ : -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -- C compiler SSE2 flag. ........... : -msse2 -- C compiler SSE 4.1 flag.......... : -msse4.1 -- Fortran compiler flags .......... : -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -- -- Use file memory mapping ..........: ON -- Use thread affinity setting ......: ON -- -- Build shared libs ............... : OFF -- Build static libs ............... : OFF -- Build static executables......... : OFF -- -- Link with pcre .................. : ON -- -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR -- Build files have been written to: /build/pftools-3.2.6/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/pftools-3.2.6' dh_auto_build cd obj-x86_64-linux-gnu && make -j16 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/pftools-3.2.6 -B/build/pftools-3.2.6/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 Re-run cmake, missing byproduct: Tests/examples/test_V2.sh.tmp -- +--------------------------------------------------------------------+ -- | PfTools v3.2.6 | -- +--------------------------------------------------------------------+ -- | (C) Copyright SIB Swiss Institute of Bioinformatics | -- | Thierry Schuepbach (projects@vital-it.ch) | -- | | -- | PfTools is available from | -- | https://github.com/sib-swiss/pftools3 | -- | under the GPL v2. See LICENSE. | -- | | -- +--------------------------------------------------------------------+ -- Compilation on architecture x86_64. -- testing flag -msse4.1... -- Add -std=c99 to C compiler options -- Add SSE2 to C compiler options -- Perl found - full test suite usable -- Building test suite for pfsearch in /build/pftools-3.2.6/obj-x86_64-linux-gnu/Tests -- Check Perl script syntax compare_2_profiles.pl - syntax OK fasta_to_fastq.pl - syntax OK make_iupac_cmp.pl - syntax OK ps_scan.pl - syntax OK scramble_fasta.pl - syntax OK sort_fasta.pl - syntax OK split_profile_file.pl - syntax OK -- -- PfTools Software Suite configuration summary: -- -- System name ......................: Linux -- Build type .......................: None -- -- Integer format ...................: 16 bits -- -- Install prefix .................. : /usr -- C compiler ...................... : /usr/bin/cc -- Fortran compiler ................ : /usr/bin/f95 -- C compiler flags ................ : -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -- C compiler SSE2 flag. ........... : -msse2 -- C compiler SSE 4.1 flag.......... : -msse4.1 -- Fortran compiler flags .......... : -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -- -- Use file memory mapping ..........: ON -- Use thread affinity setting ......: ON -- -- Build shared libs ............... : OFF -- Build static libs ............... : OFF -- Build static executables......... : OFF -- -- Link with pcre .................. : ON -- -- Configuring done -- Generating done -- Build files have been written to: /build/pftools-3.2.6/obj-x86_64-linux-gnu /usr/bin/cmake -E cmake_progress_start /build/pftools-3.2.6/obj-x86_64-linux-gnu/CMakeFiles /build/pftools-3.2.6/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make -f src/C/CMakeFiles/REGEXP.dir/build.make src/C/CMakeFiles/REGEXP.dir/depend make -f src/C/utils/CMakeFiles/OUTPUT_FORMAT.dir/build.make src/C/utils/CMakeFiles/OUTPUT_FORMAT.dir/depend make -f src/C/sse2/CMakeFiles/SSE2.dir/build.make src/C/sse2/CMakeFiles/SSE2.dir/depend make -f src/C/sse41/CMakeFiles/SSE41.dir/build.make src/C/sse41/CMakeFiles/SSE41.dir/depend make -f src/C/utils/CMakeFiles/PROFILES.dir/build.make src/C/utils/CMakeFiles/PROFILES.dir/depend make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/C /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/REGEXP.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/C/utils /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/OUTPUT_FORMAT.dir/DependInfo.cmake --color= make -f src/C/utils/CMakeFiles/SYSTEM.dir/build.make src/C/utils/CMakeFiles/SYSTEM.dir/depend make -f src/C/utils/CMakeFiles/SEQUENCES.dir/build.make src/C/utils/CMakeFiles/SEQUENCES.dir/depend make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/C/sse2 /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/sse2 /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/sse2/CMakeFiles/SSE2.dir/DependInfo.cmake --color= make -f src/C/CMakeFiles/pfpam.dir/build.make src/C/CMakeFiles/pfpam.dir/depend make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/C/sse41 /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/sse41 /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/sse41/CMakeFiles/SSE41.dir/DependInfo.cmake --color= make -f src/Fortran/CMakeFiles/quantile.dir/build.make src/Fortran/CMakeFiles/quantile.dir/depend make -f src/C/utils/CMakeFiles/SEQUENCES_EXTRA.dir/build.make src/C/utils/CMakeFiles/SEQUENCES_EXTRA.dir/depend make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/C/utils /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/PROFILES.dir/DependInfo.cmake --color= cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/C/utils /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/SYSTEM.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/C/utils /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/SEQUENCES.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/C /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfpam.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/Fortran /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/quantile.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/C/utils /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/SEQUENCES_EXTRA.dir/DependInfo.cmake --color= make -f src/C/CMakeFiles/pfsplit.dir/build.make src/C/CMakeFiles/pfsplit.dir/depend make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/C /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfsplit.dir/DependInfo.cmake --color= Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/OUTPUT_FORMAT.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/OUTPUT_FORMAT.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/OUTPUT_FORMAT.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/sse2/CMakeFiles/SSE2.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/sse2/CMakeFiles/SSE2.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/sse2/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/sse2/CMakeFiles/SSE2.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfpam.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfpam.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfpam.dir/depend.internal". make -f src/Fortran/CMakeFiles/gtop.dir/build.make src/Fortran/CMakeFiles/gtop.dir/depend Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/sse41/CMakeFiles/SSE41.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/sse41/CMakeFiles/SSE41.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/sse41/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/sse41/CMakeFiles/SSE41.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/REGEXP.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/REGEXP.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/REGEXP.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/quantile.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/quantile.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/quantile.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/SEQUENCES.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/SEQUENCES.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/SYSTEM.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/SYSTEM.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/SEQUENCES.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/SYSTEM.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/PROFILES.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/PROFILES.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/PROFILES.dir/depend.internal". Scanning dependencies of target OUTPUT_FORMAT Scanning dependencies of target quantile Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/SEQUENCES_EXTRA.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/SEQUENCES_EXTRA.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/SEQUENCES_EXTRA.dir/depend.internal". Scanning dependencies of target SEQUENCES Scanning dependencies of target REGEXP Scanning dependencies of target SYSTEM Scanning dependencies of target SSE2 Scanning dependencies of target pfpam Scanning dependencies of target SSE41 Scanning dependencies of target SEQUENCES_EXTRA Scanning dependencies of target PROFILES make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make -f src/Fortran/CMakeFiles/ptoh.dir/build.make src/Fortran/CMakeFiles/ptoh.dir/depend make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/Fortran /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/gtop.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make -f src/C/CMakeFiles/REGEXP.dir/build.make src/C/CMakeFiles/REGEXP.dir/build make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make -f src/C/utils/CMakeFiles/OUTPUT_FORMAT.dir/build.make src/C/utils/CMakeFiles/OUTPUT_FORMAT.dir/build make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make -f src/C/sse2/CMakeFiles/SSE2.dir/build.make src/C/sse2/CMakeFiles/SSE2.dir/build make -f src/C/sse41/CMakeFiles/SSE41.dir/build.make src/C/sse41/CMakeFiles/SSE41.dir/build make -f src/C/utils/CMakeFiles/PROFILES.dir/build.make src/C/utils/CMakeFiles/PROFILES.dir/build make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/Fortran /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/ptoh.dir/DependInfo.cmake --color= make -f src/C/utils/CMakeFiles/SYSTEM.dir/build.make src/C/utils/CMakeFiles/SYSTEM.dir/build make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make -f src/C/utils/CMakeFiles/SEQUENCES.dir/build.make src/C/utils/CMakeFiles/SEQUENCES.dir/build Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfsplit.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfsplit.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfsplit.dir/depend.internal". Scanning dependencies of target pfsplit Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/gtop.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/gtop.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/gtop.dir/depend.internal". [ 1%] Building C object src/C/utils/CMakeFiles/OUTPUT_FORMAT.dir/output.c.o make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' [ 2%] Building C object src/C/CMakeFiles/REGEXP.dir/utils/pfregexp.c.o [ 5%] Building C object src/C/utils/CMakeFiles/PROFILES.dir/io.c.o [ 5%] Building C object src/C/sse2/CMakeFiles/SSE2.dir/heuristic_sse2.c.o [ 7%] Building C object src/C/utils/CMakeFiles/SYSTEM.dir/system.c.o make -f src/C/CMakeFiles/pfpam.dir/build.make src/C/CMakeFiles/pfpam.dir/build cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils && /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -I /build/pftools-3.2.6/src/C/include/ -o CMakeFiles/OUTPUT_FORMAT.dir/output.c.o -c /build/pftools-3.2.6/src/C/utils/output.c cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C && /usr/bin/cc -I/usr/include -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -o CMakeFiles/REGEXP.dir/utils/pfregexp.c.o -c /build/pftools-3.2.6/src/C/utils/pfregexp.c [ 8%] Building C object src/C/sse2/CMakeFiles/SSE2.dir/xali1_sse2.c.o [ 10%] Building C object src/C/sse41/CMakeFiles/SSE41.dir/heuristic_sse41.c.o Scanning dependencies of target gtop cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils && /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -I /build/pftools-3.2.6/src/C/include/ -o CMakeFiles/PROFILES.dir/io.c.o -c /build/pftools-3.2.6/src/C/utils/io.c Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/ptoh.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/ptoh.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/ptoh.dir/depend.internal". cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils && /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -I /build/pftools-3.2.6/src/C/include/ -o CMakeFiles/SYSTEM.dir/system.c.o -c /build/pftools-3.2.6/src/C/utils/system.c make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/sse2 && /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -I /build/pftools-3.2.6/src/C/include/ -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -msse2 -o CMakeFiles/SSE2.dir/heuristic_sse2.c.o -c /build/pftools-3.2.6/src/C/sse2/heuristic_sse2.c make -f src/Fortran/CMakeFiles/quantile.dir/build.make src/Fortran/CMakeFiles/quantile.dir/build cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/sse41 && /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -I /build/pftools-3.2.6/src/C/include/ -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -msse4.1 -o CMakeFiles/SSE41.dir/heuristic_sse41.c.o -c /build/pftools-3.2.6/src/C/sse41/heuristic_sse41.c make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/sse2 && /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -I /build/pftools-3.2.6/src/C/include/ -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -msse2 -o CMakeFiles/SSE2.dir/xali1_sse2.c.o -c /build/pftools-3.2.6/src/C/sse2/xali1_sse2.c make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' Scanning dependencies of target ptoh make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make -f src/C/utils/CMakeFiles/SEQUENCES_EXTRA.dir/build.make src/C/utils/CMakeFiles/SEQUENCES_EXTRA.dir/build [ 11%] Building C object src/C/sse41/CMakeFiles/SSE41.dir/xali1_sse41.c.o [ 13%] Building C object src/C/utils/CMakeFiles/SEQUENCES.dir/ReadSequence.c.o make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/sse41 && /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -I /build/pftools-3.2.6/src/C/include/ -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -msse4.1 -o CMakeFiles/SSE41.dir/xali1_sse41.c.o -c /build/pftools-3.2.6/src/C/sse41/xali1_sse41.c [ 14%] Building C object src/C/CMakeFiles/pfpam.dir/utils/pam.c.o [ 16%] Building C object src/C/sse2/CMakeFiles/SSE2.dir/xalip_sse2.c.o cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/sse2 && /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -I /build/pftools-3.2.6/src/C/include/ -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -msse2 -o CMakeFiles/SSE2.dir/xalip_sse2.c.o -c /build/pftools-3.2.6/src/C/sse2/xalip_sse2.c cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C && /usr/bin/cc -D_PFPAM -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -o CMakeFiles/pfpam.dir/utils/pam.c.o -c /build/pftools-3.2.6/src/C/utils/pam.c cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils && /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -I /build/pftools-3.2.6/src/C/include/ -o CMakeFiles/SEQUENCES.dir/ReadSequence.c.o -c /build/pftools-3.2.6/src/C/utils/ReadSequence.c make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make -f src/C/CMakeFiles/pfsplit.dir/build.make src/C/CMakeFiles/pfsplit.dir/build make -f src/Fortran/CMakeFiles/gtop.dir/build.make src/Fortran/CMakeFiles/gtop.dir/build make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' [ 17%] Building C object src/C/utils/CMakeFiles/SEQUENCES_EXTRA.dir/pam.c.o [ 19%] Building Fortran object src/Fortran/CMakeFiles/quantile.dir/rq0.f.o cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils && /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -I /build/pftools-3.2.6/src/C/include/ -o CMakeFiles/SEQUENCES_EXTRA.dir/pam.c.o -c /build/pftools-3.2.6/src/C/utils/pam.c cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/f95 -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -c /build/pftools-3.2.6/src/Fortran/rq0.f -o CMakeFiles/quantile.dir/rq0.f.o make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make -f src/Fortran/CMakeFiles/ptoh.dir/build.make src/Fortran/CMakeFiles/ptoh.dir/build make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' [ 20%] Building C object src/C/CMakeFiles/pfsplit.dir/prg/split.c.o cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C && /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -o CMakeFiles/pfsplit.dir/prg/split.c.o -c /build/pftools-3.2.6/src/C/prg/split.c [ 22%] Building Fortran object src/Fortran/CMakeFiles/gtop.dir/gtop.f.o cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/f95 -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -fno-automatic -c /build/pftools-3.2.6/src/Fortran/gtop.f -o CMakeFiles/gtop.dir/gtop.f.o [ 23%] Building Fortran object src/Fortran/CMakeFiles/ptoh.dir/ptoh.f.o cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/f95 -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -fno-automatic -c /build/pftools-3.2.6/src/Fortran/ptoh.f -o CMakeFiles/ptoh.dir/ptoh.f.o [ 25%] Building C object src/C/sse41/CMakeFiles/SSE41.dir/xalip_sse41.c.o make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/sse41 && /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -I /build/pftools-3.2.6/src/C/include/ -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -msse4.1 -o CMakeFiles/SSE41.dir/xalip_sse41.c.o -c /build/pftools-3.2.6/src/C/sse41/xalip_sse41.c [ 26%] Building C object src/C/sse2/CMakeFiles/SSE2.dir/xalit_sse2.c.o [ 28%] Building C object src/Fortran/CMakeFiles/gtop.dir/io.c.o cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/sse2 && /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -I /build/pftools-3.2.6/src/C/include/ -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -msse2 -o CMakeFiles/SSE2.dir/xalit_sse2.c.o -c /build/pftools-3.2.6/src/C/sse2/xalit_sse2.c cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -o CMakeFiles/gtop.dir/io.c.o -c /build/pftools-3.2.6/src/Fortran/io.c [ 28%] Built target REGEXP make -f src/Fortran/CMakeFiles/htop.dir/build.make src/Fortran/CMakeFiles/htop.dir/depend make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/Fortran /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/htop.dir/DependInfo.cmake --color= [ 29%] Linking C executable pfsplit cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C && /usr/bin/cmake -E cmake_link_script CMakeFiles/pfsplit.dir/link.txt --verbose=1 Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/htop.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/htop.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/htop.dir/depend.internal". Scanning dependencies of target htop make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make -f src/Fortran/CMakeFiles/htop.dir/build.make src/Fortran/CMakeFiles/htop.dir/build make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -Wl,--enable-new-dtags CMakeFiles/pfsplit.dir/prg/split.c.o -o pfsplit [ 31%] Building C object src/C/sse41/CMakeFiles/SSE41.dir/xalit_sse41.c.o cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/sse41 && /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -I /build/pftools-3.2.6/src/C/include/ -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -msse4.1 -o CMakeFiles/SSE41.dir/xalit_sse41.c.o -c /build/pftools-3.2.6/src/C/sse41/xalit_sse41.c [ 32%] Building Fortran object src/Fortran/CMakeFiles/htop.dir/htop.f.o cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/f95 -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -fno-automatic -c /build/pftools-3.2.6/src/Fortran/htop.f -o CMakeFiles/htop.dir/htop.f.o [ 34%] Building C object src/C/CMakeFiles/pfpam.dir/utils/io.c.o make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C && /usr/bin/cc -D_PFPAM -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -o CMakeFiles/pfpam.dir/utils/io.c.o -c /build/pftools-3.2.6/src/C/utils/io.c make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' [ 34%] Built target SEQUENCES_EXTRA make -f src/Fortran/CMakeFiles/2ft.dir/build.make src/Fortran/CMakeFiles/2ft.dir/depend [ 34%] Built target SEQUENCES make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/Fortran /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/2ft.dir/DependInfo.cmake --color= make -f src/Fortran/CMakeFiles/pfmake.dir/build.make src/Fortran/CMakeFiles/pfmake.dir/depend [ 34%] Built target pfsplit Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/2ft.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/2ft.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/2ft.dir/depend.internal". Scanning dependencies of target 2ft make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/Fortran /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfmake.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' [ 35%] Building C object src/C/CMakeFiles/pfpam.dir/utils/random.c.o make -f src/Fortran/CMakeFiles/2ft.dir/build.make src/Fortran/CMakeFiles/2ft.dir/build cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C && /usr/bin/cc -D_PFPAM -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -o CMakeFiles/pfpam.dir/utils/random.c.o -c /build/pftools-3.2.6/src/C/utils/random.c make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' [ 37%] Building C object src/C/utils/CMakeFiles/PROFILES.dir/profile.c.o cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils && /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -I /build/pftools-3.2.6/src/C/include/ -o CMakeFiles/PROFILES.dir/profile.c.o -c /build/pftools-3.2.6/src/C/utils/profile.c Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfmake.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfmake.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfmake.dir/depend.internal". Scanning dependencies of target pfmake [ 38%] Building Fortran object src/Fortran/CMakeFiles/2ft.dir/2ft.f.o cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/f95 -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -fno-automatic -c /build/pftools-3.2.6/src/Fortran/2ft.f -o CMakeFiles/2ft.dir/2ft.f.o make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' rhmmer2.f:265:17: Warning: Array reference at (1) out of bounds (47 > 46) in loop beginning at (2) rhmmer2.f:265:29: Warning: Array reference at (1) out of bounds (47 > 46) in loop beginning at (2) rhmmer2.f:274:17: Warning: Array reference at (1) out of bounds (47 > 27) in loop beginning at (2) rhmmer2.f:274:29: Warning: Array reference at (1) out of bounds (47 > 27) in loop beginning at (2) make -f src/Fortran/CMakeFiles/pfmake.dir/build.make src/Fortran/CMakeFiles/pfmake.dir/build make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' [ 40%] Building Fortran object src/Fortran/CMakeFiles/pfmake.dir/pfmake.f.o cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/f95 -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -fno-automatic -c /build/pftools-3.2.6/src/Fortran/pfmake.f -o CMakeFiles/pfmake.dir/pfmake.f.o [ 41%] Building C object src/C/utils/CMakeFiles/PROFILES.dir/Normalization.c.o cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils && /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -I /build/pftools-3.2.6/src/C/include/ -o CMakeFiles/PROFILES.dir/Normalization.c.o -c /build/pftools-3.2.6/src/C/utils/Normalization.c make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make -f src/Fortran/CMakeFiles/pfsearch.dir/build.make src/Fortran/CMakeFiles/pfsearch.dir/depend make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/Fortran /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfsearch.dir/DependInfo.cmake --color= [ 41%] Built target OUTPUT_FORMAT make -f src/Fortran/CMakeFiles/pfscale.dir/build.make src/Fortran/CMakeFiles/pfscale.dir/depend [ 41%] Built target quantile make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/Fortran /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfscale.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfsearch.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfsearch.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfsearch.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfscale.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfscale.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfscale.dir/depend.internal". make -f src/Fortran/CMakeFiles/ptof.dir/build.make src/Fortran/CMakeFiles/ptof.dir/depend Scanning dependencies of target pfscale make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/Fortran /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/ptof.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make -f src/Fortran/CMakeFiles/pfscale.dir/build.make src/Fortran/CMakeFiles/pfscale.dir/build Scanning dependencies of target pfsearch [ 41%] Built target SSE2 make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make -f src/Fortran/CMakeFiles/pfw.dir/build.make src/Fortran/CMakeFiles/pfw.dir/depend make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/Fortran /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfw.dir/DependInfo.cmake --color= make -f src/Fortran/CMakeFiles/pfsearch.dir/build.make src/Fortran/CMakeFiles/pfsearch.dir/build make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' [ 41%] Built target SSE41 make -f src/Fortran/CMakeFiles/6ft.dir/build.make src/Fortran/CMakeFiles/6ft.dir/depend [ 43%] Building Fortran object src/Fortran/CMakeFiles/pfscale.dir/pfscale.f.o cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/f95 -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -fno-automatic -c /build/pftools-3.2.6/src/Fortran/pfscale.f -o CMakeFiles/pfscale.dir/pfscale.f.o make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/Fortran /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/6ft.dir/DependInfo.cmake --color= make -f src/Fortran/CMakeFiles/psa2msa.dir/build.make src/Fortran/CMakeFiles/psa2msa.dir/depend make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/Fortran /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/psa2msa.dir/DependInfo.cmake --color= Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/ptof.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/ptof.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/ptof.dir/depend.internal". Scanning dependencies of target ptof Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfw.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfw.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfw.dir/depend.internal". Scanning dependencies of target pfw [ 44%] Building Fortran object src/Fortran/CMakeFiles/pfsearch.dir/pfsearch.f.o make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/f95 -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -fno-automatic -c /build/pftools-3.2.6/src/Fortran/pfsearch.f -o CMakeFiles/pfsearch.dir/pfsearch.f.o make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make -f src/Fortran/CMakeFiles/ptof.dir/build.make src/Fortran/CMakeFiles/ptof.dir/build Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/psa2msa.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/psa2msa.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/psa2msa.dir/depend.internal". make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make -f src/Fortran/CMakeFiles/pfw.dir/build.make src/Fortran/CMakeFiles/pfw.dir/build Scanning dependencies of target psa2msa make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/6ft.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/6ft.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/6ft.dir/depend.internal". make -f src/Fortran/CMakeFiles/psa2msa.dir/build.make src/Fortran/CMakeFiles/psa2msa.dir/build Scanning dependencies of target 6ft make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make -f src/Fortran/CMakeFiles/6ft.dir/build.make src/Fortran/CMakeFiles/6ft.dir/build make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' [ 46%] Building Fortran object src/Fortran/CMakeFiles/ptof.dir/ptof.f.o [ 47%] Building C object src/Fortran/CMakeFiles/pfw.dir/io.c.o cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/f95 -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -fno-automatic -c /build/pftools-3.2.6/src/Fortran/ptof.f -o CMakeFiles/ptof.dir/ptof.f.o [ 49%] Linking Fortran executable 2ft cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/cmake -E cmake_link_script CMakeFiles/2ft.dir/link.txt --verbose=1 [ 50%] Building C object src/Fortran/CMakeFiles/psa2msa.dir/io.c.o cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -o CMakeFiles/psa2msa.dir/io.c.o -c /build/pftools-3.2.6/src/Fortran/io.c cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -o CMakeFiles/pfw.dir/io.c.o -c /build/pftools-3.2.6/src/Fortran/io.c [ 52%] Building Fortran object src/Fortran/CMakeFiles/6ft.dir/6ft.f.o cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/f95 -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -fno-automatic -c /build/pftools-3.2.6/src/Fortran/6ft.f -o CMakeFiles/6ft.dir/6ft.f.o make -f src/Fortran/CMakeFiles/pfscan.dir/build.make src/Fortran/CMakeFiles/pfscan.dir/depend [ 53%] Building Fortran object src/Fortran/CMakeFiles/psa2msa.dir/psa2msa.f.o cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/f95 -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -fno-automatic -c /build/pftools-3.2.6/src/Fortran/psa2msa.f -o CMakeFiles/psa2msa.dir/psa2msa.f.o make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/Fortran /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfscan.dir/DependInfo.cmake --color= /usr/bin/f95 -Wl,--enable-new-dtags -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong CMakeFiles/2ft.dir/2ft.f.o -o 2ft Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfscan.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfscan.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfscan.dir/depend.internal". Scanning dependencies of target pfscan [ 55%] Building Fortran object src/Fortran/CMakeFiles/pfw.dir/pfw.f.o make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make -f src/Fortran/CMakeFiles/pfscan.dir/build.make src/Fortran/CMakeFiles/pfscan.dir/build cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/f95 -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -fno-automatic -c /build/pftools-3.2.6/src/Fortran/pfw.f -o CMakeFiles/pfw.dir/pfw.f.o make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' [ 56%] Building Fortran object src/Fortran/CMakeFiles/pfscan.dir/pfscan.f.o cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/f95 -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -fno-automatic -c /build/pftools-3.2.6/src/Fortran/pfscan.f -o CMakeFiles/pfscan.dir/pfscan.f.o make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' /build/pftools-3.2.6/src/Fortran/pfw.f:530:72: 530 | IF(J.GT.97.OR.J.LT.1) PAUSE | 1 Warning: Deleted feature: PAUSE statement at (1) [ 56%] Built target 2ft make -f src/C/CMakeFiles/pfindex.dir/build.make src/C/CMakeFiles/pfindex.dir/depend make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/C /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfindex.dir/DependInfo.cmake --color= make -f src/C/utils/CMakeFiles/CALIBRATION.dir/build.make src/C/utils/CMakeFiles/CALIBRATION.dir/depend make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/C/utils /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/CALIBRATION.dir/DependInfo.cmake --color= Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfindex.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfindex.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfindex.dir/depend.internal". Scanning dependencies of target pfindex Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/CALIBRATION.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/CALIBRATION.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/CALIBRATION.dir/depend.internal". make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make -f src/C/CMakeFiles/pfindex.dir/build.make src/C/CMakeFiles/pfindex.dir/build Scanning dependencies of target CALIBRATION make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make -f src/C/utils/CMakeFiles/CALIBRATION.dir/build.make src/C/utils/CMakeFiles/CALIBRATION.dir/build make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' [ 58%] Building C object src/C/CMakeFiles/pfindex.dir/prg/pfindex.c.o cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C && /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -o CMakeFiles/pfindex.dir/prg/pfindex.c.o -c /build/pftools-3.2.6/src/C/prg/pfindex.c [ 59%] Building C object src/C/utils/CMakeFiles/CALIBRATION.dir/random.c.o [ 59%] Built target SYSTEM make -f src/C/CMakeFiles/pfdump.dir/build.make src/C/CMakeFiles/pfdump.dir/depend cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils && /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -I /build/pftools-3.2.6/src/C/include/ -o CMakeFiles/CALIBRATION.dir/random.c.o -c /build/pftools-3.2.6/src/C/utils/random.c make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/C /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfdump.dir/DependInfo.cmake --color= Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfdump.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfdump.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfdump.dir/depend.internal". Scanning dependencies of target pfdump make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make -f src/C/CMakeFiles/pfdump.dir/build.make src/C/CMakeFiles/pfdump.dir/build make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' [ 61%] Building C object src/C/CMakeFiles/pfdump.dir/utils/io.c.o cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C && /usr/bin/cc -D_TEST -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -o CMakeFiles/pfdump.dir/utils/io.c.o -c /build/pftools-3.2.6/src/C/utils/io.c /build/pftools-3.2.6/src/C/prg/pfindex.c: In function 'Usage': /build/pftools-3.2.6/src/C/prg/pfindex.c:84:39: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 84 | " Version " PF_VERSION " built on " __DATE__ " at " __TIME__ ".\n", stream); | ^~~~~~~~ /build/pftools-3.2.6/src/C/prg/pfindex.c:84:55: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 84 | " Version " PF_VERSION " built on " __DATE__ " at " __TIME__ ".\n", stream); | ^~~~~~~~ [ 62%] Building C object src/C/utils/CMakeFiles/CALIBRATION.dir/histogram.c.o cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils && /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -I /build/pftools-3.2.6/src/C/include/ -o CMakeFiles/CALIBRATION.dir/histogram.c.o -c /build/pftools-3.2.6/src/C/utils/histogram.c [ 64%] Linking Fortran executable psa2msa cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/cmake -E cmake_link_script CMakeFiles/psa2msa.dir/link.txt --verbose=1 [ 65%] Linking C executable pfindex cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C && /usr/bin/cmake -E cmake_link_script CMakeFiles/pfindex.dir/link.txt --verbose=1 /usr/bin/f95 -Wl,--enable-new-dtags -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong CMakeFiles/psa2msa.dir/io.c.o CMakeFiles/psa2msa.dir/psa2msa.f.o -o psa2msa [ 67%] Linking Fortran executable 6ft cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/cmake -E cmake_link_script CMakeFiles/6ft.dir/link.txt --verbose=1 /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -Wl,--enable-new-dtags CMakeFiles/pfindex.dir/prg/pfindex.c.o utils/CMakeFiles/SEQUENCES.dir/ReadSequence.c.o -o pfindex /usr/bin/f95 -Wl,--enable-new-dtags -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong CMakeFiles/6ft.dir/6ft.f.o -o 6ft make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' [ 67%] Built target PROFILES make -f src/C/CMakeFiles/pfsearchV3.dir/build.make src/C/CMakeFiles/pfsearchV3.dir/depend make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/C /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfsearchV3.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfsearchV3.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfsearchV3.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfsearchV3.dir/depend.internal". Scanning dependencies of target pfsearchV3 [ 67%] Built target pfindex make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make -f src/C/CMakeFiles/pfsearchV3.dir/build.make src/C/CMakeFiles/pfsearchV3.dir/build make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make -f src/C/CMakeFiles/pfscanV3.dir/build.make src/C/CMakeFiles/pfscanV3.dir/depend make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/C /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfscanV3.dir/DependInfo.cmake --color= [ 68%] Building C object src/C/CMakeFiles/pfsearchV3.dir/prg/pfsearch.c.o cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C && /usr/bin/cc -D__USE_AFFINITY__ -I/usr/include -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -o CMakeFiles/pfsearchV3.dir/prg/pfsearch.c.o -c /build/pftools-3.2.6/src/C/prg/pfsearch.c [ 68%] Built target psa2msa Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfscanV3.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfscanV3.dir/depend.internal". Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfscanV3.dir/depend.internal". Scanning dependencies of target pfscanV3 make -f src/C/CMakeFiles/pfemit.dir/build.make src/C/CMakeFiles/pfemit.dir/depend make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/C /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfemit.dir/DependInfo.cmake --color= make -f src/C/CMakeFiles/pfscanV3.dir/build.make src/C/CMakeFiles/pfscanV3.dir/build make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' [ 68%] Built target 6ft Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfemit.dir/DependInfo.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfemit.dir/depend.internal". 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Scanning dependencies of target pfemit make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make -f src/C/CMakeFiles/pfemit.dir/build.make src/C/CMakeFiles/pfemit.dir/build [ 70%] Building C object src/C/CMakeFiles/pfscanV3.dir/prg/pfscan.c.o make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C && /usr/bin/cc -D__USE_AFFINITY__ -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -o CMakeFiles/pfscanV3.dir/prg/pfscan.c.o -c /build/pftools-3.2.6/src/C/prg/pfscan.c [ 71%] Building C object src/C/utils/CMakeFiles/CALIBRATION.dir/quantileregression.c.o cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils && /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -I /build/pftools-3.2.6/src/C/include/ -o CMakeFiles/CALIBRATION.dir/quantileregression.c.o -c /build/pftools-3.2.6/src/C/utils/quantileregression.c [ 73%] Building C object src/C/CMakeFiles/pfemit.dir/utils/generatesequences.c.o cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C && /usr/bin/cc -D_PFEMIT -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -o CMakeFiles/pfemit.dir/utils/generatesequences.c.o -c /build/pftools-3.2.6/src/C/utils/generatesequences.c /build/pftools-3.2.6/src/C/prg/pfsearch.c: In function 'Usage': /build/pftools-3.2.6/src/C/prg/pfsearch.c:191:39: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 191 | " Version " PF_VERSION " built on " __DATE__ " at " __TIME__ ".\n", OutputPrintWidth); | ^~~~~~~~ /build/pftools-3.2.6/src/C/prg/pfsearch.c:191:55: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 191 | " Version " PF_VERSION " built on " __DATE__ " at " __TIME__ ".\n", OutputPrintWidth); | ^~~~~~~~ /build/pftools-3.2.6/src/C/prg/pfsearch.c: In function 'main': /build/pftools-3.2.6/src/C/prg/pfsearch.c:494:9: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 494 | fputs(HEADER | ^~~~~~ /build/pftools-3.2.6/src/C/prg/pfsearch.c:33:15: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 33 | "| Built on " __DATE__ " at " __TIME__ ". |\n" | ^~~~~~~~ /build/pftools-3.2.6/src/C/prg/pfsearch.c:494:9: note: in expansion of macro 'HEADER' 494 | fputs(HEADER | ^~~~~~ [ 74%] Linking C executable pfpam cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C && /usr/bin/cmake -E cmake_link_script CMakeFiles/pfpam.dir/link.txt --verbose=1 /build/pftools-3.2.6/src/C/prg/pfscan.c: In function 'Usage': /build/pftools-3.2.6/src/C/prg/pfscan.c:154:41: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 154 | " Version " PF_VERSION " built on " __DATE__ " at " __TIME__ ".\n", | ^~~~~~~~ /build/pftools-3.2.6/src/C/prg/pfscan.c:154:57: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 154 | " Version " PF_VERSION " built on " __DATE__ " at " __TIME__ ".\n", | ^~~~~~~~ /build/pftools-3.2.6/src/C/prg/pfscan.c: In function 'main': /build/pftools-3.2.6/src/C/prg/pfscan.c:368:10: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 368 | fputs(HEADER | ^~~~~~ /build/pftools-3.2.6/src/C/prg/pfscan.c:26:23: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 26 | "| Built on " __DATE__ " at " __TIME__ ". |\n" | ^~~~~~~~ /build/pftools-3.2.6/src/C/prg/pfscan.c:368:10: note: in expansion of macro 'HEADER' 368 | fputs(HEADER | ^~~~~~ /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -Wl,--enable-new-dtags CMakeFiles/pfpam.dir/utils/pam.c.o CMakeFiles/pfpam.dir/utils/io.c.o CMakeFiles/pfpam.dir/utils/random.c.o -o pfpam [ 76%] Building C object src/C/utils/CMakeFiles/CALIBRATION.dir/generatesequences.c.o cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/utils && /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -I /build/pftools-3.2.6/src/C/include/ -o CMakeFiles/CALIBRATION.dir/generatesequences.c.o -c /build/pftools-3.2.6/src/C/utils/generatesequences.c [ 77%] Linking Fortran executable pfw cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/cmake -E cmake_link_script CMakeFiles/pfw.dir/link.txt --verbose=1 /usr/bin/f95 -Wl,--enable-new-dtags -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong CMakeFiles/pfw.dir/io.c.o CMakeFiles/pfw.dir/pfw.f.o -o pfw make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' [ 79%] Linking Fortran executable gtop cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/cmake -E cmake_link_script CMakeFiles/gtop.dir/link.txt --verbose=1 [ 79%] Built target pfpam /usr/bin/f95 -Wl,--enable-new-dtags -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong CMakeFiles/gtop.dir/gtop.f.o 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CALIBRATION make -f src/C/CMakeFiles/pfcalibrateV3.dir/build.make src/C/CMakeFiles/pfcalibrateV3.dir/depend /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -Wl,--enable-new-dtags CMakeFiles/pfemit.dir/utils/generatesequences.c.o CMakeFiles/pfemit.dir/utils/random.c.o utils/CMakeFiles/PROFILES.dir/io.c.o utils/CMakeFiles/PROFILES.dir/profile.c.o utils/CMakeFiles/PROFILES.dir/Normalization.c.o -o pfemit -lm make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' cd /build/pftools-3.2.6/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-3.2.6 /build/pftools-3.2.6/src/C /build/pftools-3.2.6/obj-x86_64-linux-gnu /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfcalibrateV3.dir/DependInfo.cmake --color= [ 82%] Built target gtop Dependee 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Dependee "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfcalibrateV3.dir/depend.internal". Scanning dependencies of target pfcalibrateV3 make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make -f src/C/CMakeFiles/pfcalibrateV3.dir/build.make src/C/CMakeFiles/pfcalibrateV3.dir/build make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' [ 83%] Building C object src/C/CMakeFiles/pfcalibrateV3.dir/prg/pfcalibrate.c.o cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C && /usr/bin/cc -D__USE_AFFINITY__ -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/obj-x86_64-linux-gnu/ -I /build/pftools-3.2.6/src/C/include/ -o CMakeFiles/pfcalibrateV3.dir/prg/pfcalibrate.c.o -c /build/pftools-3.2.6/src/C/prg/pfcalibrate.c make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' [ 83%] Built target pfemit [ 85%] Linking Fortran executable ptoh cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/cmake -E cmake_link_script CMakeFiles/ptoh.dir/link.txt --verbose=1 /usr/bin/f95 -Wl,--enable-new-dtags -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong CMakeFiles/ptoh.dir/ptoh.f.o -o ptoh /build/pftools-3.2.6/src/C/prg/pfcalibrate.c: In function 'Usage': /build/pftools-3.2.6/src/C/prg/pfcalibrate.c:287:42: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 287 | " Version " PF_VERSION " built on " __DATE__ " at " __TIME__ ".\n", | ^~~~~~~~ /build/pftools-3.2.6/src/C/prg/pfcalibrate.c:287:58: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 287 | " Version " PF_VERSION " built on " __DATE__ " at " __TIME__ ".\n", | ^~~~~~~~ /build/pftools-3.2.6/src/C/prg/pfcalibrate.c: In function 'main': /build/pftools-3.2.6/src/C/prg/pfcalibrate.c:963:9: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 963 | fputs(HEADER | ^~~~~~ /build/pftools-3.2.6/src/C/prg/pfcalibrate.c:49:15: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 49 | "| Built on " __DATE__ " at " __TIME__ ". |\n" | ^~~~~~~~ /build/pftools-3.2.6/src/C/prg/pfcalibrate.c:963:9: note: in expansion of macro 'HEADER' 963 | fputs(HEADER | ^~~~~~ make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' [ 85%] Built target ptoh [ 86%] Linking C executable pfscanV3 cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C && /usr/bin/cmake -E cmake_link_script CMakeFiles/pfscanV3.dir/link.txt --verbose=1 /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -Wl,--enable-new-dtags CMakeFiles/pfscanV3.dir/prg/pfscan.c.o utils/CMakeFiles/PROFILES.dir/io.c.o utils/CMakeFiles/PROFILES.dir/profile.c.o utils/CMakeFiles/PROFILES.dir/Normalization.c.o utils/CMakeFiles/SEQUENCES.dir/ReadSequence.c.o CMakeFiles/REGEXP.dir/utils/pfregexp.c.o sse2/CMakeFiles/SSE2.dir/heuristic_sse2.c.o sse2/CMakeFiles/SSE2.dir/xali1_sse2.c.o sse2/CMakeFiles/SSE2.dir/xalip_sse2.c.o sse2/CMakeFiles/SSE2.dir/xalit_sse2.c.o sse41/CMakeFiles/SSE41.dir/heuristic_sse41.c.o sse41/CMakeFiles/SSE41.dir/xali1_sse41.c.o sse41/CMakeFiles/SSE41.dir/xalip_sse41.c.o sse41/CMakeFiles/SSE41.dir/xalit_sse41.c.o utils/CMakeFiles/OUTPUT_FORMAT.dir/output.c.o utils/CMakeFiles/SYSTEM.dir/system.c.o -o pfscanV3 /usr/lib/x86_64-linux-gnu/libpcre.so -lm -lpthread make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' [ 86%] Built target pfscanV3 [ 88%] Linking C executable pfdump cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C && /usr/bin/cmake -E cmake_link_script CMakeFiles/pfdump.dir/link.txt --verbose=1 /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions 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-std=c99 -msse2 -fms-extensions -Wl,--enable-new-dtags CMakeFiles/pfcalibrateV3.dir/prg/pfcalibrate.c.o sse2/CMakeFiles/SSE2.dir/heuristic_sse2.c.o sse2/CMakeFiles/SSE2.dir/xali1_sse2.c.o sse2/CMakeFiles/SSE2.dir/xalip_sse2.c.o sse2/CMakeFiles/SSE2.dir/xalit_sse2.c.o sse41/CMakeFiles/SSE41.dir/heuristic_sse41.c.o sse41/CMakeFiles/SSE41.dir/xali1_sse41.c.o sse41/CMakeFiles/SSE41.dir/xalip_sse41.c.o sse41/CMakeFiles/SSE41.dir/xalit_sse41.c.o utils/CMakeFiles/PROFILES.dir/io.c.o utils/CMakeFiles/PROFILES.dir/profile.c.o utils/CMakeFiles/PROFILES.dir/Normalization.c.o utils/CMakeFiles/SEQUENCES_EXTRA.dir/pam.c.o utils/CMakeFiles/SEQUENCES.dir/ReadSequence.c.o utils/CMakeFiles/CALIBRATION.dir/random.c.o utils/CMakeFiles/CALIBRATION.dir/histogram.c.o utils/CMakeFiles/CALIBRATION.dir/quantileregression.c.o utils/CMakeFiles/CALIBRATION.dir/generatesequences.c.o ../Fortran/CMakeFiles/quantile.dir/rq0.f.o utils/CMakeFiles/SYSTEM.dir/system.c.o -o pfcalibrateV3 -lm -lpthread -lgfortran -lm -lquadmath -lm /usr/bin/ld: CMakeFiles/pfcalibrateV3.dir/prg/pfcalibrate.c.o: in function `main': ./obj-x86_64-linux-gnu/src/C/./src/C/prg/pfcalibrate.c:1383: warning: the use of `tempnam' is dangerous, better use `mkstemp' make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' [ 91%] Built target pfcalibrateV3 [ 92%] Linking Fortran executable pfscale cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/cmake -E cmake_link_script CMakeFiles/pfscale.dir/link.txt --verbose=1 /usr/bin/f95 -Wl,--enable-new-dtags -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong CMakeFiles/pfscale.dir/pfscale.f.o -o pfscale make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' [ 92%] Built target pfscale [ 94%] Linking C executable pfsearchV3 cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/C && /usr/bin/cmake -E cmake_link_script CMakeFiles/pfsearchV3.dir/link.txt --verbose=1 /usr/bin/cc -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -Wl,--enable-new-dtags CMakeFiles/pfsearchV3.dir/prg/pfsearch.c.o utils/CMakeFiles/PROFILES.dir/io.c.o utils/CMakeFiles/PROFILES.dir/profile.c.o utils/CMakeFiles/PROFILES.dir/Normalization.c.o utils/CMakeFiles/SEQUENCES.dir/ReadSequence.c.o sse2/CMakeFiles/SSE2.dir/heuristic_sse2.c.o sse2/CMakeFiles/SSE2.dir/xali1_sse2.c.o sse2/CMakeFiles/SSE2.dir/xalip_sse2.c.o sse2/CMakeFiles/SSE2.dir/xalit_sse2.c.o sse41/CMakeFiles/SSE41.dir/heuristic_sse41.c.o sse41/CMakeFiles/SSE41.dir/xali1_sse41.c.o sse41/CMakeFiles/SSE41.dir/xalip_sse41.c.o sse41/CMakeFiles/SSE41.dir/xalit_sse41.c.o utils/CMakeFiles/OUTPUT_FORMAT.dir/output.c.o CMakeFiles/REGEXP.dir/utils/pfregexp.c.o utils/CMakeFiles/SYSTEM.dir/system.c.o -o pfsearchV3 /usr/lib/x86_64-linux-gnu/libpcre.so -lm -lpthread make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' [ 94%] Built target pfsearchV3 [ 95%] Linking Fortran executable ptof cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/cmake -E cmake_link_script CMakeFiles/ptof.dir/link.txt --verbose=1 /usr/bin/f95 -Wl,--enable-new-dtags -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong CMakeFiles/ptof.dir/ptof.f.o -o ptof make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' [ 95%] Built target ptof [ 97%] Linking Fortran executable pfmake cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/cmake -E cmake_link_script CMakeFiles/pfmake.dir/link.txt --verbose=1 /usr/bin/f95 -Wl,--enable-new-dtags -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong CMakeFiles/pfmake.dir/pfmake.f.o -o pfmake make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' [ 97%] Built target pfmake [ 98%] Linking Fortran executable pfscan cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/cmake -E cmake_link_script CMakeFiles/pfscan.dir/link.txt --verbose=1 /usr/bin/f95 -Wl,--enable-new-dtags -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong CMakeFiles/pfscan.dir/pfscan.f.o -o pfscan make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' [ 98%] Built target pfscan [100%] Linking Fortran executable pfsearch cd /build/pftools-3.2.6/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/cmake -E cmake_link_script CMakeFiles/pfsearch.dir/link.txt --verbose=1 /usr/bin/f95 -Wl,--enable-new-dtags -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong CMakeFiles/pfsearch.dir/pfsearch.f.o -o pfsearch make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' [100%] Built target pfsearch make[2]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/pftools-3.2.6/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' debian/rules override_dh_auto_test make[1]: Entering directory '/build/pftools-3.2.6' dh_auto_test --no-parallel cd obj-x86_64-linux-gnu && make -j1 test ARGS\+=-j1 make[2]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' Running tests... /usr/bin/ctest --force-new-ctest-process -j1 Test project /build/pftools-3.2.6/obj-x86_64-linux-gnu Start 1: execute_test_V2.sh 1/5 Test #1: execute_test_V2.sh ................. Passed 0.62 sec Start 2: execute_test_V3.sh 2/5 Test #2: execute_test_V3.sh ................. Passed 40.49 sec Start 3: check_output_of_test_V3.sh 3/5 Test #3: check_output_of_test_V3.sh ......... Passed 39.73 sec Start 4: execute_test_scan_search.pl 4/5 Test #4: execute_test_scan_search.pl ........ Passed 9.67 sec Start 5: execute_test_pfsearchV3_iupac.pl 5/5 Test #5: execute_test_pfsearchV3_iupac.pl ... Passed 34.24 sec 100% tests passed, 0 tests failed out of 5 Total Test time (real) = 124.76 sec make[2]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' export PATH=/build/pftools-3.2.6/src/Fortran/:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path ; \ echo ${PATH} ; \ cd data ; \ . ./test.sh | \ sed -e '/^MA/s/\(N_SCORE=[68].5\)0*/\1/' \ -e '/^DT */d' > test.build ; \ grep -v '^DT *' test.out > test.compare ; \ diff -u test.compare test.build || true /build/pftools-3.2.6/src/Fortran/:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path /bin/sh: line 4: ./test.sh: No such file or directory grep: test.out: No such file or directory make[1]: Leaving directory '/build/pftools-3.2.6' create-stamp debian/debhelper-build-stamp dh_prep debian/rules override_dh_auto_install make[1]: Entering directory '/build/pftools-3.2.6' dh_auto_install cd obj-x86_64-linux-gnu && make -j16 install DESTDIR=/build/pftools-3.2.6/debian/pftools AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/pftools-3.2.6 -B/build/pftools-3.2.6/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 -- +--------------------------------------------------------------------+ -- | PfTools v3.2.6 | -- +--------------------------------------------------------------------+ -- | (C) Copyright SIB Swiss Institute of Bioinformatics | -- | Thierry Schuepbach (projects@vital-it.ch) | -- | | -- | PfTools is available from | -- | https://github.com/sib-swiss/pftools3 | -- | under the GPL v2. See LICENSE. | -- | | -- +--------------------------------------------------------------------+ -- Compilation on architecture x86_64. -- testing flag -msse4.1... -- Add -std=c99 to C compiler options -- Add SSE2 to C compiler options -- Perl found - full test suite usable -- Building test suite for pfsearch in /build/pftools-3.2.6/obj-x86_64-linux-gnu/Tests -- Check Perl script syntax compare_2_profiles.pl - syntax OK fasta_to_fastq.pl - syntax OK make_iupac_cmp.pl - syntax OK ps_scan.pl - syntax OK scramble_fasta.pl - syntax OK sort_fasta.pl - syntax OK split_profile_file.pl - syntax OK -- -- PfTools Software Suite configuration summary: -- -- System name ......................: Linux -- Build type .......................: None -- -- Integer format ...................: 16 bits -- -- Install prefix .................. : /usr -- C compiler ...................... : /usr/bin/cc -- Fortran compiler ................ : /usr/bin/f95 -- C compiler flags ................ : -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -- C compiler SSE2 flag. ........... : -msse2 -- C compiler SSE 4.1 flag.......... : -msse4.1 -- Fortran compiler flags .......... : -g -O2 -fdebug-prefix-map=/build/pftools-3.2.6=. -fstack-protector-strong -- -- Use file memory mapping ..........: ON -- Use thread affinity setting ......: ON -- -- Build shared libs ............... : OFF -- Build static libs ............... : OFF -- Build static executables......... : OFF -- -- Link with pcre .................. : ON -- -- Configuring done -- Generating done -- Build files have been written to: /build/pftools-3.2.6/obj-x86_64-linux-gnu make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/pftools-3.2.6/debian/pftools/usr/./LICENSE -- Installing: /build/pftools-3.2.6/debian/pftools/usr/./README.md -- Installing: /build/pftools-3.2.6/debian/pftools/usr/./README.pftools.v2.3.md -- Installing: /build/pftools-3.2.6/debian/pftools/usr/./ChangeLog -- Installing: /build/pftools-3.2.6/debian/pftools/usr/bin/pfsearchV3 -- Installing: /build/pftools-3.2.6/debian/pftools/usr/bin/pfscanV3 -- Installing: /build/pftools-3.2.6/debian/pftools/usr/bin/pfcalibrateV3 -- Installing: /build/pftools-3.2.6/debian/pftools/usr/bin/pfemit -- Installing: /build/pftools-3.2.6/debian/pftools/usr/bin/pfpam -- Installing: /build/pftools-3.2.6/debian/pftools/usr/bin/pfdump -- Installing: /build/pftools-3.2.6/debian/pftools/usr/bin/pfindex -- Installing: /build/pftools-3.2.6/debian/pftools/usr/bin/gtop -- Installing: /build/pftools-3.2.6/debian/pftools/usr/bin/htop -- Installing: /build/pftools-3.2.6/debian/pftools/usr/bin/ptoh -- Installing: /build/pftools-3.2.6/debian/pftools/usr/bin/ptof -- Installing: /build/pftools-3.2.6/debian/pftools/usr/bin/pfw -- Installing: /build/pftools-3.2.6/debian/pftools/usr/bin/2ft -- Installing: /build/pftools-3.2.6/debian/pftools/usr/bin/6ft -- Installing: /build/pftools-3.2.6/debian/pftools/usr/bin/psa2msa -- Installing: /build/pftools-3.2.6/debian/pftools/usr/bin/pfscale -- Installing: /build/pftools-3.2.6/debian/pftools/usr/bin/pfsearch -- Installing: /build/pftools-3.2.6/debian/pftools/usr/bin/pfscan -- Installing: /build/pftools-3.2.6/debian/pftools/usr/bin/pfmake -- Installing: /build/pftools-3.2.6/debian/pftools/usr/bin/compare_2_profiles.pl -- Installing: /build/pftools-3.2.6/debian/pftools/usr/bin/fasta_to_fastq.pl -- Installing: /build/pftools-3.2.6/debian/pftools/usr/bin/make_iupac_cmp.pl -- Installing: /build/pftools-3.2.6/debian/pftools/usr/bin/ps_scan.pl -- Installing: /build/pftools-3.2.6/debian/pftools/usr/bin/scramble_fasta.pl -- Installing: /build/pftools-3.2.6/debian/pftools/usr/bin/sort_fasta.pl -- Installing: /build/pftools-3.2.6/debian/pftools/usr/bin/split_profile_file.pl -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/calibration/window20.seq -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/calibration/reversed.seq -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/cmp/blosum100.cmp -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/cmp/blosum30.cmp -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/cmp/blosum45.cmp -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/cmp/blosum50.cmp -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/cmp/blosum62.cmp -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/cmp/blosum65.cmp -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/cmp/blosum80.cmp -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/cmp/dna_50_40.cmp -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/cmp/gonnet.cmp -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/cmp/iupac_50_40.cmp -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/cmp/pam120.cmp -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/cmp/pam160.cmp -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/cmp/pam200.cmp -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/cmp/pam220.cmp -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/cmp/pam250.cmp -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/cmp/pam30.cmp -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/cmp/pam40.cmp -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/cmp/pam400.cmp -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/cmp/pam80.cmp -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/reverse/forward.msa -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/reverse/forward.prf -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/reverse/forward.seq -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/reverse/forward_dna.seq -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/reverse/forward_dna_shift5.seq -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/reverse/reverse.msa -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/reverse/reverse.prf -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/reverse/reverse.seq -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/familyProfile/DoubleProfile.prf -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/familyProfile/sequence.seq -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/data/familyProfile/sh2.prf -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/test_scan_search.pl.cmake -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/test_pfsearchV3_iupac.pl.cmake -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/test_V3_output.sh.cmake -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/test_V3.sh.cmake -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/test_V3.out -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/test_V2.sh.cmake -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/standard.random -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/sh3.seq -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/sh3.prf -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/sh3.msf -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/sh3.gpr -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/sh2.prf -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/score.lis -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/sample.fastq -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/rand_dna.seq -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/rand_dna.prf -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/prosite13.prf -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/pfam_sh3.hmm -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/htop_issue.hmm -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/hiv.prf -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/hiv.fastq -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/ecp.prf -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/coils.prf -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/all.seq -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/all.prf -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/VAV_RAT.seq -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/VAV_HUMAN.seq -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/Toolbox.pm -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/SRR9619541.sample.fastq -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/RF00177.msa -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/R76849.seq -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/PS00741_PS50010.dat -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/MYSA_HUMAN -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/GTPA_HUMAN.dat -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/CVPBR322.embl -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/examples/16S.prf -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/doc/profile.pdf -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/doc/profile.txt -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/doc/posterPfsearchV3SIBdays2013_v0.3.pdf -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/doc/btt129.pdf -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/man/man1/2ft.1 -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/man/man1/6ft.1 -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/man/man1/gtop.1 -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/man/man1/htop.1 -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/man/man1/pfmake.1 -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/man/man1/pfscale.1 -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/man/man1/pfscan.1 -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/man/man1/pfsearch.1 -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/man/man1/pfsearchV2.1 -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/man/man1/pfw.1 -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/man/man1/psa2msa.1 -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/man/man1/ptof.1 -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/man/man1/ptoh.1 -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/man/man5/psa.5 -- Installing: /build/pftools-3.2.6/debian/pftools/usr/share/man/man5/xpsa.5 make[2]: Leaving directory '/build/pftools-3.2.6/obj-x86_64-linux-gnu' # Avoid name spacing conflict with htop and consequently also rename gtop mv debian/pftools/usr/bin/gtop debian/pftools/usr/bin/pfgtop mv debian/pftools/usr/bin/htop debian/pftools/usr/bin/pfhtop make[1]: Leaving directory '/build/pftools-3.2.6' dh_installdocs dh_installchangelogs dh_installexamples debian/rules override_dh_installman make[1]: Entering directory '/build/pftools-3.2.6' dh_installman mv debian/pftools/usr/share/man/man1/gtop.1 debian/pftools/usr/share/man/man1/pfgtop.1 mv debian/pftools/usr/share/man/man1/htop.1 debian/pftools/usr/share/man/man1/pfhtop.1 mv debian/pftools/usr/share/doc/*.pdf debian/pftools/usr/share/doc/pftools/ rm -f debian/pftools/usr/share/doc/*.txt debian/pftools/usr/ChangeLog debian/pftools/usr/README* debian/pftools/usr/LICENSE make[1]: Leaving directory '/build/pftools-3.2.6' dh_lintian dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dwz: debian/pftools/usr/bin/pfhtop: DWARF compression not beneficial - old size 42209 new size 42984 dwz: debian/pftools/usr/bin/pfmake: DWARF compression not beneficial - old size 54023 new size 55447 dwz: debian/pftools/usr/bin/pfscale: DWARF compression not beneficial - old size 43458 new size 44187 dwz: debian/pftools/usr/bin/pfscan: DWARF compression not beneficial - old size 66684 new size 70010 dwz: debian/pftools/usr/bin/pfsearch: DWARF compression not beneficial - old size 68858 new size 72375 dwz: debian/pftools/usr/bin/ptof: DWARF compression not beneficial - old size 41913 new size 42449 dwz: debian/pftools/usr/bin/ptoh: DWARF compression not beneficial - old size 35466 new size 36114 dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dpkg-gencontrol: warning: package pftools: substitution variable ${perl:Depends} unused, but is defined dpkg-gencontrol: warning: package pftools: substitution variable ${perl:Depends} unused, but is defined dh_md5sums dh_builddeb dpkg-deb: building package 'pftools' in '../pftools_3.2.6-1_amd64.deb'. dpkg-deb: building package 'pftools-dbgsym' in '../pftools-dbgsym_3.2.6-1_amd64.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../pftools_3.2.6-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/2355030/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/2355030/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/2355030 and its subdirectories I: Current time: Thu Feb 2 20:07:33 +14 2023 I: pbuilder-time-stamp: 1675318053