I: pbuilder: network access will be disabled during build I: Current time: Fri Aug 13 06:59:37 +14 2021 I: pbuilder-time-stamp: 1628787577 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: using eatmydata during job I: Copying source file I: copying [racon_1.4.20-1.dsc] I: copying [./racon_1.4.20.orig.tar.gz] I: copying [./racon_1.4.20-1.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.QGOQHgQC/trustedkeys.kbx': General error gpgv: Signature made Wed Jan 20 00:04:56 2021 +14 gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./racon_1.4.20-1.dsc dpkg-source: info: extracting racon in racon-1.4.20 dpkg-source: info: unpacking racon_1.4.20.orig.tar.gz dpkg-source: info: unpacking racon_1.4.20-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use_debian_packaged_libs.patch dpkg-source: info: applying remove_buildpath dpkg-source: info: applying py3 I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/7375/tmp/hooks/D01_modify_environment starting debug: Running on ionos12-i386. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash Removing 'diversion of /bin/sh to /bin/sh.distrib by dash' Adding 'diversion of /bin/sh to /bin/sh.distrib by bash' Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' Adding 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by bash' I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/7375/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/7375/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]="i686-pc-linux-gnu") BASH_VERSION='5.1.4(1)-release' BUILDDIR=/build BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=i386 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=7' DIRSTACK=() DISTRIBUTION= EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=i686 HOST_ARCH=i386 IFS=' ' INVOCATION_ID=15b53389ad31464f98ee4e87b4322bf4 LANG=C LANGUAGE=de_CH:de LC_ALL=C LD_LIBRARY_PATH=/usr/lib/libeatmydata LD_PRELOAD=libeatmydata.so MACHTYPE=i686-pc-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=7375 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.YPuiR7cCGX/pbuilderrc_Kze0 --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.YPuiR7cCGX/b2 --logfile b2/build.log --extrapackages usrmerge racon_1.4.20-1.dsc' SUDO_GID=112 SUDO_UID=107 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://78.137.99.97:3128 I: uname -a Linux i-capture-the-hostname 4.19.0-17-686-pae #1 SMP Debian 4.19.194-3 (2021-07-18) i686 GNU/Linux I: ls -l /bin total 5792 -rwxr-xr-x 1 root root 1367848 Aug 5 10:25 bash -rwxr-xr-x 3 root root 38280 Jul 21 2020 bunzip2 -rwxr-xr-x 3 root root 38280 Jul 21 2020 bzcat lrwxrwxrwx 1 root root 6 Jul 21 2020 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Jul 21 2020 bzdiff lrwxrwxrwx 1 root root 6 Jul 21 2020 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Sep 5 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 21 2020 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Jul 21 2020 bzgrep -rwxr-xr-x 3 root root 38280 Jul 21 2020 bzip2 -rwxr-xr-x 1 root root 17768 Jul 21 2020 bzip2recover lrwxrwxrwx 1 root root 6 Jul 21 2020 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 21 2020 bzmore -rwxr-xr-x 1 root root 38824 Sep 23 2020 cat -rwxr-xr-x 1 root root 71624 Sep 23 2020 chgrp -rwxr-xr-x 1 root root 67528 Sep 23 2020 chmod -rwxr-xr-x 1 root root 75752 Sep 23 2020 chown -rwxr-xr-x 1 root root 157960 Sep 23 2020 cp -rwxr-xr-x 1 root root 128724 Dec 11 2020 dash -rwxr-xr-x 1 root root 124904 Sep 23 2020 date -rwxr-xr-x 1 root root 92172 Sep 23 2020 dd -rwxr-xr-x 1 root root 100752 Sep 23 2020 df -rwxr-xr-x 1 root root 153964 Sep 23 2020 dir -rwxr-xr-x 1 root root 83644 Jul 29 09:09 dmesg lrwxrwxrwx 1 root root 8 Nov 8 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 8 2019 domainname -> hostname -rwxr-xr-x 1 root root 34664 Sep 23 2020 echo -rwxr-xr-x 1 root root 28 Nov 10 2020 egrep -rwxr-xr-x 1 root root 34664 Sep 23 2020 false -rwxr-xr-x 1 root root 28 Nov 10 2020 fgrep -rwxr-xr-x 1 root root 71928 Jul 29 09:09 findmnt -rwsr-xr-x 1 root root 30112 Feb 27 06:12 fusermount -rwxr-xr-x 1 root root 210488 Nov 10 2020 grep -rwxr-xr-x 2 root root 2346 Mar 3 13:30 gunzip -rwxr-xr-x 1 root root 6376 Mar 3 13:30 gzexe -rwxr-xr-x 1 root root 100952 Mar 3 13:30 gzip -rwxr-xr-x 1 root root 21916 Nov 8 2019 hostname -rwxr-xr-x 1 root root 83980 Sep 23 2020 ln -rwxr-xr-x 1 root root 55572 Feb 8 2020 login -rwxr-xr-x 1 root root 153964 Sep 23 2020 ls -rwxr-xr-x 1 root root 153124 Jul 29 09:09 lsblk -rwxr-xr-x 1 root root 96328 Sep 23 2020 mkdir -rwxr-xr-x 1 root root 79912 Sep 23 2020 mknod -rwxr-xr-x 1 root root 47048 Sep 23 2020 mktemp -rwxr-xr-x 1 root root 58920 Jul 29 09:09 more -rwsr-xr-x 1 root root 50720 Jul 29 09:09 mount -rwxr-xr-x 1 root root 13856 Jul 29 09:09 mountpoint -rwxr-xr-x 1 root root 157996 Sep 23 2020 mv lrwxrwxrwx 1 root root 8 Nov 8 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 19 05:38 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 38824 Sep 23 2020 pwd lrwxrwxrwx 1 root root 4 Aug 5 10:25 rbash -> bash -rwxr-xr-x 1 root root 46984 Sep 23 2020 readlink -rwxr-xr-x 1 root root 75720 Sep 23 2020 rm -rwxr-xr-x 1 root root 46984 Sep 23 2020 rmdir -rwxr-xr-x 1 root root 22292 Sep 28 2020 run-parts -rwxr-xr-x 1 root root 125036 Dec 23 2018 sed lrwxrwxrwx 1 root root 4 Aug 13 07:02 sh -> bash lrwxrwxrwx 1 root root 4 Aug 11 21:48 sh.distrib -> dash -rwxr-xr-x 1 root root 34696 Sep 23 2020 sleep -rwxr-xr-x 1 root root 83880 Sep 23 2020 stty -rwsr-xr-x 1 root root 79396 Jul 29 09:09 su -rwxr-xr-x 1 root root 34696 Sep 23 2020 sync -rwxr-xr-x 1 root root 602584 Feb 17 23:55 tar -rwxr-xr-x 1 root root 13860 Sep 28 2020 tempfile -rwxr-xr-x 1 root root 108520 Sep 23 2020 touch -rwxr-xr-x 1 root root 34664 Sep 23 2020 true -rwxr-xr-x 1 root root 17768 Feb 27 06:12 ulockmgr_server -rwsr-xr-x 1 root root 30236 Jul 29 09:09 umount -rwxr-xr-x 1 root root 34664 Sep 23 2020 uname -rwxr-xr-x 2 root root 2346 Mar 3 13:30 uncompress -rwxr-xr-x 1 root root 153964 Sep 23 2020 vdir -rwxr-xr-x 1 root root 63024 Jul 29 09:09 wdctl lrwxrwxrwx 1 root root 8 Nov 8 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 3 13:30 zcat -rwxr-xr-x 1 root root 1678 Mar 3 13:30 zcmp -rwxr-xr-x 1 root root 5880 Mar 3 13:30 zdiff -rwxr-xr-x 1 root root 29 Mar 3 13:30 zegrep -rwxr-xr-x 1 root root 29 Mar 3 13:30 zfgrep -rwxr-xr-x 1 root root 2081 Mar 3 13:30 zforce -rwxr-xr-x 1 root root 7585 Mar 3 13:30 zgrep -rwxr-xr-x 1 root root 2206 Mar 3 13:30 zless -rwxr-xr-x 1 root root 1842 Mar 3 13:30 zmore -rwxr-xr-x 1 root root 4553 Mar 3 13:30 znew I: user script /srv/workspace/pbuilder/7375/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: i386 Maintainer: Debian Pbuilder Team 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), cmake, libgtest-dev, libbioparser-dev (>= 3.0.12), libcereal-dev, libedlib-dev, libspoa-dev, libthread-pool-dev (>= 3.0.2), rampler dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19675 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 cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on libgtest-dev; however: Package libgtest-dev is not installed. pbuilder-satisfydepends-dummy depends on libbioparser-dev (>= 3.0.12); however: Package libbioparser-dev is not installed. pbuilder-satisfydepends-dummy depends on libcereal-dev; however: Package libcereal-dev is not installed. pbuilder-satisfydepends-dummy depends on libedlib-dev; however: Package libedlib-dev is not installed. pbuilder-satisfydepends-dummy depends on libspoa-dev; however: Package libspoa-dev is not installed. pbuilder-satisfydepends-dummy depends on libthread-pool-dev (>= 3.0.2); however: Package libthread-pool-dev is not installed. pbuilder-satisfydepends-dummy depends on rampler; however: Package rampler 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} googletest{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13{a} libbioparser-dev{a} libbrotli1{a} libcereal-dev{a} libcurl4{a} libdebhelper-perl{a} libedlib-dev{a} libedlib0{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libgtest-dev{a} libicu67{a} libjsoncpp24{a} libldap-2.4-2{a} libmagic-mgc{a} libmagic1{a} libncurses6{a} libnghttp2-14{a} libpipeline1{a} libprocps8{a} libpsl5{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsigsegv2{a} libspoa-dev{a} libspoa7.0.0{a} libssh2-1{a} libsub-override-perl{a} libthread-pool-dev{a} libtool{a} libuchardet0{a} libuv1{a} libxml2{a} m4{a} man-db{a} po-debconf{a} procps{a} rampler{a} rapidjson-dev{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl libarchive-cpio-perl libgpm2 libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx psmisc publicsuffix wget 0 packages upgraded, 62 newly installed, 0 to remove and 0 not upgraded. Need to get 33.0 MB of archives. After unpacking 125 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main i386 bsdextrautils i386 2.36.1-8 [149 kB] Get: 2 http://deb.debian.org/debian bullseye/main i386 libuchardet0 i386 0.0.7-1 [67.9 kB] Get: 3 http://deb.debian.org/debian bullseye/main i386 groff-base i386 1.22.4-6 [952 kB] Get: 4 http://deb.debian.org/debian bullseye/main i386 libpipeline1 i386 1.5.3-1 [36.8 kB] Get: 5 http://deb.debian.org/debian bullseye/main i386 man-db i386 2.9.4-2 [1367 kB] Get: 6 http://deb.debian.org/debian bullseye/main i386 libncurses6 i386 6.2+20201114-2 [110 kB] Get: 7 http://deb.debian.org/debian bullseye/main i386 libprocps8 i386 2:3.3.17-5 [64.2 kB] Get: 8 http://deb.debian.org/debian bullseye/main i386 procps i386 2:3.3.17-5 [501 kB] Get: 9 http://deb.debian.org/debian bullseye/main i386 sensible-utils all 0.0.14 [14.8 kB] Get: 10 http://deb.debian.org/debian bullseye/main i386 libmagic-mgc i386 1:5.39-3 [273 kB] Get: 11 http://deb.debian.org/debian bullseye/main i386 libmagic1 i386 1:5.39-3 [133 kB] Get: 12 http://deb.debian.org/debian bullseye/main i386 file i386 1:5.39-3 [69.0 kB] Get: 13 http://deb.debian.org/debian bullseye/main i386 gettext-base i386 0.21-4 [176 kB] Get: 14 http://deb.debian.org/debian bullseye/main i386 libsigsegv2 i386 2.13-1 [35.1 kB] Get: 15 http://deb.debian.org/debian bullseye/main i386 m4 i386 1.4.18-5 [206 kB] Get: 16 http://deb.debian.org/debian bullseye/main i386 autoconf all 2.69-14 [313 kB] Get: 17 http://deb.debian.org/debian bullseye/main i386 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 18 http://deb.debian.org/debian bullseye/main i386 automake all 1:1.16.3-2 [814 kB] Get: 19 http://deb.debian.org/debian bullseye/main i386 autopoint all 0.21-4 [510 kB] Get: 20 http://deb.debian.org/debian bullseye/main i386 cmake-data all 3.18.4-2 [1725 kB] Get: 21 http://deb.debian.org/debian bullseye/main i386 libicu67 i386 67.1-7 [8775 kB] Get: 22 http://deb.debian.org/debian bullseye/main i386 libxml2 i386 2.9.10+dfsg-6.7 [728 kB] Get: 23 http://deb.debian.org/debian bullseye/main i386 libarchive13 i386 3.4.3-2+b1 [384 kB] Get: 24 http://deb.debian.org/debian bullseye/main i386 libbrotli1 i386 1.0.9-2+b2 [286 kB] Get: 25 http://deb.debian.org/debian bullseye/main i386 libsasl2-modules-db i386 2.1.27+dfsg-2.1 [70.0 kB] Get: 26 http://deb.debian.org/debian bullseye/main i386 libsasl2-2 i386 2.1.27+dfsg-2.1 [110 kB] Get: 27 http://deb.debian.org/debian bullseye/main i386 libldap-2.4-2 i386 2.4.57+dfsg-3 [244 kB] Get: 28 http://deb.debian.org/debian bullseye/main i386 libnghttp2-14 i386 1.43.0-1 [85.7 kB] Get: 29 http://deb.debian.org/debian bullseye/main i386 libpsl5 i386 0.21.0-1.2 [57.9 kB] Get: 30 http://deb.debian.org/debian bullseye/main i386 librtmp1 i386 2.4+20151223.gitfa8646d.1-2+b2 [64.3 kB] Get: 31 http://deb.debian.org/debian bullseye/main i386 libssh2-1 i386 1.9.0-2 [164 kB] Get: 32 http://deb.debian.org/debian bullseye/main i386 libcurl4 i386 7.74.0-1.3+b1 [372 kB] Get: 33 http://deb.debian.org/debian bullseye/main i386 libexpat1 i386 2.2.10-2 [98.8 kB] Get: 34 http://deb.debian.org/debian bullseye/main i386 libjsoncpp24 i386 1.9.4-4 [86.1 kB] Get: 35 http://deb.debian.org/debian bullseye/main i386 librhash0 i386 1.4.1-2 [144 kB] Get: 36 http://deb.debian.org/debian bullseye/main i386 libuv1 i386 1.40.0-2 [139 kB] Get: 37 http://deb.debian.org/debian bullseye/main i386 cmake i386 3.18.4-2 [7029 kB] Get: 38 http://deb.debian.org/debian bullseye/main i386 libdebhelper-perl all 13.3.4 [189 kB] Get: 39 http://deb.debian.org/debian bullseye/main i386 libtool all 2.4.6-15 [513 kB] Get: 40 http://deb.debian.org/debian bullseye/main i386 dh-autoreconf all 20 [17.1 kB] Get: 41 http://deb.debian.org/debian bullseye/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Get: 42 http://deb.debian.org/debian bullseye/main i386 libsub-override-perl all 0.09-2 [10.2 kB] Get: 43 http://deb.debian.org/debian bullseye/main i386 libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB] Get: 44 http://deb.debian.org/debian bullseye/main i386 dh-strip-nondeterminism all 1.12.0-1 [15.4 kB] Get: 45 http://deb.debian.org/debian bullseye/main i386 libelf1 i386 0.183-1 [171 kB] Get: 46 http://deb.debian.org/debian bullseye/main i386 dwz i386 0.13+20210201-1 [179 kB] Get: 47 http://deb.debian.org/debian bullseye/main i386 gettext i386 0.21-4 [1322 kB] Get: 48 http://deb.debian.org/debian bullseye/main i386 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 49 http://deb.debian.org/debian bullseye/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 50 http://deb.debian.org/debian bullseye/main i386 debhelper all 13.3.4 [1049 kB] Get: 51 http://deb.debian.org/debian bullseye/main i386 googletest all 1.10.0.20201025-1.1 [629 kB] Get: 52 http://deb.debian.org/debian bullseye/main i386 zlib1g-dev i386 1:1.2.11.dfsg-2 [194 kB] Get: 53 http://deb.debian.org/debian bullseye/main i386 libbioparser-dev all 3.0.12-1 [7168 B] Get: 54 http://deb.debian.org/debian bullseye/main i386 rapidjson-dev all 1.1.0+dfsg2-7 [98.9 kB] Get: 55 http://deb.debian.org/debian bullseye/main i386 libcereal-dev all 1.3.0+dfsg-1 [210 kB] Get: 56 http://deb.debian.org/debian bullseye/main i386 libedlib0 i386 1.2.6-1 [16.2 kB] Get: 57 http://deb.debian.org/debian bullseye/main i386 libedlib-dev i386 1.2.6-1 [18.2 kB] Get: 58 http://deb.debian.org/debian bullseye/main i386 libgtest-dev i386 1.10.0.20201025-1.1 [1451 kB] Get: 59 http://deb.debian.org/debian bullseye/main i386 libspoa7.0.0 i386 4.0.7+ds-1+b1 [87.6 kB] Get: 60 http://deb.debian.org/debian bullseye/main i386 libspoa-dev i386 4.0.7+ds-1+b1 [6988 B] Get: 61 http://deb.debian.org/debian bullseye/main i386 libthread-pool-dev all 3.0.2-1 [4376 B] Get: 62 http://deb.debian.org/debian bullseye/main i386 rampler i386 2.0.0-1 [23.4 kB] Fetched 33.0 MB in 11s (2881 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19675 files and directories currently installed.) Preparing to unpack .../00-bsdextrautils_2.36.1-8_i386.deb ... Unpacking bsdextrautils (2.36.1-8) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../01-libuchardet0_0.0.7-1_i386.deb ... Unpacking libuchardet0:i386 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.4-6_i386.deb ... Unpacking groff-base (1.22.4-6) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../03-libpipeline1_1.5.3-1_i386.deb ... Unpacking libpipeline1:i386 (1.5.3-1) ... Selecting previously unselected package man-db. Preparing to unpack .../04-man-db_2.9.4-2_i386.deb ... Unpacking man-db (2.9.4-2) ... Selecting previously unselected package libncurses6:i386. Preparing to unpack .../05-libncurses6_6.2+20201114-2_i386.deb ... Unpacking libncurses6:i386 (6.2+20201114-2) ... Selecting previously unselected package libprocps8:i386. Preparing to unpack .../06-libprocps8_2%3a3.3.17-5_i386.deb ... Unpacking libprocps8:i386 (2:3.3.17-5) ... Selecting previously unselected package procps. Preparing to unpack .../07-procps_2%3a3.3.17-5_i386.deb ... Unpacking procps (2:3.3.17-5) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../08-sensible-utils_0.0.14_all.deb ... Unpacking sensible-utils (0.0.14) ... 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Selecting previously unselected package libarchive13:i386. Preparing to unpack .../22-libarchive13_3.4.3-2+b1_i386.deb ... Unpacking libarchive13:i386 (3.4.3-2+b1) ... Selecting previously unselected package libbrotli1:i386. Preparing to unpack .../23-libbrotli1_1.0.9-2+b2_i386.deb ... Unpacking libbrotli1:i386 (1.0.9-2+b2) ... Selecting previously unselected package libsasl2-modules-db:i386. Preparing to unpack .../24-libsasl2-modules-db_2.1.27+dfsg-2.1_i386.deb ... Unpacking libsasl2-modules-db:i386 (2.1.27+dfsg-2.1) ... Selecting previously unselected package libsasl2-2:i386. Preparing to unpack .../25-libsasl2-2_2.1.27+dfsg-2.1_i386.deb ... Unpacking libsasl2-2:i386 (2.1.27+dfsg-2.1) ... Selecting previously unselected package libldap-2.4-2:i386. Preparing to unpack .../26-libldap-2.4-2_2.4.57+dfsg-3_i386.deb ... Unpacking libldap-2.4-2:i386 (2.4.57+dfsg-3) ... Selecting previously unselected package libnghttp2-14:i386. Preparing to unpack .../27-libnghttp2-14_1.43.0-1_i386.deb ... Unpacking libnghttp2-14:i386 (1.43.0-1) ... Selecting previously unselected package libpsl5:i386. Preparing to unpack .../28-libpsl5_0.21.0-1.2_i386.deb ... Unpacking libpsl5:i386 (0.21.0-1.2) ... Selecting previously unselected package librtmp1:i386. Preparing to unpack .../29-librtmp1_2.4+20151223.gitfa8646d.1-2+b2_i386.deb ... Unpacking librtmp1:i386 (2.4+20151223.gitfa8646d.1-2+b2) ... Selecting previously unselected package libssh2-1:i386. Preparing to unpack .../30-libssh2-1_1.9.0-2_i386.deb ... Unpacking libssh2-1:i386 (1.9.0-2) ... Selecting previously unselected package libcurl4:i386. Preparing to unpack .../31-libcurl4_7.74.0-1.3+b1_i386.deb ... Unpacking libcurl4:i386 (7.74.0-1.3+b1) ... Selecting previously unselected package libexpat1:i386. Preparing to unpack .../32-libexpat1_2.2.10-2_i386.deb ... Unpacking libexpat1:i386 (2.2.10-2) ... Selecting previously unselected package libjsoncpp24:i386. 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Selecting previously unselected package libbioparser-dev. Preparing to unpack .../52-libbioparser-dev_3.0.12-1_all.deb ... Unpacking libbioparser-dev (3.0.12-1) ... Selecting previously unselected package rapidjson-dev. Preparing to unpack .../53-rapidjson-dev_1.1.0+dfsg2-7_all.deb ... Unpacking rapidjson-dev (1.1.0+dfsg2-7) ... Selecting previously unselected package libcereal-dev. Preparing to unpack .../54-libcereal-dev_1.3.0+dfsg-1_all.deb ... Unpacking libcereal-dev (1.3.0+dfsg-1) ... Selecting previously unselected package libedlib0. Preparing to unpack .../55-libedlib0_1.2.6-1_i386.deb ... Unpacking libedlib0 (1.2.6-1) ... Selecting previously unselected package libedlib-dev. Preparing to unpack .../56-libedlib-dev_1.2.6-1_i386.deb ... Unpacking libedlib-dev (1.2.6-1) ... Selecting previously unselected package libgtest-dev:i386. Preparing to unpack .../57-libgtest-dev_1.10.0.20201025-1.1_i386.deb ... Unpacking libgtest-dev:i386 (1.10.0.20201025-1.1) ... Selecting previously unselected package libspoa7.0.0:i386. Preparing to unpack .../58-libspoa7.0.0_4.0.7+ds-1+b1_i386.deb ... Unpacking libspoa7.0.0:i386 (4.0.7+ds-1+b1) ... Selecting previously unselected package libspoa-dev:i386. Preparing to unpack .../59-libspoa-dev_4.0.7+ds-1+b1_i386.deb ... Unpacking libspoa-dev:i386 (4.0.7+ds-1+b1) ... Selecting previously unselected package libthread-pool-dev. Preparing to unpack .../60-libthread-pool-dev_3.0.2-1_all.deb ... Unpacking libthread-pool-dev (3.0.2-1) ... Selecting previously unselected package rampler. Preparing to unpack .../61-rampler_2.0.0-1_i386.deb ... Unpacking rampler (2.0.0-1) ... Setting up libexpat1:i386 (2.2.10-2) ... Setting up libpipeline1:i386 (1.5.3-1) ... Setting up libpsl5:i386 (0.21.0-1.2) ... Setting up bsdextrautils (2.36.1-8) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up libicu67:i386 (67.1-7) ... Setting up libmagic-mgc (1:5.39-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.3.4) ... Setting up libbrotli1:i386 (1.0.9-2+b2) ... Setting up libnghttp2-14:i386 (1.43.0-1) ... Setting up libmagic1:i386 (1:5.39-3) ... Setting up gettext-base (0.21-4) ... Setting up file (1:5.39-3) ... Setting up googletest (1.10.0.20201025-1.1) ... Setting up rapidjson-dev (1.1.0+dfsg2-7) ... Setting up libsasl2-modules-db:i386 (2.1.27+dfsg-2.1) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up libuv1:i386 (1.40.0-2) ... Setting up rampler (2.0.0-1) ... Setting up librtmp1:i386 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libncurses6:i386 (6.2+20201114-2) ... Setting up libsigsegv2:i386 (2.13-1) ... Setting up libthread-pool-dev (3.0.2-1) ... Setting up libspoa7.0.0:i386 (4.0.7+ds-1+b1) ... Setting up autopoint (0.21-4) ... Setting up libedlib0 (1.2.6-1) ... Setting up libsasl2-2:i386 (2.1.27+dfsg-2.1) ... Setting up libjsoncpp24:i386 (1.9.4-4) ... Setting up zlib1g-dev:i386 (1:1.2.11.dfsg-2) ... Setting up sensible-utils (0.0.14) ... Setting up libbioparser-dev (3.0.12-1) ... Setting up librhash0:i386 (1.4.1-2) ... Setting up libuchardet0:i386 (0.0.7-1) ... Setting up libsub-override-perl (0.09-2) ... Setting up libssh2-1:i386 (1.9.0-2) ... Setting up cmake-data (3.18.4-2) ... Setting up libelf1:i386 (0.183-1) ... Setting up libxml2:i386 (2.9.10+dfsg-6.7) ... Setting up libprocps8:i386 (2:3.3.17-5) ... Setting up libfile-stripnondeterminism-perl (1.12.0-1) ... Setting up gettext (0.21-4) ... Setting up libgtest-dev:i386 (1.10.0.20201025-1.1) ... Setting up libtool (2.4.6-15) ... Setting up libarchive13:i386 (3.4.3-2+b1) ... Setting up libcereal-dev (1.3.0+dfsg-1) ... Setting up libldap-2.4-2:i386 (2.4.57+dfsg-3) ... Setting up m4 (1.4.18-5) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libedlib-dev (1.2.6-1) ... Setting up autoconf (2.69-14) ... Setting up dh-strip-nondeterminism (1.12.0-1) ... Setting up dwz (0.13+20210201-1) ... Setting up groff-base (1.22.4-6) ... Setting up procps (2:3.3.17-5) ... Setting up libcurl4:i386 (7.74.0-1.3+b1) ... 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 libspoa-dev:i386 (4.0.7+ds-1+b1) ... 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 dh-autoreconf (20) ... Setting up cmake (3.18.4-2) ... Setting up debhelper (13.3.4) ... Processing triggers for libc-bin (2.31-13) ... 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 Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: libfile-find-rule-perl libnumber-compare-perl libtext-glob-perl The following NEW packages will be installed: libfile-find-rule-perl libnumber-compare-perl libtext-glob-perl usrmerge 0 upgraded, 4 newly installed, 0 to remove and 0 not upgraded. Need to get 59.5 kB of archives. After this operation, 157 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian bullseye/main i386 libnumber-compare-perl all 0.03-1.1 [6956 B] Get:2 http://deb.debian.org/debian bullseye/main i386 libtext-glob-perl all 0.11-1 [8888 B] Get:3 http://deb.debian.org/debian bullseye/main i386 libfile-find-rule-perl all 0.34-1 [30.6 kB] Get:4 http://deb.debian.org/debian bullseye/main i386 usrmerge all 25 [13.0 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 59.5 kB in 0s (896 kB/s) Selecting previously unselected package libnumber-compare-perl. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (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 ... 25282 files and directories currently installed.) Preparing to unpack .../libnumber-compare-perl_0.03-1.1_all.deb ... Unpacking libnumber-compare-perl (0.03-1.1) ... Selecting previously unselected package libtext-glob-perl. Preparing to unpack .../libtext-glob-perl_0.11-1_all.deb ... Unpacking libtext-glob-perl (0.11-1) ... Selecting previously unselected package libfile-find-rule-perl. Preparing to unpack .../libfile-find-rule-perl_0.34-1_all.deb ... Unpacking libfile-find-rule-perl (0.34-1) ... Selecting previously unselected package usrmerge. Preparing to unpack .../archives/usrmerge_25_all.deb ... Unpacking usrmerge (25) ... Setting up libtext-glob-perl (0.11-1) ... Setting up libnumber-compare-perl (0.03-1.1) ... Setting up libfile-find-rule-perl (0.34-1) ... Setting up usrmerge (25) ... The system has been successfully converted. Processing triggers for man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. I: Building the package I: Running cd /build/racon-1.4.20/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package racon dpkg-buildpackage: info: source version 1.4.20-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Michael R. Crusoe dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 debian/rules clean dh clean --buildsystem=cmake dh_auto_clean -O--buildsystem=cmake dh_autoreconf_clean -O--buildsystem=cmake dh_clean -O--buildsystem=cmake debian/rules binary dh binary --buildsystem=cmake dh_update_autotools_config -O--buildsystem=cmake dh_autoreconf -O--buildsystem=cmake debian/rules override_dh_auto_configure make[1]: Entering directory '/build/racon-1.4.20' dh_auto_configure -- -Dracon_build_tests=ON -Dracon_build_wrapper=ON cd obj-i686-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/i386-linux-gnu -Dracon_build_tests=ON -Dracon_build_wrapper=ON .. -- The C compiler identification is GNU 10.2.1 -- The CXX compiler identification is GNU 10.2.1 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Found GTest: /usr/lib/i386-linux-gnu/libgtest.a -- 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/racon-1.4.20/obj-i686-linux-gnu # Somehow the means in the patch for CMakeLists.txt to replace -lpthread by -pthread to not work # Just hack it here sed -i 's/-lpthread/-pthread/' obj-*/CMakeFiles/racon_test.dir/link.txt make[1]: Leaving directory '/build/racon-1.4.20' dh_auto_build -O--buildsystem=cmake cd obj-i686-linux-gnu && make -j7 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/racon-1.4.20/obj-i686-linux-gnu' /usr/bin/cmake -S/build/racon-1.4.20 -B/build/racon-1.4.20/obj-i686-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/racon-1.4.20/obj-i686-linux-gnu/CMakeFiles /build/racon-1.4.20/obj-i686-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/racon-1.4.20/obj-i686-linux-gnu' make -f CMakeFiles/racon_test.dir/build.make CMakeFiles/racon_test.dir/depend make -f CMakeFiles/racon.dir/build.make CMakeFiles/racon.dir/depend make[3]: Entering directory '/build/racon-1.4.20/obj-i686-linux-gnu' cd /build/racon-1.4.20/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/racon-1.4.20 /build/racon-1.4.20 /build/racon-1.4.20/obj-i686-linux-gnu /build/racon-1.4.20/obj-i686-linux-gnu /build/racon-1.4.20/obj-i686-linux-gnu/CMakeFiles/racon_test.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/racon-1.4.20/obj-i686-linux-gnu' cd /build/racon-1.4.20/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/racon-1.4.20 /build/racon-1.4.20 /build/racon-1.4.20/obj-i686-linux-gnu /build/racon-1.4.20/obj-i686-linux-gnu /build/racon-1.4.20/obj-i686-linux-gnu/CMakeFiles/racon.dir/DependInfo.cmake --color= Dependee "/build/racon-1.4.20/obj-i686-linux-gnu/CMakeFiles/racon_test.dir/DependInfo.cmake" is newer than depender "/build/racon-1.4.20/obj-i686-linux-gnu/CMakeFiles/racon_test.dir/depend.internal". Dependee "/build/racon-1.4.20/obj-i686-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/racon-1.4.20/obj-i686-linux-gnu/CMakeFiles/racon_test.dir/depend.internal". Dependee "/build/racon-1.4.20/obj-i686-linux-gnu/CMakeFiles/racon.dir/DependInfo.cmake" is newer than depender "/build/racon-1.4.20/obj-i686-linux-gnu/CMakeFiles/racon.dir/depend.internal". Dependee "/build/racon-1.4.20/obj-i686-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/racon-1.4.20/obj-i686-linux-gnu/CMakeFiles/racon.dir/depend.internal". Scanning dependencies of target racon Scanning dependencies of target racon_test make[3]: Leaving directory '/build/racon-1.4.20/obj-i686-linux-gnu' make -f CMakeFiles/racon.dir/build.make CMakeFiles/racon.dir/build make[3]: Leaving directory '/build/racon-1.4.20/obj-i686-linux-gnu' make -f CMakeFiles/racon_test.dir/build.make CMakeFiles/racon_test.dir/build make[3]: Entering directory '/build/racon-1.4.20/obj-i686-linux-gnu' make[3]: Entering directory '/build/racon-1.4.20/obj-i686-linux-gnu' [ 7%] Building CXX object CMakeFiles/racon.dir/src/logger.cpp.o /usr/bin/c++ -DRACON_VERSION=\"v1.4.20\" -I/build/racon-1.4.20/src -I/build/racon-1.4.20/obj-i686-linux-gnu/config -g -O2 -fdebug-prefix-map=/build/racon-1.4.20=. -fstack-protector-strong -Wformat -Werror=format-security -ffloat-store -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -pthread -std=c++11 -o CMakeFiles/racon.dir/src/logger.cpp.o -c /build/racon-1.4.20/src/logger.cpp [ 21%] Building CXX object CMakeFiles/racon.dir/src/main.cpp.o /usr/bin/c++ -DRACON_VERSION=\"v1.4.20\" -I/build/racon-1.4.20/src -I/build/racon-1.4.20/obj-i686-linux-gnu/config -g -O2 -fdebug-prefix-map=/build/racon-1.4.20=. -fstack-protector-strong -Wformat -Werror=format-security -ffloat-store -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -pthread -std=c++11 -o CMakeFiles/racon.dir/src/main.cpp.o -c /build/racon-1.4.20/src/main.cpp [ 21%] Building CXX object CMakeFiles/racon_test.dir/test/racon_test.cpp.o /usr/bin/c++ -I/build/racon-1.4.20/src -I/build/racon-1.4.20/obj-i686-linux-gnu/config -g -O2 -fdebug-prefix-map=/build/racon-1.4.20=. -fstack-protector-strong -Wformat -Werror=format-security -ffloat-store -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -std=c++11 -o CMakeFiles/racon_test.dir/test/racon_test.cpp.o -c /build/racon-1.4.20/test/racon_test.cpp [ 35%] Building CXX object CMakeFiles/racon.dir/src/polisher.cpp.o [ 42%] Building CXX object CMakeFiles/racon.dir/src/sequence.cpp.o /usr/bin/c++ -DRACON_VERSION=\"v1.4.20\" -I/build/racon-1.4.20/src -I/build/racon-1.4.20/obj-i686-linux-gnu/config -g -O2 -fdebug-prefix-map=/build/racon-1.4.20=. -fstack-protector-strong -Wformat -Werror=format-security -ffloat-store -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -pthread -std=c++11 -o CMakeFiles/racon.dir/src/polisher.cpp.o -c /build/racon-1.4.20/src/polisher.cpp [ 50%] Building CXX object CMakeFiles/racon_test.dir/src/logger.cpp.o /usr/bin/c++ -DRACON_VERSION=\"v1.4.20\" -I/build/racon-1.4.20/src -I/build/racon-1.4.20/obj-i686-linux-gnu/config -g -O2 -fdebug-prefix-map=/build/racon-1.4.20=. -fstack-protector-strong -Wformat -Werror=format-security -ffloat-store -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -pthread -std=c++11 -o CMakeFiles/racon.dir/src/sequence.cpp.o -c /build/racon-1.4.20/src/sequence.cpp /usr/bin/c++ -I/build/racon-1.4.20/src -I/build/racon-1.4.20/obj-i686-linux-gnu/config -g -O2 -fdebug-prefix-map=/build/racon-1.4.20=. -fstack-protector-strong -Wformat -Werror=format-security -ffloat-store -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -std=c++11 -o CMakeFiles/racon_test.dir/src/logger.cpp.o -c /build/racon-1.4.20/src/logger.cpp [ 50%] Building CXX object CMakeFiles/racon.dir/src/overlap.cpp.o /usr/bin/c++ -DRACON_VERSION=\"v1.4.20\" -I/build/racon-1.4.20/src -I/build/racon-1.4.20/obj-i686-linux-gnu/config -g -O2 -fdebug-prefix-map=/build/racon-1.4.20=. -fstack-protector-strong -Wformat -Werror=format-security -ffloat-store -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -pthread -std=c++11 -o CMakeFiles/racon.dir/src/overlap.cpp.o -c /build/racon-1.4.20/src/overlap.cpp /build/racon-1.4.20/src/overlap.cpp: In member function 'virtual void racon::Overlap::align_overlaps(const char*, uint32_t, const char*, uint32_t)': /build/racon-1.4.20/src/overlap.cpp:219:48: warning: format '%zu' expects argument of type 'size_t', but argument 3 has type 'uint64_t' {aka 'long long unsigned int'} [-Wformat=] 219 | "edlib unable to align pair (%zu x %zu)!\n", q_id_, t_id_); | ~~^ ~~~~~ | | | | unsigned int uint64_t {aka long long unsigned int} | %llu /build/racon-1.4.20/src/overlap.cpp:219:54: warning: format '%zu' expects argument of type 'size_t', but argument 4 has type 'uint64_t' {aka 'long long unsigned int'} [-Wformat=] 219 | "edlib unable to align pair (%zu x %zu)!\n", q_id_, t_id_); | ~~^ ~~~~~ | | | | unsigned int uint64_t {aka long long unsigned int} | %llu [ 64%] Building CXX object CMakeFiles/racon_test.dir/src/overlap.cpp.o [ 71%] Building CXX object CMakeFiles/racon_test.dir/src/polisher.cpp.o [ 71%] Building CXX object CMakeFiles/racon.dir/src/window.cpp.o /usr/bin/c++ -DRACON_VERSION=\"v1.4.20\" -I/build/racon-1.4.20/src -I/build/racon-1.4.20/obj-i686-linux-gnu/config -g -O2 -fdebug-prefix-map=/build/racon-1.4.20=. -fstack-protector-strong -Wformat -Werror=format-security -ffloat-store -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -pthread -std=c++11 -o CMakeFiles/racon.dir/src/window.cpp.o -c /build/racon-1.4.20/src/window.cpp /usr/bin/c++ -I/build/racon-1.4.20/src -I/build/racon-1.4.20/obj-i686-linux-gnu/config -g -O2 -fdebug-prefix-map=/build/racon-1.4.20=. -fstack-protector-strong -Wformat -Werror=format-security -ffloat-store -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -std=c++11 -o CMakeFiles/racon_test.dir/src/polisher.cpp.o -c /build/racon-1.4.20/src/polisher.cpp /usr/bin/c++ -I/build/racon-1.4.20/src -I/build/racon-1.4.20/obj-i686-linux-gnu/config -g -O2 -fdebug-prefix-map=/build/racon-1.4.20=. -fstack-protector-strong -Wformat -Werror=format-security -ffloat-store -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -std=c++11 -o CMakeFiles/racon_test.dir/src/overlap.cpp.o -c /build/racon-1.4.20/src/overlap.cpp /build/racon-1.4.20/src/overlap.cpp: In member function 'virtual void racon::Overlap::align_overlaps(const char*, uint32_t, const char*, uint32_t)': /build/racon-1.4.20/src/overlap.cpp:219:48: warning: format '%zu' expects argument of type 'size_t', but argument 3 has type 'uint64_t' {aka 'long long unsigned int'} [-Wformat=] 219 | "edlib unable to align pair (%zu x %zu)!\n", q_id_, t_id_); | ~~^ ~~~~~ | | | | unsigned int uint64_t {aka long long unsigned int} | %llu /build/racon-1.4.20/src/overlap.cpp:219:54: warning: format '%zu' expects argument of type 'size_t', but argument 4 has type 'uint64_t' {aka 'long long unsigned int'} [-Wformat=] 219 | "edlib unable to align pair (%zu x %zu)!\n", q_id_, t_id_); | ~~^ ~~~~~ | | | | unsigned int uint64_t {aka long long unsigned int} | %llu [ 78%] Building CXX object CMakeFiles/racon_test.dir/src/sequence.cpp.o /usr/bin/c++ -I/build/racon-1.4.20/src -I/build/racon-1.4.20/obj-i686-linux-gnu/config -g -O2 -fdebug-prefix-map=/build/racon-1.4.20=. -fstack-protector-strong -Wformat -Werror=format-security -ffloat-store -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -std=c++11 -o CMakeFiles/racon_test.dir/src/sequence.cpp.o -c /build/racon-1.4.20/src/sequence.cpp [ 85%] Building CXX object CMakeFiles/racon_test.dir/src/window.cpp.o /usr/bin/c++ -I/build/racon-1.4.20/src -I/build/racon-1.4.20/obj-i686-linux-gnu/config -g -O2 -fdebug-prefix-map=/build/racon-1.4.20=. -fstack-protector-strong -Wformat -Werror=format-security -ffloat-store -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -std=c++11 -o CMakeFiles/racon_test.dir/src/window.cpp.o -c /build/racon-1.4.20/src/window.cpp /build/racon-1.4.20/src/window.cpp: In member function 'bool racon::Window::generate_consensus(std::shared_ptr, bool)': /build/racon-1.4.20/src/window.cpp:142:27: warning: format '%lu' expects argument of type 'long unsigned int', but argument 3 has type 'uint64_t' {aka 'long long unsigned int'} [-Wformat=] 142 | "contig %lu might be chimeric in window %u!\n", id_, rank_); | ~~^ ~~~ | | | | long unsigned int uint64_t {aka long long unsigned int} | %llu /build/racon-1.4.20/src/window.cpp: In member function 'bool racon::Window::generate_consensus(std::shared_ptr, bool)': /build/racon-1.4.20/src/window.cpp:142:27: warning: format '%lu' expects argument of type 'long unsigned int', but argument 3 has type 'uint64_t' {aka 'long long unsigned int'} [-Wformat=] 142 | "contig %lu might be chimeric in window %u!\n", id_, rank_); | ~~^ ~~~ | | | | long unsigned int uint64_t {aka long long unsigned int} | %llu [ 92%] Linking CXX executable bin/racon_test [100%] Linking CXX executable bin/racon /usr/bin/cmake -E cmake_link_script CMakeFiles/racon_test.dir/link.txt --verbose=1 /usr/bin/cmake -E cmake_link_script CMakeFiles/racon.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/racon-1.4.20=. -fstack-protector-strong -Wformat -Werror=format-security -ffloat-store -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -Wl,-z,relro -Wl,-z,now -rdynamic -pthread CMakeFiles/racon.dir/src/main.cpp.o CMakeFiles/racon.dir/src/logger.cpp.o CMakeFiles/racon.dir/src/polisher.cpp.o CMakeFiles/racon.dir/src/overlap.cpp.o CMakeFiles/racon.dir/src/sequence.cpp.o CMakeFiles/racon.dir/src/window.cpp.o -o bin/racon -lspoa -ledlib -lz /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/racon-1.4.20=. -fstack-protector-strong -Wformat -Werror=format-security -ffloat-store -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/racon_test.dir/test/racon_test.cpp.o CMakeFiles/racon_test.dir/src/logger.cpp.o CMakeFiles/racon_test.dir/src/polisher.cpp.o CMakeFiles/racon_test.dir/src/overlap.cpp.o CMakeFiles/racon_test.dir/src/sequence.cpp.o CMakeFiles/racon_test.dir/src/window.cpp.o -o bin/racon_test -lspoa -ledlib /usr/lib/i386-linux-gnu/libgtest_main.a -lz /usr/lib/i386-linux-gnu/libgtest.a -pthread make[3]: Leaving directory '/build/racon-1.4.20/obj-i686-linux-gnu' [100%] Built target racon make[3]: Leaving directory '/build/racon-1.4.20/obj-i686-linux-gnu' [100%] Built target racon_test make[2]: Leaving directory '/build/racon-1.4.20/obj-i686-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/racon-1.4.20/obj-i686-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/racon-1.4.20/obj-i686-linux-gnu' debian/rules override_dh_auto_test make[1]: Entering directory '/build/racon-1.4.20' cd test && ../obj-*/bin/racon_test Running main() from /build/googletest-W8gZIB/googletest-1.10.0.20201025/googletest/src/gtest_main.cc [==========] Running 15 tests from 2 test suites. [----------] Global test environment set-up. [----------] 5 tests from RaconInitializeTest [ RUN ] RaconInitializeTest.PolisherTypeError [ OK ] RaconInitializeTest.PolisherTypeError (3 ms) [ RUN ] RaconInitializeTest.WindowLengthError [ OK ] RaconInitializeTest.WindowLengthError (2 ms) [ RUN ] RaconInitializeTest.SequencesPathExtensionError [ OK ] RaconInitializeTest.SequencesPathExtensionError (2 ms) [ RUN ] RaconInitializeTest.OverlapsPathExtensionError [ OK ] RaconInitializeTest.OverlapsPathExtensionError (11 ms) [ RUN ] RaconInitializeTest.TargetPathExtensionError [ OK ] RaconInitializeTest.TargetPathExtensionError (11 ms) [----------] 5 tests from RaconInitializeTest (29 ms total) [----------] 10 tests from RaconPolishingTest [ RUN ] RaconPolishingTest.ConsensusWithQualities [racon::Polisher::initialize] loaded target sequences 0.001860 s [racon::Polisher::initialize] loaded sequences 0.065739 s [racon::Polisher::initialize] loaded overlaps 0.001065 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.112483 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.182223 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.220827 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.293999 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.341084 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.379249 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.454306 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.525438 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.570148 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.640793 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.697392 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.759275 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.844424 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.889932 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.964278 s [racon::Polisher::initialize] aligning overlaps [================> ] 1.038269 s [racon::Polisher::initialize] aligning overlaps [=================> ] 1.084493 s [racon::Polisher::initialize] aligning overlaps [==================> ] 1.143108 s [racon::Polisher::initialize] aligning overlaps [===================>] 1.210651 s [racon::Polisher::initialize] aligning overlaps [====================] 1.303742 s [racon::Polisher::initialize] transformed data into windows 0.055759 s [racon::Polisher::polish] generating consensus [=> ] 1.172776 s [racon::Polisher::polish] generating consensus [==> ] 2.219683 s [racon::Polisher::polish] generating consensus [===> ] 2.972668 s [racon::Polisher::polish] generating consensus [====> ] 3.555605 s [racon::Polisher::polish] generating consensus [=====> ] 3.986778 s [racon::Polisher::polish] generating consensus [======> ] 4.290163 s [racon::Polisher::polish] generating consensus [=======> ] 4.639162 s [racon::Polisher::polish] generating consensus [========> ] 5.244572 s [racon::Polisher::polish] generating consensus [=========> ] 5.832553 s [racon::Polisher::polish] generating consensus [==========> ] 6.611290 s [racon::Polisher::polish] generating consensus [===========> ] 7.789411 s [racon::Polisher::polish] generating consensus [============> ] 9.172658 s [racon::Polisher::polish] generating consensus [=============> ] 10.985235 s [racon::Polisher::polish] generating consensus [==============> ] 13.036544 s [racon::Polisher::polish] generating consensus [===============> ] 13.924551 s [racon::Polisher::polish] generating consensus [================> ] 15.075385 s [racon::Polisher::polish] generating consensus [=================> ] 16.239306 s [racon::Polisher::polish] generating consensus [==================> ] 17.175508 s [racon::Polisher::polish] generating consensus [===================>] 18.126645 s [racon::Polisher::polish] generating consensus [====================] 22.693799 s [racon::Polisher::] total = 24.214416 s [ OK ] RaconPolishingTest.ConsensusWithQualities (24240 ms) [ RUN ] RaconPolishingTest.ConsensusWithoutQualities [racon::Polisher::initialize] loaded target sequences 0.001205 s [racon::Polisher::initialize] loaded sequences 0.028820 s [racon::Polisher::initialize] loaded overlaps 0.000483 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.094692 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.153131 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.186122 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.253408 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.297445 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.335529 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.404723 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.471404 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.515648 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.585368 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.632481 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.692226 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.781699 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.824914 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.898934 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.970087 s [racon::Polisher::initialize] aligning overlaps [=================> ] 1.026901 s [racon::Polisher::initialize] aligning overlaps [==================> ] 1.086896 s [racon::Polisher::initialize] aligning overlaps [===================>] 1.151527 s [racon::Polisher::initialize] aligning overlaps [====================] 1.243989 s [racon::Polisher::initialize] transformed data into windows 0.001258 s [racon::Polisher::polish] generating consensus [=> ] 1.151551 s [racon::Polisher::polish] generating consensus [==> ] 2.502137 s [racon::Polisher::polish] generating consensus [===> ] 3.412207 s [racon::Polisher::polish] generating consensus [====> ] 4.207920 s [racon::Polisher::polish] generating consensus [=====> ] 4.661470 s [racon::Polisher::polish] generating consensus [======> ] 5.179344 s [racon::Polisher::polish] generating consensus [=======> ] 5.697358 s [racon::Polisher::polish] generating consensus [========> ] 6.495108 s [racon::Polisher::polish] generating consensus [=========> ] 7.370474 s [racon::Polisher::polish] generating consensus [==========> ] 8.712974 s [racon::Polisher::polish] generating consensus [===========> ] 10.156889 s [racon::Polisher::polish] generating consensus [============> ] 11.931611 s [racon::Polisher::polish] generating consensus [=============> ] 14.486818 s [racon::Polisher::polish] generating consensus [==============> ] 16.313558 s [racon::Polisher::polish] generating consensus [===============> ] 18.123120 s [racon::Polisher::polish] generating consensus [================> ] 19.812754 s [racon::Polisher::polish] generating consensus [=================> ] 21.195007 s [racon::Polisher::polish] generating consensus [==================> ] 22.082211 s [racon::Polisher::polish] generating consensus [===================>] 23.380443 s [racon::Polisher::polish] generating consensus [====================] 30.343006 s [racon::Polisher::] total = 31.683865 s [ OK ] RaconPolishingTest.ConsensusWithoutQualities (31700 ms) [ RUN ] RaconPolishingTest.ConsensusWithQualitiesAndAlignments [racon::Polisher::initialize] loaded target sequences 0.000882 s [racon::Polisher::initialize] loaded sequences 0.061407 s [racon::Polisher::initialize] loaded overlaps 0.041522 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.009305 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.009668 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.009966 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.010526 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.010694 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.011161 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.011573 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.011913 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.012531 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.012548 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.012659 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.013085 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.013257 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.013443 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.013863 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.014275 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.014653 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.015201 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.015602 s [racon::Polisher::initialize] aligning overlaps [====================] 0.016243 s [racon::Polisher::initialize] transformed data into windows 0.049398 s [racon::Polisher::polish] generating consensus [=> ] 1.118849 s [racon::Polisher::polish] generating consensus [==> ] 2.108022 s [racon::Polisher::polish] generating consensus [===> ] 2.924117 s [racon::Polisher::polish] generating consensus [====> ] 3.509874 s [racon::Polisher::polish] generating consensus [=====> ] 3.900693 s [racon::Polisher::polish] generating consensus [======> ] 4.172701 s [racon::Polisher::polish] generating consensus [=======> ] 4.520336 s [racon::Polisher::polish] generating consensus [========> ] 5.123089 s [racon::Polisher::polish] generating consensus [=========> ] 5.621154 s [racon::Polisher::polish] generating consensus [==========> ] 6.453752 s [racon::Polisher::polish] generating consensus [===========> ] 7.614424 s [racon::Polisher::polish] generating consensus [============> ] 8.802504 s [racon::Polisher::polish] generating consensus [=============> ] 10.690743 s [racon::Polisher::polish] generating consensus [==============> ] 12.799887 s [racon::Polisher::polish] generating consensus [===============> ] 13.864795 s [racon::Polisher::polish] generating consensus [================> ] 15.021679 s [racon::Polisher::polish] generating consensus [=================> ] 16.247894 s [racon::Polisher::polish] generating consensus [==================> ] 17.044042 s [racon::Polisher::polish] generating consensus [===================>] 17.835363 s [racon::Polisher::polish] generating consensus [====================] 22.225176 s [racon::Polisher::] total = 22.470691 s [ OK ] RaconPolishingTest.ConsensusWithQualitiesAndAlignments (22484 ms) [ RUN ] RaconPolishingTest.ConsensusWithoutQualitiesAndWithAlignments [racon::Polisher::initialize] loaded target sequences 0.000773 s [racon::Polisher::initialize] loaded sequences 0.026697 s [racon::Polisher::initialize] loaded overlaps 0.030731 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.004286 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.004558 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.004720 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.005055 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.005202 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.005472 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.005677 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.006033 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.006248 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.006552 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.006837 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.007077 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.007524 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.007601 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.007941 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.008284 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.008445 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.008734 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.009075 s [racon::Polisher::initialize] aligning overlaps [====================] 0.009481 s [racon::Polisher::initialize] transformed data into windows 0.000746 s [racon::Polisher::polish] generating consensus [=> ] 1.107528 s [racon::Polisher::polish] generating consensus [==> ] 2.286590 s [racon::Polisher::polish] generating consensus [===> ] 3.208931 s [racon::Polisher::polish] generating consensus [====> ] 3.848524 s [racon::Polisher::polish] generating consensus [=====> ] 4.321754 s [racon::Polisher::polish] generating consensus [======> ] 4.835953 s [racon::Polisher::polish] generating consensus [=======> ] 5.322717 s [racon::Polisher::polish] generating consensus [========> ] 6.130278 s [racon::Polisher::polish] generating consensus [=========> ] 6.731489 s [racon::Polisher::polish] generating consensus [==========> ] 8.012769 s [racon::Polisher::polish] generating consensus [===========> ] 9.303281 s [racon::Polisher::polish] generating consensus [============> ] 10.863794 s [racon::Polisher::polish] generating consensus [=============> ] 13.366982 s [racon::Polisher::polish] generating consensus [==============> ] 15.076678 s [racon::Polisher::polish] generating consensus [===============> ] 16.755286 s [racon::Polisher::polish] generating consensus [================> ] 18.328477 s [racon::Polisher::polish] generating consensus [=================> ] 19.823344 s [racon::Polisher::polish] generating consensus [==================> ] 20.675722 s [racon::Polisher::polish] generating consensus [===================>] 21.692656 s [racon::Polisher::polish] generating consensus [====================] 27.702338 s [racon::Polisher::] total = 27.851279 s [ OK ] RaconPolishingTest.ConsensusWithoutQualitiesAndWithAlignments (27866 ms) [ RUN ] RaconPolishingTest.ConsensusWithQualitiesLargerWindow [racon::Polisher::initialize] loaded target sequences 0.000869 s [racon::Polisher::initialize] loaded sequences 0.057997 s [racon::Polisher::initialize] loaded overlaps 0.000834 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.093496 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.146803 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.186737 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.253176 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.298518 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.329573 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.403611 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.467292 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.515373 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.586336 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.634999 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.690539 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.772822 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.814541 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.883567 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.952250 s [racon::Polisher::initialize] aligning overlaps [=================> ] 1.002642 s [racon::Polisher::initialize] aligning overlaps [==================> ] 1.056395 s [racon::Polisher::initialize] aligning overlaps [===================>] 1.120752 s [racon::Polisher::initialize] aligning overlaps [====================] 1.211487 s [racon::Polisher::initialize] transformed data into windows 0.051178 s [racon::Polisher::polish] generating consensus [=> ] 4.119123 s [racon::Polisher::polish] generating consensus [==> ] 4.119173 s [racon::Polisher::polish] generating consensus [===> ] 6.909231 s [racon::Polisher::polish] generating consensus [====> ] 6.909297 s [racon::Polisher::polish] generating consensus [=====> ] 8.104672 s [racon::Polisher::polish] generating consensus [======> ] 8.399775 s [racon::Polisher::polish] generating consensus [=======> ] 9.320477 s [racon::Polisher::polish] generating consensus [========> ] 10.304003 s [racon::Polisher::polish] generating consensus [=========> ] 11.733184 s [racon::Polisher::polish] generating consensus [==========> ] 13.384955 s [racon::Polisher::polish] generating consensus [===========> ] 16.212545 s [racon::Polisher::polish] generating consensus [============> ] 18.123666 s [racon::Polisher::polish] generating consensus [=============> ] 23.111971 s [racon::Polisher::polish] generating consensus [==============> ] 24.807102 s [racon::Polisher::polish] generating consensus [===============> ] 27.713531 s [racon::Polisher::polish] generating consensus [================> ] 28.848293 s [racon::Polisher::polish] generating consensus [=================> ] 31.989221 s [racon::Polisher::polish] generating consensus [==================> ] 32.192225 s [racon::Polisher::polish] generating consensus [===================>] 35.223918 s [racon::Polisher::polish] generating consensus [====================] 43.479802 s [racon::Polisher::] total = 44.879560 s [ OK ] RaconPolishingTest.ConsensusWithQualitiesLargerWindow (44892 ms) [ RUN ] RaconPolishingTest.ConsensusWithQualitiesEditDistance [racon::Polisher::initialize] loaded target sequences 0.000791 s [racon::Polisher::initialize] loaded sequences 0.056296 s [racon::Polisher::initialize] loaded overlaps 0.000525 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.095496 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.163121 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.205467 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.276240 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.323567 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.363405 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.444085 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.510632 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.555801 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.629252 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.682352 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.745575 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.830560 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.880384 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.951473 s [racon::Polisher::initialize] aligning overlaps [================> ] 1.027357 s [racon::Polisher::initialize] aligning overlaps [=================> ] 1.081148 s [racon::Polisher::initialize] aligning overlaps [==================> ] 1.138102 s [racon::Polisher::initialize] aligning overlaps [===================>] 1.209873 s [racon::Polisher::initialize] aligning overlaps [====================] 1.310329 s [racon::Polisher::initialize] transformed data into windows 0.046215 s [racon::Polisher::polish] generating consensus [=> ] 1.033815 s [racon::Polisher::polish] generating consensus [==> ] 1.959002 s [racon::Polisher::polish] generating consensus [===> ] 2.710914 s [racon::Polisher::polish] generating consensus [====> ] 3.284715 s [racon::Polisher::polish] generating consensus [=====> ] 3.677117 s [racon::Polisher::polish] generating consensus [======> ] 3.971149 s [racon::Polisher::polish] generating consensus [=======> ] 4.299867 s [racon::Polisher::polish] generating consensus [========> ] 4.846456 s [racon::Polisher::polish] generating consensus [=========> ] 5.459434 s [racon::Polisher::polish] generating consensus [==========> ] 6.207441 s [racon::Polisher::polish] generating consensus [===========> ] 7.304597 s [racon::Polisher::polish] generating consensus [============> ] 8.539011 s [racon::Polisher::polish] generating consensus [=============> ] 10.127688 s [racon::Polisher::polish] generating consensus [==============> ] 12.045821 s [racon::Polisher::polish] generating consensus [===============> ] 13.066095 s [racon::Polisher::polish] generating consensus [================> ] 14.113942 s [racon::Polisher::polish] generating consensus [=================> ] 15.214385 s [racon::Polisher::polish] generating consensus [==================> ] 16.077333 s [racon::Polisher::polish] generating consensus [===================>] 16.884656 s [racon::Polisher::polish] generating consensus [====================] 21.078063 s [racon::Polisher::] total = 22.556025 s [ OK ] RaconPolishingTest.ConsensusWithQualitiesEditDistance (22570 ms) [ RUN ] RaconPolishingTest.FragmentCorrectionWithQualities [racon::Polisher::initialize] loaded target sequences 0.055014 s [racon::Polisher::initialize] loaded sequences 0.057098 s [racon::Polisher::initialize] loaded overlaps 0.014823 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.090464 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.151566 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.221448 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.263591 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.319225 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.346492 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.413398 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.442155 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.498667 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.591568 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.629374 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.702717 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.795523 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.878357 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.966683 s [racon::Polisher::initialize] aligning overlaps [================> ] 1.051516 s [racon::Polisher::initialize] aligning overlaps [=================> ] 1.111521 s [racon::Polisher::initialize] aligning overlaps [==================> ] 1.223240 s [racon::Polisher::initialize] aligning overlaps [===================>] 1.288147 s [racon::Polisher::initialize] aligning overlaps [====================] 1.471337 s [racon::Polisher::initialize] transformed data into windows 0.067555 s [racon::Polisher::polish] generating consensus [=> ] 0.669924 s [racon::Polisher::polish] generating consensus [==> ] 1.396838 s [racon::Polisher::polish] generating consensus [===> ] 2.116397 s [racon::Polisher::polish] generating consensus [====> ] 2.116641 s [racon::Polisher::polish] generating consensus [=====> ] 2.591127 s [racon::Polisher::polish] generating consensus [======> ] 2.911325 s [racon::Polisher::polish] generating consensus [=======> ] 3.364513 s [racon::Polisher::polish] generating consensus [========> ] 3.396455 s [racon::Polisher::polish] generating consensus [=========> ] 4.400324 s [racon::Polisher::polish] generating consensus [==========> ] 4.748308 s [racon::Polisher::polish] generating consensus [===========> ] 5.050842 s [racon::Polisher::polish] generating consensus [============> ] 5.235541 s [racon::Polisher::polish] generating consensus [=============> ] 5.607529 s [racon::Polisher::polish] generating consensus [==============> ] 5.608404 s [racon::Polisher::polish] generating consensus [===============> ] 6.525799 s [racon::Polisher::polish] generating consensus [================> ] 6.525994 s [racon::Polisher::polish] generating consensus [=================> ] 8.220962 s [racon::Polisher::polish] generating consensus [==================> ] 8.835743 s [racon::Polisher::polish] generating consensus [===================>] 9.580442 s [racon::Polisher::polish] generating consensus [====================] 9.907433 s [racon::Polisher::] total = 11.574837 s [ OK ] RaconPolishingTest.FragmentCorrectionWithQualities (11589 ms) [ RUN ] RaconPolishingTest.FragmentCorrectionWithQualitiesFull [racon::Polisher::initialize] loaded target sequences 0.061001 s [racon::Polisher::initialize] loaded sequences 0.061927 s [racon::Polisher::initialize] loaded overlaps 0.016404 s [racon::Polisher::initialize] aligning overlaps [=> ] 1.505503 s [racon::Polisher::initialize] aligning overlaps [==> ] 2.514983 s [racon::Polisher::initialize] aligning overlaps [===> ] 3.418324 s [racon::Polisher::initialize] aligning overlaps [====> ] 4.749262 s [racon::Polisher::initialize] aligning overlaps [=====> ] 5.775704 s [racon::Polisher::initialize] aligning overlaps [======> ] 6.675733 s [racon::Polisher::initialize] aligning overlaps [=======> ] 7.829653 s [racon::Polisher::initialize] aligning overlaps [========> ] 9.286240 s [racon::Polisher::initialize] aligning overlaps [=========> ] 10.745654 s [racon::Polisher::initialize] aligning overlaps [==========> ] 12.050596 s [racon::Polisher::initialize] aligning overlaps [===========> ] 13.048979 s [racon::Polisher::initialize] aligning overlaps [============> ] 14.545160 s [racon::Polisher::initialize] aligning overlaps [=============> ] 16.110696 s [racon::Polisher::initialize] aligning overlaps [==============> ] 17.502634 s [racon::Polisher::initialize] aligning overlaps [===============> ] 19.143618 s [racon::Polisher::initialize] aligning overlaps [================> ] 20.706717 s [racon::Polisher::initialize] aligning overlaps [=================> ] 22.122912 s [racon::Polisher::initialize] aligning overlaps [==================> ] 23.628982 s [racon::Polisher::initialize] aligning overlaps [===================>] 25.258942 s [racon::Polisher::initialize] aligning overlaps [====================] 26.772122 s [racon::Polisher::initialize] transformed data into windows 1.247797 s [racon::Polisher::polish] generating consensus [=> ] 40.239577 s [racon::Polisher::polish] generating consensus [==> ] 76.667550 s [racon::Polisher::polish] generating consensus [===> ] 113.155401 s [racon::Polisher::polish] generating consensus [====> ] 144.627592 s [racon::Polisher::polish] generating consensus [=====> ] 170.718025 s [racon::Polisher::polish] generating consensus [======> ] 226.737314 s [racon::Polisher::polish] generating consensus [=======> ] 264.323590 s [racon::Polisher::polish] generating consensus [========> ] 290.367576 s [racon::Polisher::polish] generating consensus [=========> ] 319.083572 s [racon::Polisher::polish] generating consensus [==========> ] 352.690710 s [racon::Polisher::polish] generating consensus [===========> ] 380.557793 s [racon::Polisher::polish] generating consensus [============> ] 411.163770 s [racon::Polisher::polish] generating consensus [=============> ] 438.941296 s [racon::Polisher::polish] generating consensus [==============> ] 469.247452 s [racon::Polisher::polish] generating consensus [===============> ] 504.803575 s [racon::Polisher::polish] generating consensus [================> ] 527.431601 s [racon::Polisher::polish] generating consensus [=================> ] 566.531596 s [racon::Polisher::polish] generating consensus [==================> ] 607.151617 s [racon::Polisher::polish] generating consensus [===================>] 646.383584 s [racon::Polisher::polish] generating consensus [====================] 682.208009 s [racon::Polisher::] total = 710.372458 s [ OK ] RaconPolishingTest.FragmentCorrectionWithQualitiesFull (710387 ms) [ RUN ] RaconPolishingTest.FragmentCorrectionWithoutQualitiesFull [racon::Polisher::initialize] loaded target sequences 0.030028 s [racon::Polisher::initialize] loaded sequences 0.029600 s [racon::Polisher::initialize] loaded overlaps 0.016868 s [racon::Polisher::initialize] aligning overlaps [=> ] 1.894181 s [racon::Polisher::initialize] aligning overlaps [==> ] 3.092001 s [racon::Polisher::initialize] aligning overlaps [===> ] 4.094252 s [racon::Polisher::initialize] aligning overlaps [====> ] 5.672780 s [racon::Polisher::initialize] aligning overlaps [=====> ] 6.774176 s [racon::Polisher::initialize] aligning overlaps [======> ] 8.215651 s [racon::Polisher::initialize] aligning overlaps [=======> ] 10.834245 s [racon::Polisher::initialize] aligning overlaps [========> ] 13.634174 s [racon::Polisher::initialize] aligning overlaps [=========> ] 16.354169 s [racon::Polisher::initialize] aligning overlaps [==========> ] 18.238157 s [racon::Polisher::initialize] aligning overlaps [===========> ] 19.862155 s [racon::Polisher::initialize] aligning overlaps [============> ] 22.794172 s [racon::Polisher::initialize] aligning overlaps [=============> ] 25.434708 s [racon::Polisher::initialize] aligning overlaps [==============> ] 28.242180 s [racon::Polisher::initialize] aligning overlaps [===============> ] 31.562564 s [racon::Polisher::initialize] aligning overlaps [================> ] 34.514172 s [racon::Polisher::initialize] aligning overlaps [=================> ] 37.542154 s [racon::Polisher::initialize] aligning overlaps [==================> ] 40.198169 s [racon::Polisher::initialize] aligning overlaps [===================>] 43.322176 s [racon::Polisher::initialize] aligning overlaps [====================] 46.192597 s [racon::Polisher::initialize] transformed data into windows 0.027536 s [racon::Polisher::polish] generating consensus [=> ] 89.636115 s [racon::Polisher::polish] generating consensus [==> ] 166.140183 s [racon::Polisher::polish] generating consensus [===> ] 242.000915 s [racon::Polisher::polish] generating consensus [====> ] 293.156227 s [racon::Polisher::polish] generating consensus [=====> ] 344.432109 s [racon::Polisher::polish] generating consensus [======> ] 399.676267 s [racon::Polisher::polish] generating consensus [=======> ] 455.440103 s [racon::Polisher::polish] generating consensus [========> ] 501.216199 s [racon::Polisher::polish] generating consensus [=========> ] 553.132135 s [racon::Polisher::polish] generating consensus [==========> ] 611.008152 s [racon::Polisher::polish] generating consensus [===========> ] 659.296268 s [racon::Polisher::polish] generating consensus [============> ] 714.848575 s [racon::Polisher::polish] generating consensus [=============> ] 767.404116 s [racon::Polisher::polish] generating consensus [==============> ] 816.204337 s [racon::Polisher::polish] generating consensus [===============> ] 907.384116 s [racon::Polisher::polish] generating consensus [================> ] 959.800176 s [racon::Polisher::polish] generating consensus [=================> ] 1069.588115 s [racon::Polisher::polish] generating consensus [==================> ] 1165.390617 s [racon::Polisher::polish] generating consensus [===================>] 1250.948120 s [racon::Polisher::polish] generating consensus [====================] 1336.540466 s [racon::Polisher::] total = 1382.840627 s [ OK ] RaconPolishingTest.FragmentCorrectionWithoutQualitiesFull (1382861 ms) [ RUN ] RaconPolishingTest.FragmentCorrectionWithQualitiesFullMhap [racon::Polisher::initialize] loaded target sequences 0.070456 s [racon::Polisher::initialize] loaded sequences 0.064704 s [racon::Polisher::initialize] loaded overlaps 0.041796 s [racon::Polisher::initialize] aligning overlaps [=> ] 3.016152 s [racon::Polisher::initialize] aligning overlaps [==> ] 4.353065 s [racon::Polisher::initialize] aligning overlaps [===> ] 5.532136 s [racon::Polisher::initialize] aligning overlaps [====> ] 7.220144 s [racon::Polisher::initialize] aligning overlaps [=====> ] 8.784137 s [racon::Polisher::initialize] aligning overlaps [======> ] 10.340140 s [racon::Polisher::initialize] aligning overlaps [=======> ] 12.032111 s [racon::Polisher::initialize] aligning overlaps [========> ] 14.128134 s [racon::Polisher::initialize] aligning overlaps [=========> ] 16.420116 s [racon::Polisher::initialize] aligning overlaps [==========> ] 18.224155 s [racon::Polisher::initialize] aligning overlaps [===========> ] 20.068135 s [racon::Polisher::initialize] aligning overlaps [============> ] 23.284127 s [racon::Polisher::initialize] aligning overlaps [=============> ] 25.996134 s [racon::Polisher::initialize] aligning overlaps [==============> ] 29.376124 s [racon::Polisher::initialize] aligning overlaps [===============> ] 33.428121 s [racon::Polisher::initialize] aligning overlaps [================> ] 36.904156 s [racon::Polisher::initialize] aligning overlaps [=================> ] 41.000151 s [racon::Polisher::initialize] aligning overlaps [==================> ] 45.120207 s [racon::Polisher::initialize] aligning overlaps [===================>] 47.864109 s [racon::Polisher::initialize] aligning overlaps [====================] 50.055532 s [racon::Polisher::initialize] transformed data into windows 2.062995 s [racon::Polisher::polish] generating consensus [=> ] 56.575759 s [racon::Polisher::polish] generating consensus [==> ] 100.951795 s [racon::Polisher::polish] generating consensus [===> ] 133.570509 s [racon::Polisher::polish] generating consensus [====> ] 156.584334 s [racon::Polisher::polish] generating consensus [=====> ] 182.345455 s [racon::Polisher::polish] generating consensus [======> ] 211.864014 s [racon::Polisher::polish] generating consensus [=======> ] 241.336680 s [racon::Polisher::polish] generating consensus [========> ] 263.741143 s [racon::Polisher::polish] generating consensus [=========> ] 291.272713 s [racon::Polisher::polish] generating consensus [==========> ] 324.290803 s [racon::Polisher::polish] generating consensus [===========> ] 351.830127 s [racon::Polisher::polish] generating consensus [============> ] 383.033195 s [racon::Polisher::polish] generating consensus [=============> ] 411.217424 s [racon::Polisher::polish] generating consensus [==============> ] 454.959763 s [racon::Polisher::polish] generating consensus [===============> ] 510.267760 s [racon::Polisher::polish] generating consensus [================> ] 543.911809 s [racon::Polisher::polish] generating consensus [=================> ] 599.617155 s [racon::Polisher::polish] generating consensus [==================> ] 637.235778 s [racon::Polisher::polish] generating consensus [===================>] 676.907742 s [racon::Polisher::polish] generating consensus [====================] 713.841982 s [racon::Polisher::] total = 766.141623 s [ OK ] RaconPolishingTest.FragmentCorrectionWithQualitiesFullMhap (766162 ms) [----------] 10 tests from RaconPolishingTest (3044751 ms total) [----------] Global test environment tear-down [==========] 15 tests from 2 test suites ran. (3044780 ms total) [ PASSED ] 15 tests. make[1]: Leaving directory '/build/racon-1.4.20' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=cmake dh_prep -O--buildsystem=cmake dh_auto_install -O--buildsystem=cmake cd obj-i686-linux-gnu && make -j7 install DESTDIR=/build/racon-1.4.20/debian/racon AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/racon-1.4.20/obj-i686-linux-gnu' /usr/bin/cmake -S/build/racon-1.4.20 -B/build/racon-1.4.20/obj-i686-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/racon-1.4.20/obj-i686-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/racon-1.4.20/obj-i686-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/racon-1.4.20/debian/racon/usr/bin/racon make[1]: Leaving directory '/build/racon-1.4.20/obj-i686-linux-gnu' dh_install -O--buildsystem=cmake dh_installdocs -O--buildsystem=cmake dh_installchangelogs -O--buildsystem=cmake dh_installexamples -O--buildsystem=cmake dh_installman -O--buildsystem=cmake dh_installsystemduser -O--buildsystem=cmake dh_lintian -O--buildsystem=cmake dh_perl -O--buildsystem=cmake dh_link -O--buildsystem=cmake dh_strip_nondeterminism -O--buildsystem=cmake dh_compress -O--buildsystem=cmake dh_fixperms -O--buildsystem=cmake dh_missing -O--buildsystem=cmake dh_dwz -a -O--buildsystem=cmake dh_strip -a -O--buildsystem=cmake dh_makeshlibs -a -O--buildsystem=cmake dh_shlibdeps -a -O--buildsystem=cmake dh_installdeb -O--buildsystem=cmake dh_gencontrol -O--buildsystem=cmake dh_md5sums -O--buildsystem=cmake dh_builddeb -O--buildsystem=cmake dpkg-deb: building package 'racon' in '../racon_1.4.20-1_i386.deb'. dpkg-deb: building package 'racon-dbgsym' in '../racon-dbgsym_1.4.20-1_i386.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../racon_1.4.20-1_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: copying local configuration I: user script /srv/workspace/pbuilder/7375/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/7375/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/7375 and its subdirectories I: Current time: Fri Aug 13 07:55:45 +14 2021 I: pbuilder-time-stamp: 1628790945