I: pbuilder: network access will be disabled during build I: Current time: Thu Jul 22 02:28:38 -12 2021 I: pbuilder-time-stamp: 1626964118 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.zUapmeNZ/trustedkeys.kbx': General error gpgv: Signature made Mon Jan 18 22:04:56 2021 -12 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/13215/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='armhf' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=3' DISTRIBUTION='' HOME='/root' HOST_ARCH='armhf' IFS=' ' INVOCATION_ID='53d095f195a944fe916e811f8c98c7b9' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='13215' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.UWUnNtgLix/pbuilderrc_hGJq --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.UWUnNtgLix/b1 --logfile b1/build.log racon_1.4.20-1.dsc' SUDO_GID='112' SUDO_UID='106' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://10.0.0.15:8000/' I: uname -a Linux virt32b 5.10.0-7-armmp-lpae #1 SMP Debian 5.10.40-1 (2021-05-28) armv7l GNU/Linux I: ls -l /bin total 3580 -rwxr-xr-x 1 root root 816764 Jun 21 14:26 bash -rwxr-xr-x 3 root root 26052 Jul 20 2020 bunzip2 -rwxr-xr-x 3 root root 26052 Jul 20 2020 bzcat lrwxrwxrwx 1 root root 6 Jul 20 2020 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Jul 20 2020 bzdiff lrwxrwxrwx 1 root root 6 Jul 20 2020 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Sep 4 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 20 2020 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Jul 20 2020 bzgrep -rwxr-xr-x 3 root root 26052 Jul 20 2020 bzip2 -rwxr-xr-x 1 root root 9636 Jul 20 2020 bzip2recover lrwxrwxrwx 1 root root 6 Jul 20 2020 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 20 2020 bzmore -rwxr-xr-x 1 root root 26668 Sep 22 2020 cat -rwxr-xr-x 1 root root 43104 Sep 22 2020 chgrp -rwxr-xr-x 1 root root 38984 Sep 22 2020 chmod -rwxr-xr-x 1 root root 43112 Sep 22 2020 chown -rwxr-xr-x 1 root root 92616 Sep 22 2020 cp -rwxr-xr-x 1 root root 75524 Dec 10 2020 dash -rwxr-xr-x 1 root root 75880 Sep 22 2020 date -rwxr-xr-x 1 root root 55436 Sep 22 2020 dd -rwxr-xr-x 1 root root 59912 Sep 22 2020 df -rwxr-xr-x 1 root root 96764 Sep 22 2020 dir -rwxr-xr-x 1 root root 55012 Feb 7 02:38 dmesg lrwxrwxrwx 1 root root 8 Nov 6 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 6 2019 domainname -> hostname -rwxr-xr-x 1 root root 22508 Sep 22 2020 echo -rwxr-xr-x 1 root root 28 Nov 9 2020 egrep -rwxr-xr-x 1 root root 22496 Sep 22 2020 false -rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep -rwxr-xr-x 1 root root 47492 Feb 7 02:38 findmnt -rwsr-xr-x 1 root root 26076 Feb 26 04:12 fusermount -rwxr-xr-x 1 root root 124508 Nov 9 2020 grep -rwxr-xr-x 2 root root 2346 Mar 2 11:30 gunzip -rwxr-xr-x 1 root root 6376 Mar 2 11:30 gzexe -rwxr-xr-x 1 root root 64212 Mar 2 11:30 gzip -rwxr-xr-x 1 root root 13784 Nov 6 2019 hostname -rwxr-xr-x 1 root root 43180 Sep 22 2020 ln -rwxr-xr-x 1 root root 35068 Feb 7 2020 login -rwxr-xr-x 1 root root 96764 Sep 22 2020 ls -rwxr-xr-x 1 root root 99940 Feb 7 02:38 lsblk -rwxr-xr-x 1 root root 51408 Sep 22 2020 mkdir -rwxr-xr-x 1 root root 43184 Sep 22 2020 mknod -rwxr-xr-x 1 root root 30780 Sep 22 2020 mktemp -rwxr-xr-x 1 root root 34408 Feb 7 02:38 more -rwsr-xr-x 1 root root 34400 Feb 7 02:38 mount -rwxr-xr-x 1 root root 9824 Feb 7 02:38 mountpoint -rwxr-xr-x 1 root root 88524 Sep 22 2020 mv lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 18 03:38 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 26652 Sep 22 2020 pwd lrwxrwxrwx 1 root root 4 Jun 21 14:26 rbash -> bash -rwxr-xr-x 1 root root 30740 Sep 22 2020 readlink -rwxr-xr-x 1 root root 43104 Sep 22 2020 rm -rwxr-xr-x 1 root root 30732 Sep 22 2020 rmdir -rwxr-xr-x 1 root root 14144 Sep 27 2020 run-parts -rwxr-xr-x 1 root root 76012 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Jul 20 21:25 sh -> dash -rwxr-xr-x 1 root root 22532 Sep 22 2020 sleep -rwxr-xr-x 1 root root 55360 Sep 22 2020 stty -rwsr-xr-x 1 root root 46704 Feb 7 02:38 su -rwxr-xr-x 1 root root 22532 Sep 22 2020 sync -rwxr-xr-x 1 root root 340872 Feb 16 21:55 tar -rwxr-xr-x 1 root root 9808 Sep 27 2020 tempfile -rwxr-xr-x 1 root root 67696 Sep 22 2020 touch -rwxr-xr-x 1 root root 22496 Sep 22 2020 true -rwxr-xr-x 1 root root 9636 Feb 26 04:12 ulockmgr_server -rwsr-xr-x 1 root root 22108 Feb 7 02:38 umount -rwxr-xr-x 1 root root 22520 Sep 22 2020 uname -rwxr-xr-x 2 root root 2346 Mar 2 11:30 uncompress -rwxr-xr-x 1 root root 96764 Sep 22 2020 vdir -rwxr-xr-x 1 root root 38512 Feb 7 02:38 wdctl lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 2 11:30 zcat -rwxr-xr-x 1 root root 1678 Mar 2 11:30 zcmp -rwxr-xr-x 1 root root 5880 Mar 2 11:30 zdiff -rwxr-xr-x 1 root root 29 Mar 2 11:30 zegrep -rwxr-xr-x 1 root root 29 Mar 2 11:30 zfgrep -rwxr-xr-x 1 root root 2081 Mar 2 11:30 zforce -rwxr-xr-x 1 root root 7585 Mar 2 11:30 zgrep -rwxr-xr-x 1 root root 2206 Mar 2 11:30 zless -rwxr-xr-x 1 root root 1842 Mar 2 11:30 zmore -rwxr-xr-x 1 root root 4553 Mar 2 11:30 znew I: user script /srv/workspace/pbuilder/13215/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 4s (7165 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) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../09-libmagic-mgc_1%3a5.39-3_armhf.deb ... Unpacking libmagic-mgc (1:5.39-3) ... Selecting previously unselected package libmagic1:armhf. Preparing to unpack .../10-libmagic1_1%3a5.39-3_armhf.deb ... Unpacking libmagic1:armhf (1:5.39-3) ... Selecting previously unselected package file. Preparing to unpack .../11-file_1%3a5.39-3_armhf.deb ... Unpacking file (1:5.39-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../12-gettext-base_0.21-4_armhf.deb ... Unpacking gettext-base (0.21-4) ... Selecting previously unselected package libsigsegv2:armhf. Preparing to unpack .../13-libsigsegv2_2.13-1_armhf.deb ... Unpacking libsigsegv2:armhf (2.13-1) ... Selecting previously unselected package m4. Preparing to unpack .../14-m4_1.4.18-5_armhf.deb ... Unpacking m4 (1.4.18-5) ... Selecting previously unselected package autoconf. Preparing to unpack .../15-autoconf_2.69-14_all.deb ... Unpacking autoconf (2.69-14) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../16-autotools-dev_20180224.1+nmu1_all.deb ... Unpacking autotools-dev (20180224.1+nmu1) ... Selecting previously unselected package automake. Preparing to unpack .../17-automake_1%3a1.16.3-2_all.deb ... Unpacking automake (1:1.16.3-2) ... Selecting previously unselected package autopoint. Preparing to unpack .../18-autopoint_0.21-4_all.deb ... Unpacking autopoint (0.21-4) ... Selecting previously unselected package cmake-data. Preparing to unpack .../19-cmake-data_3.18.4-2_all.deb ... Unpacking cmake-data (3.18.4-2) ... Selecting previously unselected package libicu67:armhf. Preparing to unpack .../20-libicu67_67.1-7_armhf.deb ... Unpacking libicu67:armhf (67.1-7) ... Selecting previously unselected package libxml2:armhf. Preparing to unpack .../21-libxml2_2.9.10+dfsg-6.7_armhf.deb ... Unpacking libxml2:armhf (2.9.10+dfsg-6.7) ... 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Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/racon-1.4.20/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../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 -j3 "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_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". 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". 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[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 -f CMakeFiles/racon.dir/build.make CMakeFiles/racon.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' [ 21%] Building CXX object CMakeFiles/racon.dir/src/main.cpp.o [ 21%] Building CXX object CMakeFiles/racon_test.dir/test/racon_test.cpp.o [ 21%] 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-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 /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++ -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 [ 28%] 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 [ 35%] 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 [ 42%] 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 [ 50%] 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 [ 57%] 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 [ 64%] 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 [ 71%] 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 /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%] 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 [ 85%] 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 make[3]: Leaving directory '/build/racon-1.4.20/obj-arm-linux-gnueabihf' [ 85%] Built target racon_test [ 92%] 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 /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 [100%] 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' [100%] Built target racon 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 (2 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 (7 ms) [----------] 5 tests from RaconInitializeTest (20 ms total) [----------] 10 tests from RaconPolishingTest [ RUN ] RaconPolishingTest.ConsensusWithQualities [racon::Polisher::initialize] loaded target sequences 0.001599 s [racon::Polisher::initialize] loaded sequences 0.088477 s [racon::Polisher::initialize] loaded overlaps 0.000689 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.052513 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.080503 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.100507 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.136497 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.156505 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.176496 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.212507 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.244520 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.272494 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.304488 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.328489 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.360491 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.400503 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.424497 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.460494 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.496495 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.520495 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.548486 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.580501 s [racon::Polisher::initialize] aligning overlaps [====================] 0.625527 s [racon::Polisher::initialize] transformed data into windows 0.008286 s [racon::Polisher::polish] generating consensus [=> ] 0.538514 s [racon::Polisher::polish] generating consensus [==> ] 1.030518 s [racon::Polisher::polish] generating consensus [===> ] 1.426508 s [racon::Polisher::polish] generating consensus [====> ] 1.710516 s [racon::Polisher::polish] generating consensus [=====> ] 1.942513 s [racon::Polisher::polish] generating consensus [======> ] 2.066495 s [racon::Polisher::polish] generating consensus [=======> ] 2.238510 s [racon::Polisher::polish] generating consensus [========> ] 2.530524 s [racon::Polisher::polish] generating consensus [=========> ] 2.866505 s [racon::Polisher::polish] generating consensus [==========> ] 3.266503 s [racon::Polisher::polish] generating consensus [===========> ] 3.862510 s [racon::Polisher::polish] generating consensus [============> ] 4.558532 s [racon::Polisher::polish] generating consensus [=============> ] 5.414516 s [racon::Polisher::polish] generating consensus [==============> ] 6.398539 s [racon::Polisher::polish] generating consensus [===============> ] 6.890524 s [racon::Polisher::polish] generating consensus [================> ] 7.454515 s [racon::Polisher::polish] generating consensus [=================> ] 8.034514 s [racon::Polisher::polish] generating consensus [==================> ] 8.498511 s [racon::Polisher::polish] generating consensus [===================>] 8.962507 s [racon::Polisher::polish] generating consensus [====================] 11.265675 s [racon::Polisher::] total = 12.021389 s [ OK ] RaconPolishingTest.ConsensusWithQualities (12033 ms) [ RUN ] RaconPolishingTest.ConsensusWithoutQualities [racon::Polisher::initialize] loaded target sequences 0.001443 s [racon::Polisher::initialize] loaded sequences 0.048916 s [racon::Polisher::initialize] loaded overlaps 0.000857 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.043509 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.075503 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.091508 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.127496 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.151499 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.167505 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.203511 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.235507 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.263495 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.295514 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.319513 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.351495 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.391515 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.415506 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.451499 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.487512 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.511507 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.539494 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.571504 s [racon::Polisher::initialize] aligning overlaps [====================] 0.616828 s [racon::Polisher::initialize] transformed data into windows 0.000921 s [racon::Polisher::polish] generating consensus [=> ] 0.577609 s [racon::Polisher::polish] generating consensus [==> ] 1.253620 s [racon::Polisher::polish] generating consensus [===> ] 1.729610 s [racon::Polisher::polish] generating consensus [====> ] 2.113623 s [racon::Polisher::polish] generating consensus [=====> ] 2.337611 s [racon::Polisher::polish] generating consensus [======> ] 2.609607 s [racon::Polisher::polish] generating consensus [=======> ] 2.913611 s [racon::Polisher::polish] generating consensus [========> ] 3.317601 s [racon::Polisher::polish] generating consensus [=========> ] 3.765616 s [racon::Polisher::polish] generating consensus [==========> ] 4.445599 s [racon::Polisher::polish] generating consensus [===========> ] 5.177607 s [racon::Polisher::polish] generating consensus [============> ] 6.053612 s [racon::Polisher::polish] generating consensus [=============> ] 7.445603 s [racon::Polisher::polish] generating consensus [==============> ] 8.385610 s [racon::Polisher::polish] generating consensus [===============> ] 9.325609 s [racon::Polisher::polish] generating consensus [================> ] 10.149622 s [racon::Polisher::polish] generating consensus [=================> ] 11.021628 s [racon::Polisher::polish] generating consensus [==================> ] 11.513613 s [racon::Polisher::polish] generating consensus [===================>] 12.145616 s [racon::Polisher::polish] generating consensus [====================] 15.803298 s [racon::Polisher::] total = 16.502079 s [ OK ] RaconPolishingTest.ConsensusWithoutQualities (16514 ms) [ RUN ] RaconPolishingTest.ConsensusWithQualitiesAndAlignments [racon::Polisher::initialize] loaded target sequences 0.001479 s [racon::Polisher::initialize] loaded sequences 0.083344 s [racon::Polisher::initialize] loaded overlaps 0.040990 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.010821 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.010850 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.010867 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.010884 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.010899 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.010915 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.010930 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.010946 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.010961 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.010976 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.010991 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.011006 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.012806 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.012829 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.012846 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.012863 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.012880 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.012897 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.012915 s [racon::Polisher::initialize] aligning overlaps [====================] 0.012936 s [racon::Polisher::initialize] transformed data into windows 0.007356 s [racon::Polisher::polish] generating consensus [=> ] 0.542346 s [racon::Polisher::polish] generating consensus [==> ] 1.046335 s [racon::Polisher::polish] generating consensus [===> ] 1.430334 s [racon::Polisher::polish] generating consensus [====> ] 1.750369 s [racon::Polisher::polish] generating consensus [=====> ] 1.934331 s [racon::Polisher::polish] generating consensus [======> ] 2.086310 s [racon::Polisher::polish] generating consensus [=======> ] 2.262325 s [racon::Polisher::polish] generating consensus [========> ] 2.566345 s [racon::Polisher::polish] generating consensus [=========> ] 2.798309 s [racon::Polisher::polish] generating consensus [==========> ] 3.214322 s [racon::Polisher::polish] generating consensus [===========> ] 3.790315 s [racon::Polisher::polish] generating consensus [============> ] 4.422341 s [racon::Polisher::polish] generating consensus [=============> ] 5.338325 s [racon::Polisher::polish] generating consensus [==============> ] 6.306333 s [racon::Polisher::polish] generating consensus [===============> ] 6.862339 s [racon::Polisher::polish] generating consensus [================> ] 7.418325 s [racon::Polisher::polish] generating consensus [=================> ] 8.074324 s [racon::Polisher::polish] generating consensus [==================> ] 8.434338 s [racon::Polisher::polish] generating consensus [===================>] 8.838324 s [racon::Polisher::polish] generating consensus [====================] 11.003391 s [racon::Polisher::] total = 11.182157 s [ OK ] RaconPolishingTest.ConsensusWithQualitiesAndAlignments (11194 ms) [ RUN ] RaconPolishingTest.ConsensusWithoutQualitiesAndWithAlignments [racon::Polisher::initialize] loaded target sequences 0.001439 s [racon::Polisher::initialize] loaded sequences 0.048688 s [racon::Polisher::initialize] loaded overlaps 0.041233 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.006680 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.007031 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.011346 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.011370 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.011387 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.011403 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.011419 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.011435 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.011450 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.011466 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.011481 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.011497 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.011512 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.011528 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.011543 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.011559 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.011575 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.011590 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.011605 s [racon::Polisher::initialize] aligning overlaps [====================] 0.011821 s [racon::Polisher::initialize] transformed data into windows 0.000855 s [racon::Polisher::polish] generating consensus [=> ] 0.542539 s [racon::Polisher::polish] generating consensus [==> ] 1.138534 s [racon::Polisher::polish] generating consensus [===> ] 1.598531 s [racon::Polisher::polish] generating consensus [====> ] 1.970544 s [racon::Polisher::polish] generating consensus [=====> ] 2.166522 s [racon::Polisher::polish] generating consensus [======> ] 2.426521 s [racon::Polisher::polish] generating consensus [=======> ] 2.674516 s [racon::Polisher::polish] generating consensus [========> ] 3.086551 s [racon::Polisher::polish] generating consensus [=========> ] 3.398517 s [racon::Polisher::polish] generating consensus [==========> ] 4.042532 s [racon::Polisher::polish] generating consensus [===========> ] 4.682526 s [racon::Polisher::polish] generating consensus [============> ] 5.458524 s [racon::Polisher::polish] generating consensus [=============> ] 6.694537 s [racon::Polisher::polish] generating consensus [==============> ] 7.666537 s [racon::Polisher::polish] generating consensus [===============> ] 8.586538 s [racon::Polisher::polish] generating consensus [================> ] 9.378531 s [racon::Polisher::polish] generating consensus [=================> ] 10.150535 s [racon::Polisher::polish] generating consensus [==================> ] 10.578533 s [racon::Polisher::polish] generating consensus [===================>] 11.014532 s [racon::Polisher::polish] generating consensus [====================] 14.064770 s [racon::Polisher::] total = 14.193476 s [ OK ] RaconPolishingTest.ConsensusWithoutQualitiesAndWithAlignments (14205 ms) [ RUN ] RaconPolishingTest.ConsensusWithQualitiesLargerWindow [racon::Polisher::initialize] loaded target sequences 0.001469 s [racon::Polisher::initialize] loaded sequences 0.082901 s [racon::Polisher::initialize] loaded overlaps 0.000635 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.048633 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.076655 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.096651 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.128618 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.152643 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.172620 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.208633 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.244638 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.272649 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.304635 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.328642 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.360617 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.404629 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.428623 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.464618 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.500632 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.528616 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.560619 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.588636 s [racon::Polisher::initialize] aligning overlaps [====================] 0.637465 s [racon::Polisher::initialize] transformed data into windows 0.007728 s [racon::Polisher::polish] generating consensus [=> ] 2.007305 s [racon::Polisher::polish] generating consensus [==> ] 2.007358 s [racon::Polisher::polish] generating consensus [===> ] 3.475281 s [racon::Polisher::polish] generating consensus [====> ] 3.475342 s [racon::Polisher::polish] generating consensus [=====> ] 4.003265 s [racon::Polisher::polish] generating consensus [======> ] 4.247269 s [racon::Polisher::polish] generating consensus [=======> ] 4.611281 s [racon::Polisher::polish] generating consensus [========> ] 5.219299 s [racon::Polisher::polish] generating consensus [=========> ] 5.847266 s [racon::Polisher::polish] generating consensus [==========> ] 6.835281 s [racon::Polisher::polish] generating consensus [===========> ] 8.131265 s [racon::Polisher::polish] generating consensus [============> ] 9.275271 s [racon::Polisher::polish] generating consensus [=============> ] 11.491278 s [racon::Polisher::polish] generating consensus [==============> ] 12.587287 s [racon::Polisher::polish] generating consensus [===============> ] 13.831267 s [racon::Polisher::polish] generating consensus [================> ] 14.623268 s [racon::Polisher::polish] generating consensus [=================> ] 16.015298 s [racon::Polisher::polish] generating consensus [==================> ] 16.355274 s [racon::Polisher::polish] generating consensus [===================>] 17.659261 s [racon::Polisher::polish] generating consensus [====================] 21.899587 s [racon::Polisher::] total = 22.666021 s [ OK ] RaconPolishingTest.ConsensusWithQualitiesLargerWindow (22679 ms) [ RUN ] RaconPolishingTest.ConsensusWithQualitiesEditDistance [racon::Polisher::initialize] loaded target sequences 0.001438 s [racon::Polisher::initialize] loaded sequences 0.082670 s [racon::Polisher::initialize] loaded overlaps 0.000598 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.050057 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.078065 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.102070 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.134035 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.161663 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.178035 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.222065 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.254054 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.278044 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.314054 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.334051 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.374057 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.414072 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.438040 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.474040 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.510055 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.538054 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.570046 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.606043 s [racon::Polisher::initialize] aligning overlaps [====================] 0.648930 s [racon::Polisher::initialize] transformed data into windows 0.008788 s [racon::Polisher::polish] generating consensus [=> ] 0.516149 s [racon::Polisher::polish] generating consensus [==> ] 0.992146 s [racon::Polisher::polish] generating consensus [===> ] 1.356147 s [racon::Polisher::polish] generating consensus [====> ] 1.640161 s [racon::Polisher::polish] generating consensus [=====> ] 1.864141 s [racon::Polisher::polish] generating consensus [======> ] 2.020132 s [racon::Polisher::polish] generating consensus [=======> ] 2.188129 s [racon::Polisher::polish] generating consensus [========> ] 2.472152 s [racon::Polisher::polish] generating consensus [=========> ] 2.760133 s [racon::Polisher::polish] generating consensus [==========> ] 3.148138 s [racon::Polisher::polish] generating consensus [===========> ] 3.720133 s [racon::Polisher::polish] generating consensus [============> ] 4.368148 s [racon::Polisher::polish] generating consensus [=============> ] 5.208156 s [racon::Polisher::polish] generating consensus [==============> ] 6.180153 s [racon::Polisher::polish] generating consensus [===============> ] 6.644129 s [racon::Polisher::polish] generating consensus [================> ] 7.172141 s [racon::Polisher::polish] generating consensus [=================> ] 7.732145 s [racon::Polisher::polish] generating consensus [==================> ] 8.184143 s [racon::Polisher::polish] generating consensus [===================>] 8.628136 s [racon::Polisher::polish] generating consensus [====================] 10.849107 s [racon::Polisher::] total = 11.622705 s [ OK ] RaconPolishingTest.ConsensusWithQualitiesEditDistance (11634 ms) [ RUN ] RaconPolishingTest.FragmentCorrectionWithQualities [racon::Polisher::initialize] loaded target sequences 0.082709 s [racon::Polisher::initialize] loaded sequences 0.086190 s [racon::Polisher::initialize] loaded overlaps 0.020391 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.051051 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.079049 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.111041 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.135045 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.163037 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.183031 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.215048 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.227036 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.263039 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.303045 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.327044 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.363031 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.407048 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.443046 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.483034 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.527039 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.555035 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.607047 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.635043 s [racon::Polisher::initialize] aligning overlaps [====================] 0.723897 s [racon::Polisher::initialize] transformed data into windows 0.012732 s [racon::Polisher::polish] generating consensus [=> ] 0.342130 s [racon::Polisher::polish] generating consensus [==> ] 0.690182 s [racon::Polisher::polish] generating consensus [===> ] 1.034169 s [racon::Polisher::polish] generating consensus [====> ] 1.034415 s [racon::Polisher::polish] generating consensus [=====> ] 1.274172 s [racon::Polisher::polish] generating consensus [======> ] 1.434219 s [racon::Polisher::polish] generating consensus [=======> ] 1.662228 s [racon::Polisher::polish] generating consensus [========> ] 1.682270 s [racon::Polisher::polish] generating consensus [=========> ] 2.194079 s [racon::Polisher::polish] generating consensus [==========> ] 2.370059 s [racon::Polisher::polish] generating consensus [===========> ] 2.522155 s [racon::Polisher::polish] generating consensus [============> ] 2.622062 s [racon::Polisher::polish] generating consensus [=============> ] 2.802199 s [racon::Polisher::polish] generating consensus [==============> ] 2.802457 s [racon::Polisher::polish] generating consensus [===============> ] 3.274192 s [racon::Polisher::polish] generating consensus [================> ] 3.274444 s [racon::Polisher::polish] generating consensus [=================> ] 4.158197 s [racon::Polisher::polish] generating consensus [==================> ] 4.478154 s [racon::Polisher::polish] generating consensus [===================>] 4.858242 s [racon::Polisher::polish] generating consensus [====================] 5.031521 s [racon::Polisher::] total = 5.958885 s [ OK ] RaconPolishingTest.FragmentCorrectionWithQualities (5970 ms) [ RUN ] RaconPolishingTest.FragmentCorrectionWithQualitiesFull [racon::Polisher::initialize] loaded target sequences 0.082573 s [racon::Polisher::initialize] loaded sequences 0.084856 s [racon::Polisher::initialize] loaded overlaps 0.020013 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.819579 s [racon::Polisher::initialize] aligning overlaps [==> ] 1.363572 s [racon::Polisher::initialize] aligning overlaps [===> ] 1.871584 s [racon::Polisher::initialize] aligning overlaps [====> ] 2.575589 s [racon::Polisher::initialize] aligning overlaps [=====> ] 3.127586 s [racon::Polisher::initialize] aligning overlaps [======> ] 3.615606 s [racon::Polisher::initialize] aligning overlaps [=======> ] 4.255579 s [racon::Polisher::initialize] aligning overlaps [========> ] 5.019589 s [racon::Polisher::initialize] aligning overlaps [=========> ] 5.791571 s [racon::Polisher::initialize] aligning overlaps [==========> ] 6.483591 s [racon::Polisher::initialize] aligning overlaps [===========> ] 7.047577 s [racon::Polisher::initialize] aligning overlaps [============> ] 7.831582 s [racon::Polisher::initialize] aligning overlaps [=============> ] 8.643586 s [racon::Polisher::initialize] aligning overlaps [==============> ] 9.323589 s [racon::Polisher::initialize] aligning overlaps [===============> ] 10.139569 s [racon::Polisher::initialize] aligning overlaps [================> ] 10.931571 s [racon::Polisher::initialize] aligning overlaps [=================> ] 11.651579 s [racon::Polisher::initialize] aligning overlaps [==================> ] 12.427585 s [racon::Polisher::initialize] aligning overlaps [===================>] 13.231567 s [racon::Polisher::initialize] aligning overlaps [====================] 13.984319 s [racon::Polisher::initialize] transformed data into windows 0.213494 s [racon::Polisher::polish] generating consensus [=> ] 17.700953 s [racon::Polisher::polish] generating consensus [==> ] 30.124955 s [racon::Polisher::polish] generating consensus [===> ] 44.257017 s [racon::Polisher::polish] generating consensus [====> ] 55.861020 s [racon::Polisher::polish] generating consensus [=====> ] 70.192962 s [racon::Polisher::polish] generating consensus [======> ] 88.760948 s [racon::Polisher::polish] generating consensus [=======> ] 107.236961 s [racon::Polisher::polish] generating consensus [========> ] 120.176964 s [racon::Polisher::polish] generating consensus [=========> ] 136.304959 s [racon::Polisher::polish] generating consensus [==========> ] 157.000963 s [racon::Polisher::polish] generating consensus [===========> ] 172.393009 s [racon::Polisher::polish] generating consensus [============> ] 188.432957 s [racon::Polisher::polish] generating consensus [=============> ] 202.472959 s [racon::Polisher::polish] generating consensus [==============> ] 218.156954 s [racon::Polisher::polish] generating consensus [===============> ] 233.896958 s [racon::Polisher::polish] generating consensus [================> ] 243.177017 s [racon::Polisher::polish] generating consensus [=================> ] 260.144971 s [racon::Polisher::polish] generating consensus [==================> ] 276.161015 s [racon::Polisher::polish] generating consensus [===================>] 291.768971 s [racon::Polisher::polish] generating consensus [====================] 306.604451 s [racon::Polisher::] total = 320.996958 s [ OK ] RaconPolishingTest.FragmentCorrectionWithQualitiesFull (321009 ms) [ RUN ] RaconPolishingTest.FragmentCorrectionWithoutQualitiesFull [racon::Polisher::initialize] loaded target sequences 0.049133 s [racon::Polisher::initialize] loaded sequences 0.049094 s [racon::Polisher::initialize] loaded overlaps 0.020145 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.783098 s [racon::Polisher::initialize] aligning overlaps [==> ] 1.327097 s [racon::Polisher::initialize] aligning overlaps [===> ] 1.811090 s [racon::Polisher::initialize] aligning overlaps [====> ] 2.499094 s [racon::Polisher::initialize] aligning overlaps [=====> ] 3.087102 s [racon::Polisher::initialize] aligning overlaps [======> ] 3.627089 s [racon::Polisher::initialize] aligning overlaps [=======> ] 4.259106 s [racon::Polisher::initialize] aligning overlaps [========> ] 5.211085 s [racon::Polisher::initialize] aligning overlaps [=========> ] 6.095090 s [racon::Polisher::initialize] aligning overlaps [==========> ] 6.787077 s [racon::Polisher::initialize] aligning overlaps [===========> ] 7.363070 s [racon::Polisher::initialize] aligning overlaps [============> ] 8.227097 s [racon::Polisher::initialize] aligning overlaps [=============> ] 9.157711 s [racon::Polisher::initialize] aligning overlaps [==============> ] 10.071076 s [racon::Polisher::initialize] aligning overlaps [===============> ] 10.971082 s [racon::Polisher::initialize] aligning overlaps [================> ] 11.835088 s [racon::Polisher::initialize] aligning overlaps [=================> ] 12.651089 s [racon::Polisher::initialize] aligning overlaps [==================> ] 13.555089 s [racon::Polisher::initialize] aligning overlaps [===================>] 14.615067 s [racon::Polisher::initialize] aligning overlaps [====================] 15.655438 s [racon::Polisher::initialize] transformed data into windows 0.038469 s [racon::Polisher::polish] generating consensus [=> ] 31.448560 s [racon::Polisher::polish] generating consensus [==> ] 55.901960 s [racon::Polisher::polish] generating consensus [===> ] 81.420611 s [racon::Polisher::polish] generating consensus [====> ] 102.404594 s [racon::Polisher::polish] generating consensus [=====> ] 126.852532 s [racon::Polisher::polish] generating consensus [======> ] 153.880514 s [racon::Polisher::polish] generating consensus [=======> ] 178.356532 s [racon::Polisher::polish] generating consensus [========> ] 197.872542 s [racon::Polisher::polish] generating consensus [=========> ] 222.132556 s [racon::Polisher::polish] generating consensus [==========> ] 246.324551 s [racon::Polisher::polish] generating consensus [===========> ] 266.428644 s [racon::Polisher::polish] generating consensus [============> ] 288.264565 s [racon::Polisher::polish] generating consensus [=============> ] 308.824559 s [racon::Polisher::polish] generating consensus [==============> ] 329.744549 s [racon::Polisher::polish] generating consensus [===============> ] 353.916539 s [racon::Polisher::polish] generating consensus [================> ] 367.452597 s [racon::Polisher::polish] generating consensus [=================> ] 399.101447 s [racon::Polisher::polish] generating consensus [==================> ] 427.392639 s [racon::Polisher::polish] generating consensus [===================>] 458.264541 s [racon::Polisher::polish] generating consensus [====================] 489.084828 s [racon::Polisher::] total = 504.902414 s [ OK ] RaconPolishingTest.FragmentCorrectionWithoutQualitiesFull (504918 ms) [ RUN ] RaconPolishingTest.FragmentCorrectionWithQualitiesFullMhap [racon::Polisher::initialize] loaded target sequences 0.085686 s [racon::Polisher::initialize] loaded sequences 0.088433 s [racon::Polisher::initialize] loaded overlaps 0.023041 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.991899 s [racon::Polisher::initialize] aligning overlaps [==> ] 1.700069 s [racon::Polisher::initialize] aligning overlaps [===> ] 2.428532 s [racon::Polisher::initialize] aligning overlaps [====> ] 3.415121 s [racon::Polisher::initialize] aligning overlaps [=====> ] 4.060847 s [racon::Polisher::initialize] aligning overlaps [======> ] 4.692846 s [racon::Polisher::initialize] aligning overlaps [=======> ] 5.447875 s [racon::Polisher::initialize] aligning overlaps [========> ] 6.296864 s [racon::Polisher::initialize] aligning overlaps [=========> ] 7.248848 s [racon::Polisher::initialize] aligning overlaps [==========> ] 8.096857 s [racon::Polisher::initialize] aligning overlaps [===========> ] 8.796120 s [racon::Polisher::initialize] aligning overlaps [============> ] 9.752862 s [racon::Polisher::initialize] aligning overlaps [=============> ] 10.743049 s [racon::Polisher::initialize] aligning overlaps [==============> ] 11.729318 s [racon::Polisher::initialize] aligning overlaps [===============> ] 12.840855 s [racon::Polisher::initialize] aligning overlaps [================> ] 13.852853 s [racon::Polisher::initialize] aligning overlaps [=================> ] 14.864850 s [racon::Polisher::initialize] aligning overlaps [==================> ] 15.952857 s [racon::Polisher::initialize] aligning overlaps [===================>] 17.132843 s [racon::Polisher::initialize] aligning overlaps [====================] 18.208255 s [racon::Polisher::initialize] transformed data into windows 0.228761 s [racon::Polisher::polish] generating consensus [=> ] 26.567901 s [racon::Polisher::polish] generating consensus [==> ] 45.118220 s [racon::Polisher::polish] generating consensus [===> ] 65.494404 s [racon::Polisher::polish] generating consensus [====> ] 82.251424 s [racon::Polisher::polish] generating consensus [=====> ] 100.395367 s [racon::Polisher::polish] generating consensus [======> ] 119.163361 s [racon::Polisher::polish] generating consensus [=======> ] 138.783356 s [racon::Polisher::polish] generating consensus [========> ] 152.975429 s [racon::Polisher::polish] generating consensus [=========> ] 170.923350 s [racon::Polisher::polish] generating consensus [==========> ] 192.159372 s [racon::Polisher::polish] generating consensus [===========> ] 209.951466 s [racon::Polisher::polish] generating consensus [============> ] 229.503337 s [racon::Polisher::polish] generating consensus [=============> ] 243.675340 s [racon::Polisher::polish] generating consensus [==============> ] 258.943347 s [racon::Polisher::polish] generating consensus [===============> ] 274.767380 s [racon::Polisher::polish] generating consensus [================> ] 284.196741 s [racon::Polisher::polish] generating consensus [=================> ] 301.543359 s [racon::Polisher::polish] generating consensus [==================> ] 317.535410 s [racon::Polisher::polish] generating consensus [===================>] 333.143360 s [racon::Polisher::polish] generating consensus [====================] 347.966222 s [racon::Polisher::] total = 366.607002 s [ OK ] RaconPolishingTest.FragmentCorrectionWithQualitiesFullMhap (366622 ms) [----------] 10 tests from RaconPolishingTest (1286778 ms total) [----------] Global test environment tear-down [==========] 15 tests from 2 test suites ran. (1286798 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 -j3 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/bin/racon contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin 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 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: 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/13215 and its subdirectories I: Current time: Thu Jul 22 02:51:44 -12 2021 I: pbuilder-time-stamp: 1626965504