I: pbuilder: network access will be disabled during build I: Current time: Fri Jul 23 04:52:12 +14 2021 I: pbuilder-time-stamp: 1626965532 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 [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.CBdfftlE/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/3090/tmp/hooks/D01_modify_environment starting debug: Running on virt64b. 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/3090/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/3090/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]="arm-unknown-linux-gnueabihf") 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=armhf DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=4' DIRSTACK=() DISTRIBUTION= EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=arm HOST_ARCH=armhf IFS=' ' INVOCATION_ID=748b58540c8b48788e5ff2fd9c91e7a1 LANG=C LANGUAGE=it_CH:it LC_ALL=C MACHTYPE=arm-unknown-linux-gnueabihf MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnueabihf 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=3090 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.UWUnNtgLix/pbuilderrc_yDpK --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.UWUnNtgLix/b2 --logfile b2/build.log --extrapackages usrmerge racon_1.4.20-1.dsc' SUDO_GID=113 SUDO_UID=107 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://10.0.0.15:8000/ I: uname -a Linux i-capture-the-hostname 5.10.0-7-arm64 #1 SMP Debian 5.10.40-1 (2021-05-28) aarch64 GNU/Linux I: ls -l /bin total 3580 -rwxr-xr-x 1 root root 816764 Jun 22 16:26 bash -rwxr-xr-x 3 root root 26052 Jul 21 2020 bunzip2 -rwxr-xr-x 3 root root 26052 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 26052 Jul 21 2020 bzip2 -rwxr-xr-x 1 root root 9636 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 26668 Sep 23 2020 cat -rwxr-xr-x 1 root root 43104 Sep 23 2020 chgrp -rwxr-xr-x 1 root root 38984 Sep 23 2020 chmod -rwxr-xr-x 1 root root 43112 Sep 23 2020 chown -rwxr-xr-x 1 root root 92616 Sep 23 2020 cp -rwxr-xr-x 1 root root 75524 Dec 11 2020 dash -rwxr-xr-x 1 root root 75880 Sep 23 2020 date -rwxr-xr-x 1 root root 55436 Sep 23 2020 dd -rwxr-xr-x 1 root root 59912 Sep 23 2020 df -rwxr-xr-x 1 root root 96764 Sep 23 2020 dir -rwxr-xr-x 1 root root 55012 Feb 8 04:38 dmesg lrwxrwxrwx 1 root root 8 Nov 8 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 8 2019 domainname -> hostname -rwxr-xr-x 1 root root 22508 Sep 23 2020 echo -rwxr-xr-x 1 root root 28 Nov 10 2020 egrep -rwxr-xr-x 1 root root 22496 Sep 23 2020 false -rwxr-xr-x 1 root root 28 Nov 10 2020 fgrep -rwxr-xr-x 1 root root 47492 Feb 8 04:38 findmnt -rwsr-xr-x 1 root root 26076 Feb 27 06:12 fusermount -rwxr-xr-x 1 root root 124508 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 64212 Mar 3 13:30 gzip -rwxr-xr-x 1 root root 13784 Nov 8 2019 hostname -rwxr-xr-x 1 root root 43180 Sep 23 2020 ln -rwxr-xr-x 1 root root 35068 Feb 8 2020 login -rwxr-xr-x 1 root root 96764 Sep 23 2020 ls -rwxr-xr-x 1 root root 99940 Feb 8 04:38 lsblk -rwxr-xr-x 1 root root 51408 Sep 23 2020 mkdir -rwxr-xr-x 1 root root 43184 Sep 23 2020 mknod -rwxr-xr-x 1 root root 30780 Sep 23 2020 mktemp -rwxr-xr-x 1 root root 34408 Feb 8 04:38 more -rwsr-xr-x 1 root root 34400 Feb 8 04:38 mount -rwxr-xr-x 1 root root 9824 Feb 8 04:38 mountpoint -rwxr-xr-x 1 root root 88524 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 26652 Sep 23 2020 pwd lrwxrwxrwx 1 root root 4 Jun 22 16:26 rbash -> bash -rwxr-xr-x 1 root root 30740 Sep 23 2020 readlink -rwxr-xr-x 1 root root 43104 Sep 23 2020 rm -rwxr-xr-x 1 root root 30732 Sep 23 2020 rmdir -rwxr-xr-x 1 root root 14144 Sep 28 2020 run-parts -rwxr-xr-x 1 root root 76012 Dec 23 2018 sed lrwxrwxrwx 1 root root 4 Jul 23 04:52 sh -> bash lrwxrwxrwx 1 root root 4 Jul 21 23:25 sh.distrib -> dash -rwxr-xr-x 1 root root 22532 Sep 23 2020 sleep -rwxr-xr-x 1 root root 55360 Sep 23 2020 stty -rwsr-xr-x 1 root root 46704 Feb 8 04:38 su -rwxr-xr-x 1 root root 22532 Sep 23 2020 sync -rwxr-xr-x 1 root root 340872 Feb 17 23:55 tar -rwxr-xr-x 1 root root 9808 Sep 28 2020 tempfile -rwxr-xr-x 1 root root 67696 Sep 23 2020 touch -rwxr-xr-x 1 root root 22496 Sep 23 2020 true -rwxr-xr-x 1 root root 9636 Feb 27 06:12 ulockmgr_server -rwsr-xr-x 1 root root 22108 Feb 8 04:38 umount -rwxr-xr-x 1 root root 22520 Sep 23 2020 uname -rwxr-xr-x 2 root root 2346 Mar 3 13:30 uncompress -rwxr-xr-x 1 root root 96764 Sep 23 2020 vdir -rwxr-xr-x 1 root root 38512 Feb 8 04:38 wdctl lrwxrwxrwx 1 root root 8 Nov 8 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 3 13:30 zcat -rwxr-xr-x 1 root root 1678 Mar 3 13:30 zcmp -rwxr-xr-x 1 root root 5880 Mar 3 13:30 zdiff -rwxr-xr-x 1 root root 29 Mar 3 13:30 zegrep -rwxr-xr-x 1 root root 29 Mar 3 13:30 zfgrep -rwxr-xr-x 1 root root 2081 Mar 3 13:30 zforce -rwxr-xr-x 1 root root 7585 Mar 3 13:30 zgrep -rwxr-xr-x 1 root root 2206 Mar 3 13:30 zless -rwxr-xr-x 1 root root 1842 Mar 3 13:30 zmore -rwxr-xr-x 1 root root 4553 Mar 3 13:30 znew I: user script /srv/workspace/pbuilder/3090/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: armhf 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 ... 19398 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 28.2 MB of archives. After unpacking 106 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main armhf bsdextrautils armhf 2.36.1-7 [138 kB] Get: 2 http://deb.debian.org/debian bullseye/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB] Get: 3 http://deb.debian.org/debian bullseye/main armhf groff-base armhf 1.22.4-6 [847 kB] Get: 4 http://deb.debian.org/debian bullseye/main armhf libpipeline1 armhf 1.5.3-1 [30.1 kB] Get: 5 http://deb.debian.org/debian bullseye/main armhf man-db armhf 2.9.4-2 [1319 kB] Get: 6 http://deb.debian.org/debian bullseye/main armhf libncurses6 armhf 6.2+20201114-2 [80.5 kB] Get: 7 http://deb.debian.org/debian bullseye/main armhf libprocps8 armhf 2:3.3.17-5 [60.7 kB] Get: 8 http://deb.debian.org/debian bullseye/main armhf procps armhf 2:3.3.17-5 [492 kB] Get: 9 http://deb.debian.org/debian bullseye/main armhf sensible-utils all 0.0.14 [14.8 kB] Get: 10 http://deb.debian.org/debian bullseye/main armhf libmagic-mgc armhf 1:5.39-3 [273 kB] Get: 11 http://deb.debian.org/debian bullseye/main armhf libmagic1 armhf 1:5.39-3 [117 kB] Get: 12 http://deb.debian.org/debian bullseye/main armhf file armhf 1:5.39-3 [68.1 kB] Get: 13 http://deb.debian.org/debian bullseye/main armhf gettext-base armhf 0.21-4 [171 kB] Get: 14 http://deb.debian.org/debian bullseye/main armhf libsigsegv2 armhf 2.13-1 [34.0 kB] Get: 15 http://deb.debian.org/debian bullseye/main armhf m4 armhf 1.4.18-5 [192 kB] Get: 16 http://deb.debian.org/debian bullseye/main armhf autoconf all 2.69-14 [313 kB] Get: 17 http://deb.debian.org/debian bullseye/main armhf autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 18 http://deb.debian.org/debian bullseye/main armhf automake all 1:1.16.3-2 [814 kB] Get: 19 http://deb.debian.org/debian bullseye/main armhf autopoint all 0.21-4 [510 kB] Get: 20 http://deb.debian.org/debian bullseye/main armhf cmake-data all 3.18.4-2 [1725 kB] Get: 21 http://deb.debian.org/debian bullseye/main armhf libicu67 armhf 67.1-7 [8319 kB] Get: 22 http://deb.debian.org/debian bullseye/main armhf libxml2 armhf 2.9.10+dfsg-6.7 [602 kB] Get: 23 http://deb.debian.org/debian bullseye/main armhf libarchive13 armhf 3.4.3-2+b1 [304 kB] Get: 24 http://deb.debian.org/debian bullseye/main armhf libbrotli1 armhf 1.0.9-2+b2 [262 kB] Get: 25 http://deb.debian.org/debian bullseye/main armhf libsasl2-modules-db armhf 2.1.27+dfsg-2.1 [67.6 kB] Get: 26 http://deb.debian.org/debian bullseye/main armhf libsasl2-2 armhf 2.1.27+dfsg-2.1 [99.1 kB] Get: 27 http://deb.debian.org/debian bullseye/main armhf libldap-2.4-2 armhf 2.4.57+dfsg-3 [210 kB] Get: 28 http://deb.debian.org/debian bullseye/main armhf libnghttp2-14 armhf 1.43.0-1 [65.6 kB] Get: 29 http://deb.debian.org/debian bullseye/main armhf libpsl5 armhf 0.21.0-1.2 [56.1 kB] Get: 30 http://deb.debian.org/debian bullseye/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [55.2 kB] Get: 31 http://deb.debian.org/debian bullseye/main armhf libssh2-1 armhf 1.9.0-2 [143 kB] Get: 32 http://deb.debian.org/debian bullseye/main armhf libcurl4 armhf 7.74.0-1.3+b1 [310 kB] Get: 33 http://deb.debian.org/debian bullseye/main armhf libexpat1 armhf 2.2.10-2 [76.3 kB] Get: 34 http://deb.debian.org/debian bullseye/main armhf libjsoncpp24 armhf 1.9.4-4 [68.5 kB] Get: 35 http://deb.debian.org/debian bullseye/main armhf librhash0 armhf 1.4.1-2 [144 kB] Get: 36 http://deb.debian.org/debian bullseye/main armhf libuv1 armhf 1.40.0-2 [120 kB] Get: 37 http://deb.debian.org/debian bullseye/main armhf cmake armhf 3.18.4-2 [3534 kB] Get: 38 http://deb.debian.org/debian bullseye/main armhf libdebhelper-perl all 13.3.4 [189 kB] Get: 39 http://deb.debian.org/debian bullseye/main armhf libtool all 2.4.6-15 [513 kB] Get: 40 http://deb.debian.org/debian bullseye/main armhf dh-autoreconf all 20 [17.1 kB] Get: 41 http://deb.debian.org/debian bullseye/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 42 http://deb.debian.org/debian bullseye/main armhf libsub-override-perl all 0.09-2 [10.2 kB] Get: 43 http://deb.debian.org/debian bullseye/main armhf libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB] Get: 44 http://deb.debian.org/debian bullseye/main armhf dh-strip-nondeterminism all 1.12.0-1 [15.4 kB] Get: 45 http://deb.debian.org/debian bullseye/main armhf libelf1 armhf 0.183-1 [161 kB] Get: 46 http://deb.debian.org/debian bullseye/main armhf dwz armhf 0.13+20210201-1 [179 kB] Get: 47 http://deb.debian.org/debian bullseye/main armhf gettext armhf 0.21-4 [1243 kB] Get: 48 http://deb.debian.org/debian bullseye/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 49 http://deb.debian.org/debian bullseye/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 50 http://deb.debian.org/debian bullseye/main armhf debhelper all 13.3.4 [1049 kB] Get: 51 http://deb.debian.org/debian bullseye/main armhf googletest all 1.10.0.20201025-1.1 [629 kB] Get: 52 http://deb.debian.org/debian bullseye/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-2 [185 kB] Get: 53 http://deb.debian.org/debian bullseye/main armhf libbioparser-dev all 3.0.12-1 [7168 B] Get: 54 http://deb.debian.org/debian bullseye/main armhf rapidjson-dev all 1.1.0+dfsg2-7 [98.9 kB] Get: 55 http://deb.debian.org/debian bullseye/main armhf libcereal-dev all 1.3.0+dfsg-1 [210 kB] Get: 56 http://deb.debian.org/debian bullseye/main armhf libedlib0 armhf 1.2.6-1 [13.5 kB] Get: 57 http://deb.debian.org/debian bullseye/main armhf libedlib-dev armhf 1.2.6-1 [15.9 kB] Get: 58 http://deb.debian.org/debian bullseye/main armhf libgtest-dev armhf 1.10.0.20201025-1.1 [1392 kB] Get: 59 http://deb.debian.org/debian bullseye/main armhf libspoa7.0.0 armhf 4.0.7+ds-1+b1 [58.1 kB] Get: 60 http://deb.debian.org/debian bullseye/main armhf libspoa-dev armhf 4.0.7+ds-1+b1 [7000 B] Get: 61 http://deb.debian.org/debian bullseye/main armhf libthread-pool-dev all 3.0.2-1 [4376 B] Get: 62 http://deb.debian.org/debian bullseye/main armhf rampler armhf 2.0.0-1 [19.8 kB] Fetched 28.2 MB in 3s (9833 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 ... 19398 files and directories currently installed.) Preparing to unpack .../00-bsdextrautils_2.36.1-7_armhf.deb ... Unpacking bsdextrautils (2.36.1-7) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../01-libuchardet0_0.0.7-1_armhf.deb ... Unpacking libuchardet0:armhf (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.4-6_armhf.deb ... Unpacking groff-base (1.22.4-6) ... Selecting previously unselected package libpipeline1:armhf. Preparing to unpack .../03-libpipeline1_1.5.3-1_armhf.deb ... Unpacking libpipeline1:armhf (1.5.3-1) ... Selecting previously unselected package man-db. Preparing to unpack .../04-man-db_2.9.4-2_armhf.deb ... Unpacking man-db (2.9.4-2) ... Selecting previously unselected package libncurses6:armhf. Preparing to unpack .../05-libncurses6_6.2+20201114-2_armhf.deb ... Unpacking libncurses6:armhf (6.2+20201114-2) ... Selecting previously unselected package libprocps8:armhf. Preparing to unpack .../06-libprocps8_2%3a3.3.17-5_armhf.deb ... Unpacking libprocps8:armhf (2:3.3.17-5) ... Selecting previously unselected package procps. Preparing to unpack .../07-procps_2%3a3.3.17-5_armhf.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:armhf. Preparing to unpack .../22-libarchive13_3.4.3-2+b1_armhf.deb ... Unpacking libarchive13:armhf (3.4.3-2+b1) ... Selecting previously unselected package libbrotli1:armhf. Preparing to unpack .../23-libbrotli1_1.0.9-2+b2_armhf.deb ... Unpacking libbrotli1:armhf (1.0.9-2+b2) ... Selecting previously unselected package libsasl2-modules-db:armhf. Preparing to unpack .../24-libsasl2-modules-db_2.1.27+dfsg-2.1_armhf.deb ... Unpacking libsasl2-modules-db:armhf (2.1.27+dfsg-2.1) ... Selecting previously unselected package libsasl2-2:armhf. Preparing to unpack .../25-libsasl2-2_2.1.27+dfsg-2.1_armhf.deb ... Unpacking libsasl2-2:armhf (2.1.27+dfsg-2.1) ... Selecting previously unselected package libldap-2.4-2:armhf. Preparing to unpack .../26-libldap-2.4-2_2.4.57+dfsg-3_armhf.deb ... Unpacking libldap-2.4-2:armhf (2.4.57+dfsg-3) ... Selecting previously unselected package libnghttp2-14:armhf. Preparing to unpack .../27-libnghttp2-14_1.43.0-1_armhf.deb ... Unpacking libnghttp2-14:armhf (1.43.0-1) ... Selecting previously unselected package libpsl5:armhf. Preparing to unpack .../28-libpsl5_0.21.0-1.2_armhf.deb ... Unpacking libpsl5:armhf (0.21.0-1.2) ... Selecting previously unselected package librtmp1:armhf. Preparing to unpack .../29-librtmp1_2.4+20151223.gitfa8646d.1-2+b2_armhf.deb ... Unpacking librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b2) ... Selecting previously unselected package libssh2-1:armhf. Preparing to unpack .../30-libssh2-1_1.9.0-2_armhf.deb ... Unpacking libssh2-1:armhf (1.9.0-2) ... Selecting previously unselected package libcurl4:armhf. Preparing to unpack .../31-libcurl4_7.74.0-1.3+b1_armhf.deb ... Unpacking libcurl4:armhf (7.74.0-1.3+b1) ... Selecting previously unselected package libexpat1:armhf. Preparing to unpack .../32-libexpat1_2.2.10-2_armhf.deb ... Unpacking libexpat1:armhf (2.2.10-2) ... 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Preparing to unpack .../57-libgtest-dev_1.10.0.20201025-1.1_armhf.deb ... Unpacking libgtest-dev:armhf (1.10.0.20201025-1.1) ... Selecting previously unselected package libspoa7.0.0:armhf. Preparing to unpack .../58-libspoa7.0.0_4.0.7+ds-1+b1_armhf.deb ... Unpacking libspoa7.0.0:armhf (4.0.7+ds-1+b1) ... Selecting previously unselected package libspoa-dev:armhf. Preparing to unpack .../59-libspoa-dev_4.0.7+ds-1+b1_armhf.deb ... Unpacking libspoa-dev:armhf (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_armhf.deb ... Unpacking rampler (2.0.0-1) ... Setting up libexpat1:armhf (2.2.10-2) ... Setting up libpipeline1:armhf (1.5.3-1) ... Setting up libpsl5:armhf (0.21.0-1.2) ... Setting up bsdextrautils (2.36.1-7) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up libicu67:armhf (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:armhf (1.0.9-2+b2) ... Setting up libnghttp2-14:armhf (1.43.0-1) ... Setting up libmagic1:armhf (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:armhf (2.1.27+dfsg-2.1) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up libuv1:armhf (1.40.0-2) ... Setting up rampler (2.0.0-1) ... Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libncurses6:armhf (6.2+20201114-2) ... Setting up libsigsegv2:armhf (2.13-1) ... Setting up libthread-pool-dev (3.0.2-1) ... Setting up libspoa7.0.0:armhf (4.0.7+ds-1+b1) ... Setting up autopoint (0.21-4) ... Setting up libedlib0 (1.2.6-1) ... Setting up libsasl2-2:armhf (2.1.27+dfsg-2.1) ... Setting up libjsoncpp24:armhf (1.9.4-4) ... Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-2) ... Setting up sensible-utils (0.0.14) ... Setting up libbioparser-dev (3.0.12-1) ... Setting up librhash0:armhf (1.4.1-2) ... Setting up libuchardet0:armhf (0.0.7-1) ... Setting up libsub-override-perl (0.09-2) ... Setting up libssh2-1:armhf (1.9.0-2) ... Setting up cmake-data (3.18.4-2) ... Setting up libelf1:armhf (0.183-1) ... Setting up libxml2:armhf (2.9.10+dfsg-6.7) ... Setting up libprocps8:armhf (2:3.3.17-5) ... Setting up libfile-stripnondeterminism-perl (1.12.0-1) ... Setting up gettext (0.21-4) ... Setting up libgtest-dev:armhf (1.10.0.20201025-1.1) ... Setting up libtool (2.4.6-15) ... Setting up libarchive13:armhf (3.4.3-2+b1) ... Setting up libcereal-dev (1.3.0+dfsg-1) ... Setting up libldap-2.4-2:armhf (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:armhf (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:armhf (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 (2.31-12) ... 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 armhf libnumber-compare-perl all 0.03-1.1 [6956 B] Get:2 http://deb.debian.org/debian bullseye/main armhf libtext-glob-perl all 0.11-1 [8888 B] Get:3 http://deb.debian.org/debian bullseye/main armhf libfile-find-rule-perl all 0.34-1 [30.6 kB] Get:4 http://deb.debian.org/debian bullseye/main armhf usrmerge all 25 [13.0 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 59.5 kB in 0s (1170 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 ... 25005 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 hostname: Name or service not known 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 && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../racon_1.4.20-1_source.changes 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 armhf 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-arm-linux-gnueabihf && 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/arm-linux-gnueabihf -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/arm-linux-gnueabihf/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-arm-linux-gnueabihf # 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-arm-linux-gnueabihf && make -j4 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/racon-1.4.20/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/build/racon-1.4.20 -B/build/racon-1.4.20/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/racon-1.4.20/obj-arm-linux-gnueabihf/CMakeFiles /build/racon-1.4.20/obj-arm-linux-gnueabihf//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/racon-1.4.20/obj-arm-linux-gnueabihf' 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-arm-linux-gnueabihf' cd /build/racon-1.4.20/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/racon-1.4.20 /build/racon-1.4.20 /build/racon-1.4.20/obj-arm-linux-gnueabihf /build/racon-1.4.20/obj-arm-linux-gnueabihf /build/racon-1.4.20/obj-arm-linux-gnueabihf/CMakeFiles/racon_test.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/racon-1.4.20/obj-arm-linux-gnueabihf' cd /build/racon-1.4.20/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/racon-1.4.20 /build/racon-1.4.20 /build/racon-1.4.20/obj-arm-linux-gnueabihf /build/racon-1.4.20/obj-arm-linux-gnueabihf /build/racon-1.4.20/obj-arm-linux-gnueabihf/CMakeFiles/racon.dir/DependInfo.cmake --color= Dependee "/build/racon-1.4.20/obj-arm-linux-gnueabihf/CMakeFiles/racon.dir/DependInfo.cmake" is newer than depender "/build/racon-1.4.20/obj-arm-linux-gnueabihf/CMakeFiles/racon.dir/depend.internal". Dependee "/build/racon-1.4.20/obj-arm-linux-gnueabihf/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/racon-1.4.20/obj-arm-linux-gnueabihf/CMakeFiles/racon.dir/depend.internal". Dependee "/build/racon-1.4.20/obj-arm-linux-gnueabihf/CMakeFiles/racon_test.dir/DependInfo.cmake" is newer than depender "/build/racon-1.4.20/obj-arm-linux-gnueabihf/CMakeFiles/racon_test.dir/depend.internal". Dependee "/build/racon-1.4.20/obj-arm-linux-gnueabihf/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/racon-1.4.20/obj-arm-linux-gnueabihf/CMakeFiles/racon_test.dir/depend.internal". Scanning dependencies of target racon Scanning dependencies of target racon_test make[3]: Leaving directory '/build/racon-1.4.20/obj-arm-linux-gnueabihf' make -f CMakeFiles/racon.dir/build.make CMakeFiles/racon.dir/build make[3]: Leaving directory '/build/racon-1.4.20/obj-arm-linux-gnueabihf' make -f CMakeFiles/racon_test.dir/build.make CMakeFiles/racon_test.dir/build make[3]: Entering directory '/build/racon-1.4.20/obj-arm-linux-gnueabihf' make[3]: Entering directory '/build/racon-1.4.20/obj-arm-linux-gnueabihf' [ 7%] Building CXX object CMakeFiles/racon.dir/src/main.cpp.o [ 14%] 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-arm-linux-gnueabihf/config -g -O2 -fdebug-prefix-map=/build/racon-1.4.20=. -fstack-protector-strong -Wformat -Werror=format-security -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 /usr/bin/c++ -DRACON_VERSION=\"v1.4.20\" -I/build/racon-1.4.20/src -I/build/racon-1.4.20/obj-arm-linux-gnueabihf/config -g -O2 -fdebug-prefix-map=/build/racon-1.4.20=. -fstack-protector-strong -Wformat -Werror=format-security -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.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-arm-linux-gnueabihf/config -g -O2 -fdebug-prefix-map=/build/racon-1.4.20=. -fstack-protector-strong -Wformat -Werror=format-security -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 [ 28%] Building CXX object CMakeFiles/racon.dir/src/polisher.cpp.o /usr/bin/c++ -DRACON_VERSION=\"v1.4.20\" -I/build/racon-1.4.20/src -I/build/racon-1.4.20/obj-arm-linux-gnueabihf/config -g -O2 -fdebug-prefix-map=/build/racon-1.4.20=. -fstack-protector-strong -Wformat -Werror=format-security -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 [ 35%] 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-arm-linux-gnueabihf/config -g -O2 -fdebug-prefix-map=/build/racon-1.4.20=. -fstack-protector-strong -Wformat -Werror=format-security -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 [ 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-arm-linux-gnueabihf/config -g -O2 -fdebug-prefix-map=/build/racon-1.4.20=. -fstack-protector-strong -Wformat -Werror=format-security -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 /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 [ 50%] 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-arm-linux-gnueabihf/config -g -O2 -fdebug-prefix-map=/build/racon-1.4.20=. -fstack-protector-strong -Wformat -Werror=format-security -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 [ 57%] Building CXX object CMakeFiles/racon_test.dir/src/logger.cpp.o /usr/bin/c++ -I/build/racon-1.4.20/src -I/build/racon-1.4.20/obj-arm-linux-gnueabihf/config -g -O2 -fdebug-prefix-map=/build/racon-1.4.20=. -fstack-protector-strong -Wformat -Werror=format-security -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 [ 64%] Building CXX object CMakeFiles/racon_test.dir/src/polisher.cpp.o /usr/bin/c++ -I/build/racon-1.4.20/src -I/build/racon-1.4.20/obj-arm-linux-gnueabihf/config -g -O2 -fdebug-prefix-map=/build/racon-1.4.20=. -fstack-protector-strong -Wformat -Werror=format-security -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 /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 [ 71%] Building CXX object CMakeFiles/racon_test.dir/src/overlap.cpp.o /usr/bin/c++ -I/build/racon-1.4.20/src -I/build/racon-1.4.20/obj-arm-linux-gnueabihf/config -g -O2 -fdebug-prefix-map=/build/racon-1.4.20=. -fstack-protector-strong -Wformat -Werror=format-security -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-arm-linux-gnueabihf/config -g -O2 -fdebug-prefix-map=/build/racon-1.4.20=. -fstack-protector-strong -Wformat -Werror=format-security -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-arm-linux-gnueabihf/config -g -O2 -fdebug-prefix-map=/build/racon-1.4.20=. -fstack-protector-strong -Wformat -Werror=format-security -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 [ 92%] Linking CXX executable bin/racon /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 -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 make[3]: Leaving directory '/build/racon-1.4.20/obj-arm-linux-gnueabihf' [ 92%] Built target racon [100%] Linking CXX executable bin/racon_test /usr/bin/cmake -E cmake_link_script CMakeFiles/racon_test.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 -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/arm-linux-gnueabihf/libgtest_main.a -lz /usr/lib/arm-linux-gnueabihf/libgtest.a -pthread make[3]: Leaving directory '/build/racon-1.4.20/obj-arm-linux-gnueabihf' [100%] Built target racon_test make[2]: Leaving directory '/build/racon-1.4.20/obj-arm-linux-gnueabihf' /usr/bin/cmake -E cmake_progress_start /build/racon-1.4.20/obj-arm-linux-gnueabihf/CMakeFiles 0 make[1]: Leaving directory '/build/racon-1.4.20/obj-arm-linux-gnueabihf' 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-z8qRA3/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 (1 ms) [ RUN ] RaconInitializeTest.WindowLengthError [ OK ] RaconInitializeTest.WindowLengthError (2 ms) [ RUN ] RaconInitializeTest.SequencesPathExtensionError [ OK ] RaconInitializeTest.SequencesPathExtensionError (2 ms) [ RUN ] RaconInitializeTest.OverlapsPathExtensionError [ OK ] RaconInitializeTest.OverlapsPathExtensionError (6 ms) [ RUN ] RaconInitializeTest.TargetPathExtensionError [ OK ] RaconInitializeTest.TargetPathExtensionError (6 ms) [----------] 5 tests from RaconInitializeTest (17 ms total) [----------] 10 tests from RaconPolishingTest [ RUN ] RaconPolishingTest.ConsensusWithQualities [racon::Polisher::initialize] loaded target sequences 0.001691 s [racon::Polisher::initialize] loaded sequences 0.086444 s [racon::Polisher::initialize] loaded overlaps 0.000750 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.080308 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.128298 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.136279 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.172269 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.212288 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.228269 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.268289 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.308291 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.360295 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.396279 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.412282 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.464297 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.508278 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.548287 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.596290 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.628292 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.672297 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.704279 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.778432 s [racon::Polisher::initialize] aligning overlaps [====================] 0.799540 s [racon::Polisher::initialize] transformed data into windows 0.008304 s [racon::Polisher::polish] generating consensus [=> ] 0.712272 s [racon::Polisher::polish] generating consensus [==> ] 1.332256 s [racon::Polisher::polish] generating consensus [===> ] 1.856257 s [racon::Polisher::polish] generating consensus [====> ] 2.248275 s [racon::Polisher::polish] generating consensus [=====> ] 2.448248 s [racon::Polisher::polish] generating consensus [======> ] 2.696248 s [racon::Polisher::polish] generating consensus [=======> ] 3.032254 s [racon::Polisher::polish] generating consensus [========> ] 3.356263 s [racon::Polisher::polish] generating consensus [=========> ] 3.804244 s [racon::Polisher::polish] generating consensus [==========> ] 4.396246 s [racon::Polisher::polish] generating consensus [===========> ] 5.256250 s [racon::Polisher::polish] generating consensus [============> ] 5.864245 s [racon::Polisher::polish] generating consensus [=============> ] 7.200244 s [racon::Polisher::polish] generating consensus [==============> ] 8.280253 s [racon::Polisher::polish] generating consensus [===============> ] 9.080239 s [racon::Polisher::polish] generating consensus [================> ] 9.756248 s [racon::Polisher::polish] generating consensus [=================> ] 10.564247 s [racon::Polisher::polish] generating consensus [==================> ] 11.328249 s [racon::Polisher::polish] generating consensus [===================>] 11.796247 s [racon::Polisher::polish] generating consensus [====================] 14.521327 s [racon::Polisher::] total = 15.450651 s [ OK ] RaconPolishingTest.ConsensusWithQualities (15461 ms) [ RUN ] RaconPolishingTest.ConsensusWithoutQualities [racon::Polisher::initialize] loaded target sequences 0.001524 s [racon::Polisher::initialize] loaded sequences 0.049321 s [racon::Polisher::initialize] loaded overlaps 0.000774 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.072476 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.128474 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.136466 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.184474 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.212479 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.228461 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.284478 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.356464 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.356499 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.380479 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.416467 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.468459 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.496460 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.520447 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.556454 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.592446 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.624474 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.656444 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.696468 s [racon::Polisher::initialize] aligning overlaps [====================] 0.746041 s [racon::Polisher::initialize] transformed data into windows 0.001053 s [racon::Polisher::polish] generating consensus [=> ] 0.829206 s [racon::Polisher::polish] generating consensus [==> ] 1.801200 s [racon::Polisher::polish] generating consensus [===> ] 2.417196 s [racon::Polisher::polish] generating consensus [====> ] 2.865219 s [racon::Polisher::polish] generating consensus [=====> ] 3.081193 s [racon::Polisher::polish] generating consensus [======> ] 3.421190 s [racon::Polisher::polish] generating consensus [=======> ] 3.717191 s [racon::Polisher::polish] generating consensus [========> ] 4.157222 s [racon::Polisher::polish] generating consensus [=========> ] 4.701203 s [racon::Polisher::polish] generating consensus [==========> ] 5.605193 s [racon::Polisher::polish] generating consensus [===========> ] 6.457190 s [racon::Polisher::polish] generating consensus [============> ] 7.669200 s [racon::Polisher::polish] generating consensus [=============> ] 9.389190 s [racon::Polisher::polish] generating consensus [==============> ] 10.485239 s [racon::Polisher::polish] generating consensus [===============> ] 11.693194 s [racon::Polisher::polish] generating consensus [================> ] 12.865238 s [racon::Polisher::polish] generating consensus [=================> ] 13.941203 s [racon::Polisher::polish] generating consensus [==================> ] 14.525210 s [racon::Polisher::polish] generating consensus [===================>] 15.217198 s [racon::Polisher::polish] generating consensus [====================] 19.896517 s [racon::Polisher::] total = 20.725207 s [ OK ] RaconPolishingTest.ConsensusWithoutQualities (20736 ms) [ RUN ] RaconPolishingTest.ConsensusWithQualitiesAndAlignments [racon::Polisher::initialize] loaded target sequences 0.001478 s [racon::Polisher::initialize] loaded sequences 0.082825 s [racon::Polisher::initialize] loaded overlaps 0.040693 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.019458 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.019487 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.019504 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.019519 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.019533 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.019547 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.019560 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.019574 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.019588 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.025362 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.025387 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.025401 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.025415 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.025429 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.025443 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.025457 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.025471 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.025485 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.025500 s [racon::Polisher::initialize] aligning overlaps [====================] 0.025514 s [racon::Polisher::initialize] transformed data into windows 0.007573 s [racon::Polisher::polish] generating consensus [=> ] 0.686197 s [racon::Polisher::polish] generating consensus [==> ] 1.382198 s [racon::Polisher::polish] generating consensus [===> ] 1.926204 s [racon::Polisher::polish] generating consensus [====> ] 2.338226 s [racon::Polisher::polish] generating consensus [=====> ] 2.434194 s [racon::Polisher::polish] generating consensus [======> ] 2.706180 s [racon::Polisher::polish] generating consensus [=======> ] 2.902185 s [racon::Polisher::polish] generating consensus [========> ] 3.346221 s [racon::Polisher::polish] generating consensus [=========> ] 3.658189 s [racon::Polisher::polish] generating consensus [==========> ] 4.182190 s [racon::Polisher::polish] generating consensus [===========> ] 4.966193 s [racon::Polisher::polish] generating consensus [============> ] 5.822188 s [racon::Polisher::polish] generating consensus [=============> ] 7.034191 s [racon::Polisher::polish] generating consensus [==============> ] 8.286190 s [racon::Polisher::polish] generating consensus [===============> ] 8.870214 s [racon::Polisher::polish] generating consensus [================> ] 9.598186 s [racon::Polisher::polish] generating consensus [=================> ] 10.266183 s [racon::Polisher::polish] generating consensus [==================> ] 10.802189 s [racon::Polisher::polish] generating consensus [===================>] 11.310192 s [racon::Polisher::polish] generating consensus [====================] 14.054525 s [racon::Polisher::] total = 14.245035 s [ OK ] RaconPolishingTest.ConsensusWithQualitiesAndAlignments (14254 ms) [ RUN ] RaconPolishingTest.ConsensusWithoutQualitiesAndWithAlignments [racon::Polisher::initialize] loaded target sequences 0.001483 s [racon::Polisher::initialize] loaded sequences 0.048545 s [racon::Polisher::initialize] loaded overlaps 0.040948 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.011003 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.011031 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.011046 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.011060 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.011074 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.011088 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.011101 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.011114 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.011128 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.016683 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.016710 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.016725 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.016739 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.016753 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.016766 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.016780 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.016793 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.016807 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.016822 s [racon::Polisher::initialize] aligning overlaps [====================] 0.016836 s [racon::Polisher::initialize] transformed data into windows 0.000902 s [racon::Polisher::polish] generating consensus [=> ] 0.737033 s [racon::Polisher::polish] generating consensus [==> ] 1.409040 s [racon::Polisher::polish] generating consensus [===> ] 2.161030 s [racon::Polisher::polish] generating consensus [====> ] 2.537061 s [racon::Polisher::polish] generating consensus [=====> ] 2.809029 s [racon::Polisher::polish] generating consensus [======> ] 3.105030 s [racon::Polisher::polish] generating consensus [=======> ] 3.493047 s [racon::Polisher::polish] generating consensus [========> ] 4.077060 s [racon::Polisher::polish] generating consensus [=========> ] 4.473015 s [racon::Polisher::polish] generating consensus [==========> ] 5.205043 s [racon::Polisher::polish] generating consensus [===========> ] 6.097033 s [racon::Polisher::polish] generating consensus [============> ] 7.045009 s [racon::Polisher::polish] generating consensus [=============> ] 8.653040 s [racon::Polisher::polish] generating consensus [==============> ] 9.793020 s [racon::Polisher::polish] generating consensus [===============> ] 10.893039 s [racon::Polisher::polish] generating consensus [================> ] 11.857083 s [racon::Polisher::polish] generating consensus [=================> ] 13.085034 s [racon::Polisher::polish] generating consensus [==================> ] 13.593030 s [racon::Polisher::polish] generating consensus [===================>] 14.117022 s [racon::Polisher::polish] generating consensus [====================] 17.893481 s [racon::Polisher::] total = 18.025902 s [ OK ] RaconPolishingTest.ConsensusWithoutQualitiesAndWithAlignments (18036 ms) [ RUN ] RaconPolishingTest.ConsensusWithQualitiesLargerWindow [racon::Polisher::initialize] loaded target sequences 0.001509 s [racon::Polisher::initialize] loaded sequences 0.083018 s [racon::Polisher::initialize] loaded overlaps 0.000664 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.084255 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.116244 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.156288 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.192233 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.244235 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.244272 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.284233 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.316239 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.356237 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.396247 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.424247 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.468238 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.516242 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.548233 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.604230 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.648238 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.700235 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.748242 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.772226 s [racon::Polisher::initialize] aligning overlaps [====================] 0.816035 s [racon::Polisher::initialize] transformed data into windows 0.007955 s [racon::Polisher::polish] generating consensus [=> ] 2.503998 s [racon::Polisher::polish] generating consensus [==> ] 2.672001 s [racon::Polisher::polish] generating consensus [===> ] 4.508035 s [racon::Polisher::polish] generating consensus [====> ] 4.508095 s [racon::Polisher::polish] generating consensus [=====> ] 5.260014 s [racon::Polisher::polish] generating consensus [======> ] 5.440004 s [racon::Polisher::polish] generating consensus [=======> ] 6.200012 s [racon::Polisher::polish] generating consensus [========> ] 6.648029 s [racon::Polisher::polish] generating consensus [=========> ] 7.692013 s [racon::Polisher::polish] generating consensus [==========> ] 8.796045 s [racon::Polisher::polish] generating consensus [===========> ] 10.380007 s [racon::Polisher::polish] generating consensus [============> ] 12.020012 s [racon::Polisher::polish] generating consensus [=============> ] 14.952006 s [racon::Polisher::polish] generating consensus [==============> ] 16.316002 s [racon::Polisher::polish] generating consensus [===============> ] 17.888009 s [racon::Polisher::polish] generating consensus [================> ] 19.004041 s [racon::Polisher::polish] generating consensus [=================> ] 20.880015 s [racon::Polisher::polish] generating consensus [==================> ] 21.264003 s [racon::Polisher::polish] generating consensus [===================>] 23.876398 s [racon::Polisher::polish] generating consensus [====================] 29.767240 s [racon::Polisher::] total = 30.712466 s [ OK ] RaconPolishingTest.ConsensusWithQualitiesLargerWindow (30730 ms) [ RUN ] RaconPolishingTest.ConsensusWithQualitiesEditDistance [racon::Polisher::initialize] loaded target sequences 0.001441 s [racon::Polisher::initialize] loaded sequences 0.082492 s [racon::Polisher::initialize] loaded overlaps 0.000607 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.106425 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.166432 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.194398 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.258399 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.306410 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.346400 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.422397 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.486392 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.542393 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.586396 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.618389 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.670407 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.758397 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.806386 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.838398 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.910393 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.946401 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.998388 s [racon::Polisher::initialize] aligning overlaps [===================>] 1.054400 s [racon::Polisher::initialize] aligning overlaps [====================] 1.123312 s [racon::Polisher::initialize] transformed data into windows 0.008598 s [racon::Polisher::polish] generating consensus [=> ] 1.046286 s [racon::Polisher::polish] generating consensus [==> ] 1.822296 s [racon::Polisher::polish] generating consensus [===> ] 2.518288 s [racon::Polisher::polish] generating consensus [====> ] 3.066303 s [racon::Polisher::polish] generating consensus [=====> ] 3.383371 s [racon::Polisher::polish] generating consensus [======> ] 3.786278 s [racon::Polisher::polish] generating consensus [=======> ] 4.002282 s [racon::Polisher::polish] generating consensus [========> ] 4.594332 s [racon::Polisher::polish] generating consensus [=========> ] 5.378285 s [racon::Polisher::polish] generating consensus [==========> ] 6.165718 s [racon::Polisher::polish] generating consensus [===========> ] 6.978285 s [racon::Polisher::polish] generating consensus [============> ] 8.010274 s [racon::Polisher::polish] generating consensus [=============> ] 9.650314 s [racon::Polisher::polish] generating consensus [==============> ] 10.762301 s [racon::Polisher::polish] generating consensus [===============> ] 11.726300 s [racon::Polisher::polish] generating consensus [================> ] 12.602438 s [racon::Polisher::polish] generating consensus [=================> ] 13.370290 s [racon::Polisher::polish] generating consensus [==================> ] 14.173914 s [racon::Polisher::polish] generating consensus [===================>] 14.846322 s [racon::Polisher::polish] generating consensus [====================] 18.764585 s [racon::Polisher::] total = 20.014614 s [ OK ] RaconPolishingTest.ConsensusWithQualitiesEditDistance (20025 ms) [ RUN ] RaconPolishingTest.FragmentCorrectionWithQualities [racon::Polisher::initialize] loaded target sequences 0.086223 s [racon::Polisher::initialize] loaded sequences 0.086884 s [racon::Polisher::initialize] loaded overlaps 0.023637 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.117003 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.181002 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.245031 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.309017 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.365012 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.377002 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.453021 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.515846 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.541005 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.629012 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.636997 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.705009 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.773000 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.853017 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.908998 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.985002 s [racon::Polisher::initialize] aligning overlaps [=================> ] 1.028986 s [racon::Polisher::initialize] aligning overlaps [==================> ] 1.101631 s [racon::Polisher::initialize] aligning overlaps [===================>] 1.169002 s [racon::Polisher::initialize] aligning overlaps [====================] 1.302622 s [racon::Polisher::initialize] transformed data into windows 0.013532 s [racon::Polisher::polish] generating consensus [=> ] 0.732541 s [racon::Polisher::polish] generating consensus [==> ] 1.472507 s [racon::Polisher::polish] generating consensus [===> ] 2.180609 s [racon::Polisher::polish] generating consensus [====> ] 2.180934 s [racon::Polisher::polish] generating consensus [=====> ] 2.648633 s [racon::Polisher::polish] generating consensus [======> ] 2.904645 s [racon::Polisher::polish] generating consensus [=======> ] 3.276657 s [racon::Polisher::polish] generating consensus [========> ] 3.276982 s [racon::Polisher::polish] generating consensus [=========> ] 4.096978 s [racon::Polisher::polish] generating consensus [==========> ] 4.368469 s [racon::Polisher::polish] generating consensus [===========> ] 4.668630 s [racon::Polisher::polish] generating consensus [============> ] 4.760127 s [racon::Polisher::polish] generating consensus [=============> ] 5.080639 s [racon::Polisher::polish] generating consensus [==============> ] 5.080917 s [racon::Polisher::polish] generating consensus [===============> ] 6.025937 s [racon::Polisher::polish] generating consensus [================> ] 6.026245 s [racon::Polisher::polish] generating consensus [=================> ] 7.692650 s [racon::Polisher::polish] generating consensus [==================> ] 8.244600 s [racon::Polisher::polish] generating consensus [===================>] 9.036711 s [racon::Polisher::polish] generating consensus [====================] 9.320657 s [racon::Polisher::] total = 10.835074 s [ OK ] RaconPolishingTest.FragmentCorrectionWithQualities (10847 ms) [ RUN ] RaconPolishingTest.FragmentCorrectionWithQualitiesFull [racon::Polisher::initialize] loaded target sequences 0.088221 s [racon::Polisher::initialize] loaded sequences 0.084383 s [racon::Polisher::initialize] loaded overlaps 0.021508 s [racon::Polisher::initialize] aligning overlaps [=> ] 1.596988 s [racon::Polisher::initialize] aligning overlaps [==> ] 2.833006 s [racon::Polisher::initialize] aligning overlaps [===> ] 3.770068 s [racon::Polisher::initialize] aligning overlaps [====> ] 4.754863 s [racon::Polisher::initialize] aligning overlaps [=====> ] 5.790114 s [racon::Polisher::initialize] aligning overlaps [======> ] 6.629010 s [racon::Polisher::initialize] aligning overlaps [=======> ] 7.673531 s [racon::Polisher::initialize] aligning overlaps [========> ] 9.173003 s [racon::Polisher::initialize] aligning overlaps [=========> ] 10.505000 s [racon::Polisher::initialize] aligning overlaps [==========> ] 11.852757 s [racon::Polisher::initialize] aligning overlaps [===========> ] 12.816999 s [racon::Polisher::initialize] aligning overlaps [============> ] 14.193004 s [racon::Polisher::initialize] aligning overlaps [=============> ] 15.689025 s [racon::Polisher::initialize] aligning overlaps [==============> ] 16.795963 s [racon::Polisher::initialize] aligning overlaps [===============> ] 18.141009 s [racon::Polisher::initialize] aligning overlaps [================> ] 19.365002 s [racon::Polisher::initialize] aligning overlaps [=================> ] 20.493016 s [racon::Polisher::initialize] aligning overlaps [==================> ] 21.713011 s [racon::Polisher::initialize] aligning overlaps [===================>] 23.021003 s [racon::Polisher::initialize] aligning overlaps [====================] 24.468263 s [racon::Polisher::initialize] transformed data into windows 0.219615 s [racon::Polisher::polish] generating consensus [=> ] 31.324996 s [racon::Polisher::polish] generating consensus [==> ] 52.448971 s [racon::Polisher::polish] generating consensus [===> ] 75.997053 s [racon::Polisher::polish] generating consensus [====> ] 91.305057 s [racon::Polisher::polish] generating consensus [=====> ] 109.800975 s [racon::Polisher::polish] generating consensus [======> ] 133.992985 s [racon::Polisher::polish] generating consensus [=======> ] 158.528977 s [racon::Polisher::polish] generating consensus [========> ] 176.396985 s [racon::Polisher::polish] generating consensus [=========> ] 198.520973 s [racon::Polisher::polish] generating consensus [==========> ] 220.340975 s [racon::Polisher::polish] generating consensus [===========> ] 243.064936 s [racon::Polisher::polish] generating consensus [============> ] 267.368971 s [racon::Polisher::polish] generating consensus [=============> ] 287.177002 s [racon::Polisher::polish] generating consensus [==============> ] 309.144983 s [racon::Polisher::polish] generating consensus [===============> ] 334.796978 s [racon::Polisher::polish] generating consensus [================> ] 347.169044 s [racon::Polisher::polish] generating consensus [=================> ] 369.680981 s [racon::Polisher::polish] generating consensus [==================> ] 393.641055 s [racon::Polisher::polish] generating consensus [===================>] 415.573589 s [racon::Polisher::polish] generating consensus [====================] 434.788759 s [racon::Polisher::] total = 459.677850 s [ OK ] RaconPolishingTest.FragmentCorrectionWithQualitiesFull (459693 ms) [ RUN ] RaconPolishingTest.FragmentCorrectionWithoutQualitiesFull [racon::Polisher::initialize] loaded target sequences 0.052274 s [racon::Polisher::initialize] loaded sequences 0.050055 s [racon::Polisher::initialize] loaded overlaps 0.023050 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.979655 s [racon::Polisher::initialize] aligning overlaps [==> ] 1.664388 s [racon::Polisher::initialize] aligning overlaps [===> ] 2.264439 s [racon::Polisher::initialize] aligning overlaps [====> ] 3.128372 s [racon::Polisher::initialize] aligning overlaps [=====> ] 3.772378 s [racon::Polisher::initialize] aligning overlaps [======> ] 4.356370 s [racon::Polisher::initialize] aligning overlaps [=======> ] 5.088373 s [racon::Polisher::initialize] aligning overlaps [========> ] 6.028385 s [racon::Polisher::initialize] aligning overlaps [=========> ] 6.936391 s [racon::Polisher::initialize] aligning overlaps [==========> ] 7.740929 s [racon::Polisher::initialize] aligning overlaps [===========> ] 8.467417 s [racon::Polisher::initialize] aligning overlaps [============> ] 9.428398 s [racon::Polisher::initialize] aligning overlaps [=============> ] 10.492594 s [racon::Polisher::initialize] aligning overlaps [==============> ] 11.316375 s [racon::Polisher::initialize] aligning overlaps [===============> ] 12.324588 s [racon::Polisher::initialize] aligning overlaps [================> ] 13.284388 s [racon::Polisher::initialize] aligning overlaps [=================> ] 14.172401 s [racon::Polisher::initialize] aligning overlaps [==================> ] 15.136385 s [racon::Polisher::initialize] aligning overlaps [===================>] 16.160364 s [racon::Polisher::initialize] aligning overlaps [====================] 17.201343 s [racon::Polisher::initialize] transformed data into windows 0.039572 s [racon::Polisher::polish] generating consensus [=> ] 32.412258 s [racon::Polisher::polish] generating consensus [==> ] 58.212232 s [racon::Polisher::polish] generating consensus [===> ] 89.880324 s [racon::Polisher::polish] generating consensus [====> ] 115.724317 s [racon::Polisher::polish] generating consensus [=====> ] 147.216243 s [racon::Polisher::polish] generating consensus [======> ] 183.584238 s [racon::Polisher::polish] generating consensus [=======> ] 224.004256 s [racon::Polisher::polish] generating consensus [========> ] 251.328247 s [racon::Polisher::polish] generating consensus [=========> ] 285.508256 s [racon::Polisher::polish] generating consensus [==========> ] 327.548249 s [racon::Polisher::polish] generating consensus [===========> ] 363.119925 s [racon::Polisher::polish] generating consensus [============> ] 410.523743 s [racon::Polisher::polish] generating consensus [=============> ] 452.016250 s [racon::Polisher::polish] generating consensus [==============> ] 499.796261 s [racon::Polisher::polish] generating consensus [===============> ] 546.364260 s [racon::Polisher::polish] generating consensus [================> ] 572.596329 s [racon::Polisher::polish] generating consensus [=================> ] 630.652260 s [racon::Polisher::polish] generating consensus [==================> ] 685.352316 s [racon::Polisher::polish] generating consensus [===================>] 735.804277 s [racon::Polisher::polish] generating consensus [====================] 783.639878 s [racon::Polisher::] total = 801.014170 s [ OK ] RaconPolishingTest.FragmentCorrectionWithoutQualitiesFull (801032 ms) [ RUN ] RaconPolishingTest.FragmentCorrectionWithQualitiesFullMhap [racon::Polisher::initialize] loaded target sequences 0.201488 s [racon::Polisher::initialize] loaded sequences 0.136406 s [racon::Polisher::initialize] loaded overlaps 0.056840 s [racon::Polisher::initialize] aligning overlaps [=> ] 1.848533 s [racon::Polisher::initialize] aligning overlaps [==> ] 3.064535 s [racon::Polisher::initialize] aligning overlaps [===> ] 4.208555 s [racon::Polisher::initialize] aligning overlaps [====> ] 5.748525 s [racon::Polisher::initialize] aligning overlaps [=====> ] 6.896517 s [racon::Polisher::initialize] aligning overlaps [======> ] 7.824517 s [racon::Polisher::initialize] aligning overlaps [=======> ] 9.176520 s [racon::Polisher::initialize] aligning overlaps [========> ] 10.800517 s [racon::Polisher::initialize] aligning overlaps [=========> ] 12.480536 s [racon::Polisher::initialize] aligning overlaps [==========> ] 14.024551 s [racon::Polisher::initialize] aligning overlaps [===========> ] 15.272520 s [racon::Polisher::initialize] aligning overlaps [============> ] 17.016527 s [racon::Polisher::initialize] aligning overlaps [=============> ] 18.743979 s [racon::Polisher::initialize] aligning overlaps [==============> ] 20.264512 s [racon::Polisher::initialize] aligning overlaps [===============> ] 22.132512 s [racon::Polisher::initialize] aligning overlaps [================> ] 23.892534 s [racon::Polisher::initialize] aligning overlaps [=================> ] 25.536510 s [racon::Polisher::initialize] aligning overlaps [==================> ] 27.304518 s [racon::Polisher::initialize] aligning overlaps [===================>] 29.184522 s [racon::Polisher::initialize] aligning overlaps [====================] 30.876532 s [racon::Polisher::initialize] transformed data into windows 0.336058 s [racon::Polisher::polish] generating consensus [=> ] 43.155082 s [racon::Polisher::polish] generating consensus [==> ] 75.979061 s [racon::Polisher::polish] generating consensus [===> ] 113.283167 s [racon::Polisher::polish] generating consensus [====> ] 141.099253 s [racon::Polisher::polish] generating consensus [=====> ] 175.075030 s [racon::Polisher::polish] generating consensus [======> ] 215.327069 s [racon::Polisher::polish] generating consensus [=======> ] 254.779065 s [racon::Polisher::polish] generating consensus [========> ] 285.343061 s [racon::Polisher::polish] generating consensus [=========> ] 321.623170 s [racon::Polisher::polish] generating consensus [==========> ] 360.391082 s [racon::Polisher::polish] generating consensus [===========> ] 392.583162 s [racon::Polisher::polish] generating consensus [============> ] 429.195075 s [racon::Polisher::polish] generating consensus [=============> ] 461.455107 s [racon::Polisher::polish] generating consensus [==============> ] 497.321915 s [racon::Polisher::polish] generating consensus [===============> ] 532.995075 s [racon::Polisher::polish] generating consensus [================> ] 553.804045 s [racon::Polisher::polish] generating consensus [=================> ] 587.135092 s [racon::Polisher::polish] generating consensus [==================> ] 623.419141 s [racon::Polisher::polish] generating consensus [===================>] 658.231074 s [racon::Polisher::polish] generating consensus [====================] 692.159203 s [racon::Polisher::] total = 723.781165 s [ OK ] RaconPolishingTest.FragmentCorrectionWithQualitiesFullMhap (723809 ms) [----------] 10 tests from RaconPolishingTest (2114624 ms total) [----------] Global test environment tear-down [==========] 15 tests from 2 test suites ran. (2114642 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-arm-linux-gnueabihf && make -j4 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-arm-linux-gnueabihf' /usr/bin/cmake -S/build/racon-1.4.20 -B/build/racon-1.4.20/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/racon-1.4.20/obj-arm-linux-gnueabihf' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/racon-1.4.20/obj-arm-linux-gnueabihf' 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-arm-linux-gnueabihf' 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 dpkg-shlibdeps: warning: debian/racon/usr/lib/racon/racon_test contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/racon/usr/bin/racon contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin 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-dbgsym' in '../racon-dbgsym_1.4.20-1_armhf.deb'. dpkg-deb: building package 'racon' in '../racon_1.4.20-1_armhf.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../racon_1.4.20-1_armhf.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/3090/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/3090/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/3090 and its subdirectories I: Current time: Fri Jul 23 05:29:33 +14 2021 I: pbuilder-time-stamp: 1626967773