I: pbuilder: network access will be disabled during build I: Current time: Mon Jan 20 16:57:55 +14 2025 I: pbuilder-time-stamp: 1737341875 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. 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_1.5.0-3.dsc] I: copying [./racon_1.5.0.orig.tar.gz] I: copying [./racon_1.5.0-3.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./racon_1.5.0-3.dsc: unsupported subcommand dpkg-source: info: extracting racon in racon-1.5.0 dpkg-source: info: unpacking racon_1.5.0.orig.tar.gz dpkg-source: info: unpacking racon_1.5.0-3.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/18546/tmp/hooks/D01_modify_environment starting debug: Running on virt64z. 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 '/bin/sh' -> '/bin/bash' lrwxrwxrwx 1 root root 9 Jan 20 02:58 /bin/sh -> /bin/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/18546/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/18546/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="2" [2]="37" [3]="1" [4]="release" [5]="arm-unknown-linux-gnueabihf") BASH_VERSION='5.2.37(1)-release' BUILDDIR=/build/reproducible-path 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 parallel=4 ' DIRSTACK=() DISTRIBUTION=unstable EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=arm HOST_ARCH=armhf IFS=' ' INVOCATION_ID=3b9b2002c91c446ab916ca5fec462cfc 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=18546 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/r-b-build.ZFm2q99I/pbuilderrc_oMXA --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.ZFm2q99I/b2 --logfile b2/build.log racon_1.5.0-3.dsc' SUDO_GID=110 SUDO_UID=103 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://10.0.0.15:3142/ I: uname -a Linux i-capture-the-hostname 6.1.0-30-arm64 #1 SMP Debian 6.1.124-1 (2025-01-12) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin I: user script /srv/workspace/pbuilder/18546/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, libcereal-dev, libedlib-dev (>= 1.2.7-3~), 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 ... 19564 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; 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 (>= 1.2.7-3~); 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} libarchive13t64{a} libbioparser-dev{a} libbiosoup-dev{a} libbrotli1{a} libcereal-dev{a} libcom-err2{a} libcurl4t64{a} libdebhelper-perl{a} libedlib-dev{a} libedlib1{a} libelf1t64{a} libexpat1{a} libffi8{a} libfile-stripnondeterminism-perl{a} libgnutls30t64{a} libgssapi-krb5-2{a} libgtest-dev{a} libicu72{a} libidn2-0{a} libjsoncpp26{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap2{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libp11-kit0{a} libpipeline1{a} libproc2-0{a} libpsl5t64{a} librhash1{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libspoa-dev{a} libspoa7.0.0{a} libssh2-1t64{a} libtasn1-6{a} libthread-pool-dev{a} libtool{a} libuchardet0{a} libunistring5{a} libuv1t64{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 krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules linux-sysctl-defaults lynx psmisc publicsuffix wget 0 packages upgraded, 72 newly installed, 0 to remove and 0 not upgraded. Need to get 35.4 MB of archives. After unpacking 132 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main armhf libproc2-0 armhf 2:4.0.4-6 [56.0 kB] Get: 2 http://deb.debian.org/debian unstable/main armhf procps armhf 2:4.0.4-6 [864 kB] Get: 3 http://deb.debian.org/debian unstable/main armhf sensible-utils all 0.0.24 [24.8 kB] Get: 4 http://deb.debian.org/debian unstable/main armhf libmagic-mgc armhf 1:5.45-3+b1 [314 kB] Get: 5 http://deb.debian.org/debian unstable/main armhf libmagic1t64 armhf 1:5.45-3+b1 [98.5 kB] Get: 6 http://deb.debian.org/debian unstable/main armhf file armhf 1:5.45-3+b1 [42.3 kB] Get: 7 http://deb.debian.org/debian unstable/main armhf gettext-base armhf 0.23.1-1 [238 kB] Get: 8 http://deb.debian.org/debian unstable/main armhf libuchardet0 armhf 0.0.8-1+b2 [65.6 kB] Get: 9 http://deb.debian.org/debian unstable/main armhf groff-base armhf 1.23.0-7 [1095 kB] Get: 10 http://deb.debian.org/debian unstable/main armhf bsdextrautils armhf 2.40.4-1 [84.6 kB] Get: 11 http://deb.debian.org/debian unstable/main armhf libpipeline1 armhf 1.5.8-1 [35.0 kB] Get: 12 http://deb.debian.org/debian unstable/main armhf man-db armhf 2.13.0-1 [1382 kB] Get: 13 http://deb.debian.org/debian unstable/main armhf m4 armhf 1.4.19-5 [272 kB] Get: 14 http://deb.debian.org/debian unstable/main armhf autoconf all 2.72-3 [493 kB] Get: 15 http://deb.debian.org/debian unstable/main armhf autotools-dev all 20220109.1 [51.6 kB] Get: 16 http://deb.debian.org/debian unstable/main armhf automake all 1:1.16.5-1.3 [823 kB] Get: 17 http://deb.debian.org/debian unstable/main armhf autopoint all 0.23.1-1 [770 kB] Get: 18 http://deb.debian.org/debian unstable/main armhf cmake-data all 3.31.4-2 [2267 kB] Get: 19 http://deb.debian.org/debian unstable/main armhf libicu72 armhf 72.1-6 [9086 kB] Get: 20 http://deb.debian.org/debian unstable/main armhf libxml2 armhf 2.12.7+dfsg+really2.9.14-0.2+b1 [605 kB] Get: 21 http://deb.debian.org/debian unstable/main armhf libarchive13t64 armhf 3.7.4-1.1 [306 kB] Get: 22 http://deb.debian.org/debian unstable/main armhf libbrotli1 armhf 1.1.0-2+b6 [282 kB] Get: 23 http://deb.debian.org/debian unstable/main armhf libkrb5support0 armhf 1.21.3-4 [30.3 kB] Get: 24 http://deb.debian.org/debian unstable/main armhf libcom-err2 armhf 1.47.2-1 [23.3 kB] Get: 25 http://deb.debian.org/debian unstable/main armhf libk5crypto3 armhf 1.21.3-4 [75.8 kB] Get: 26 http://deb.debian.org/debian unstable/main armhf libkeyutils1 armhf 1.6.3-4 [8096 B] Get: 27 http://deb.debian.org/debian unstable/main armhf libkrb5-3 armhf 1.21.3-4 [285 kB] Get: 28 http://deb.debian.org/debian unstable/main armhf libgssapi-krb5-2 armhf 1.21.3-4 [116 kB] Get: 29 http://deb.debian.org/debian unstable/main armhf libunistring5 armhf 1.3-1 [444 kB] Get: 30 http://deb.debian.org/debian unstable/main armhf libidn2-0 armhf 2.3.7-2+b1 [125 kB] Get: 31 http://deb.debian.org/debian unstable/main armhf libsasl2-modules-db armhf 2.1.28+dfsg1-8+b1 [18.6 kB] Get: 32 http://deb.debian.org/debian unstable/main armhf libsasl2-2 armhf 2.1.28+dfsg1-8+b1 [50.6 kB] Get: 33 http://deb.debian.org/debian unstable/main armhf libldap2 armhf 2.6.9+dfsg-1 [167 kB] Get: 34 http://deb.debian.org/debian unstable/main armhf libnghttp2-14 armhf 1.64.0-1 [62.9 kB] Get: 35 http://deb.debian.org/debian unstable/main armhf libpsl5t64 armhf 0.21.2-1.1+b1 [55.8 kB] Get: 36 http://deb.debian.org/debian unstable/main armhf libffi8 armhf 3.4.6-1 [20.0 kB] Get: 37 http://deb.debian.org/debian unstable/main armhf libp11-kit0 armhf 0.25.5-3 [385 kB] Get: 38 http://deb.debian.org/debian unstable/main armhf libtasn1-6 armhf 4.19.0-3+b3 [43.9 kB] Get: 39 http://deb.debian.org/debian unstable/main armhf libgnutls30t64 armhf 3.8.8-2 [1370 kB] Get: 40 http://deb.debian.org/debian unstable/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b5 [53.2 kB] Get: 41 http://deb.debian.org/debian unstable/main armhf libssh2-1t64 armhf 1.11.1-1 [227 kB] Get: 42 http://deb.debian.org/debian unstable/main armhf libcurl4t64 armhf 8.11.1-1+b1 [304 kB] Get: 43 http://deb.debian.org/debian unstable/main armhf libexpat1 armhf 2.6.4-1 [83.5 kB] Get: 44 http://deb.debian.org/debian unstable/main armhf libjsoncpp26 armhf 1.9.6-3 [69.9 kB] Get: 45 http://deb.debian.org/debian unstable/main armhf librhash1 armhf 1.4.5-1 [143 kB] Get: 46 http://deb.debian.org/debian unstable/main armhf libuv1t64 armhf 1.48.0-7 [134 kB] Get: 47 http://deb.debian.org/debian unstable/main armhf cmake armhf 3.31.4-2 [5912 kB] Get: 48 http://deb.debian.org/debian unstable/main armhf libdebhelper-perl all 13.24.1 [90.9 kB] Get: 49 http://deb.debian.org/debian unstable/main armhf libtool all 2.5.4-2 [539 kB] Get: 50 http://deb.debian.org/debian unstable/main armhf dh-autoreconf all 20 [17.1 kB] Get: 51 http://deb.debian.org/debian unstable/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 52 http://deb.debian.org/debian unstable/main armhf libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 53 http://deb.debian.org/debian unstable/main armhf dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 54 http://deb.debian.org/debian unstable/main armhf libelf1t64 armhf 0.192-4 [184 kB] Get: 55 http://deb.debian.org/debian unstable/main armhf dwz armhf 0.15-1+b2 [106 kB] Get: 56 http://deb.debian.org/debian unstable/main armhf gettext armhf 0.23.1-1 [1560 kB] Get: 57 http://deb.debian.org/debian unstable/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 58 http://deb.debian.org/debian unstable/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 59 http://deb.debian.org/debian unstable/main armhf debhelper all 13.24.1 [920 kB] Get: 60 http://deb.debian.org/debian unstable/main armhf googletest all 1.15.2-1 [514 kB] Get: 61 http://deb.debian.org/debian unstable/main armhf libbiosoup-dev all 0.11.0-2 [8000 B] Get: 62 http://deb.debian.org/debian unstable/main armhf zlib1g-dev armhf 1:1.3.dfsg+really1.3.1-1+b1 [905 kB] Get: 63 http://deb.debian.org/debian unstable/main armhf libbioparser-dev all 3.1.0-1 [9108 B] Get: 64 http://deb.debian.org/debian unstable/main armhf rapidjson-dev all 1.1.0+dfsg2-7.3 [98.0 kB] Get: 65 http://deb.debian.org/debian unstable/main armhf libcereal-dev armhf 1.3.2+dfsg-5 [221 kB] Get: 66 http://deb.debian.org/debian unstable/main armhf libedlib1 armhf 1.2.7-6+b2 [15.4 kB] Get: 67 http://deb.debian.org/debian unstable/main armhf libedlib-dev armhf 1.2.7-6+b2 [20.6 kB] Get: 68 http://deb.debian.org/debian unstable/main armhf libgtest-dev armhf 1.15.2-1 [246 kB] Get: 69 http://deb.debian.org/debian unstable/main armhf libspoa7.0.0 armhf 4.1.4-2+b1 [61.8 kB] Get: 70 http://deb.debian.org/debian unstable/main armhf libspoa-dev armhf 4.1.4-2+b1 [9788 B] Get: 71 http://deb.debian.org/debian unstable/main armhf libthread-pool-dev armhf 4.0.0-2 [7304 B] Get: 72 http://deb.debian.org/debian unstable/main armhf rampler armhf 2.1.1-1 [19.3 kB] Fetched 35.4 MB in 14s (2523 kB/s) Preconfiguring packages ... Selecting previously unselected package libproc2-0:armhf. (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 ... 19564 files and directories currently installed.) Preparing to unpack .../00-libproc2-0_2%3a4.0.4-6_armhf.deb ... Unpacking libproc2-0:armhf (2:4.0.4-6) ... Selecting previously unselected package procps. Preparing to unpack .../01-procps_2%3a4.0.4-6_armhf.deb ... Unpacking procps (2:4.0.4-6) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../02-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../03-libmagic-mgc_1%3a5.45-3+b1_armhf.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:armhf. Preparing to unpack .../04-libmagic1t64_1%3a5.45-3+b1_armhf.deb ... Unpacking libmagic1t64:armhf (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../05-file_1%3a5.45-3+b1_armhf.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../06-gettext-base_0.23.1-1_armhf.deb ... Unpacking gettext-base (0.23.1-1) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../07-libuchardet0_0.0.8-1+b2_armhf.deb ... Unpacking libuchardet0:armhf (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../08-groff-base_1.23.0-7_armhf.deb ... Unpacking groff-base (1.23.0-7) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../09-bsdextrautils_2.40.4-1_armhf.deb ... Unpacking bsdextrautils (2.40.4-1) ... Selecting previously unselected package libpipeline1:armhf. Preparing to unpack .../10-libpipeline1_1.5.8-1_armhf.deb ... Unpacking libpipeline1:armhf (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../11-man-db_2.13.0-1_armhf.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../12-m4_1.4.19-5_armhf.deb ... Unpacking m4 (1.4.19-5) ... Selecting previously unselected package autoconf. Preparing to unpack .../13-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../14-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../15-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../16-autopoint_0.23.1-1_all.deb ... Unpacking autopoint (0.23.1-1) ... Selecting previously unselected package cmake-data. Preparing to unpack .../17-cmake-data_3.31.4-2_all.deb ... Unpacking cmake-data (3.31.4-2) ... Selecting previously unselected package libicu72:armhf. Preparing to unpack .../18-libicu72_72.1-6_armhf.deb ... Unpacking libicu72:armhf (72.1-6) ... Selecting previously unselected package libxml2:armhf. Preparing to unpack .../19-libxml2_2.12.7+dfsg+really2.9.14-0.2+b1_armhf.deb ... Unpacking libxml2:armhf (2.12.7+dfsg+really2.9.14-0.2+b1) ... Selecting previously unselected package libarchive13t64:armhf. Preparing to unpack .../20-libarchive13t64_3.7.4-1.1_armhf.deb ... Unpacking libarchive13t64:armhf (3.7.4-1.1) ... Selecting previously unselected package libbrotli1:armhf. Preparing to unpack .../21-libbrotli1_1.1.0-2+b6_armhf.deb ... Unpacking libbrotli1:armhf (1.1.0-2+b6) ... Selecting previously unselected package libkrb5support0:armhf. Preparing to unpack .../22-libkrb5support0_1.21.3-4_armhf.deb ... Unpacking libkrb5support0:armhf (1.21.3-4) ... Selecting previously unselected package libcom-err2:armhf. Preparing to unpack .../23-libcom-err2_1.47.2-1_armhf.deb ... Unpacking libcom-err2:armhf (1.47.2-1) ... Selecting previously unselected package libk5crypto3:armhf. Preparing to unpack .../24-libk5crypto3_1.21.3-4_armhf.deb ... Unpacking libk5crypto3:armhf (1.21.3-4) ... Selecting previously unselected package libkeyutils1:armhf. Preparing to unpack .../25-libkeyutils1_1.6.3-4_armhf.deb ... Unpacking libkeyutils1:armhf (1.6.3-4) ... Selecting previously unselected package libkrb5-3:armhf. Preparing to unpack .../26-libkrb5-3_1.21.3-4_armhf.deb ... Unpacking libkrb5-3:armhf (1.21.3-4) ... 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Processing triggers for libc-bin (2.40-5) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: user script /srv/workspace/pbuilder/18546/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for unstable I: user script /srv/workspace/pbuilder/18546/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/racon-1.5.0/ && 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_1.5.0-3_source.changes dpkg-buildpackage: info: source package racon dpkg-buildpackage: info: source version 1.5.0-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille 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/reproducible-path/racon-1.5.0' dh_auto_configure -- -Dracon_build_tests=ON -Dracon_build_wrapper=ON cd obj-arm-linux-gnueabihf && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config 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_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=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 CXX compiler identification is GNU 14.2.0 -- 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 -- Configuring done (1.1s) -- Generating done (0.0s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY -- Build files have been written to: /build/reproducible-path/racon-1.5.0/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/reproducible-path/racon-1.5.0' 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/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/build/reproducible-path/racon-1.5.0 -B/build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf/CMakeFiles /build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf' make -f CMakeFiles/racon.dir/build.make CMakeFiles/racon.dir/depend make[3]: Entering directory '/build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf' cd /build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/racon-1.5.0 /build/reproducible-path/racon-1.5.0 /build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf /build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf /build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf/CMakeFiles/racon.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf' make -f CMakeFiles/racon.dir/build.make CMakeFiles/racon.dir/build make[3]: Entering directory '/build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf' [ 10%] Building CXX object CMakeFiles/racon.dir/src/logger.cpp.o [ 20%] Building CXX object CMakeFiles/racon.dir/src/polisher.cpp.o [ 30%] Building CXX object CMakeFiles/racon.dir/src/sequence.cpp.o /usr/bin/c++ -I/build/reproducible-path/racon-1.5.0/src -g -O2 -ffile-prefix-map=/build/reproducible-path/racon-1.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -std=c++11 -pthread -MD -MT CMakeFiles/racon.dir/src/polisher.cpp.o -MF CMakeFiles/racon.dir/src/polisher.cpp.o.d -o CMakeFiles/racon.dir/src/polisher.cpp.o -c /build/reproducible-path/racon-1.5.0/src/polisher.cpp [ 40%] Building CXX object CMakeFiles/racon.dir/src/overlap.cpp.o /usr/bin/c++ -I/build/reproducible-path/racon-1.5.0/src -g -O2 -ffile-prefix-map=/build/reproducible-path/racon-1.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -std=c++11 -pthread -MD -MT CMakeFiles/racon.dir/src/logger.cpp.o -MF CMakeFiles/racon.dir/src/logger.cpp.o.d -o CMakeFiles/racon.dir/src/logger.cpp.o -c /build/reproducible-path/racon-1.5.0/src/logger.cpp /usr/bin/c++ -I/build/reproducible-path/racon-1.5.0/src -g -O2 -ffile-prefix-map=/build/reproducible-path/racon-1.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -std=c++11 -pthread -MD -MT CMakeFiles/racon.dir/src/overlap.cpp.o -MF CMakeFiles/racon.dir/src/overlap.cpp.o.d -o CMakeFiles/racon.dir/src/overlap.cpp.o -c /build/reproducible-path/racon-1.5.0/src/overlap.cpp /usr/bin/c++ -I/build/reproducible-path/racon-1.5.0/src -g -O2 -ffile-prefix-map=/build/reproducible-path/racon-1.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -std=c++11 -pthread -MD -MT CMakeFiles/racon.dir/src/sequence.cpp.o -MF CMakeFiles/racon.dir/src/sequence.cpp.o.d -o CMakeFiles/racon.dir/src/sequence.cpp.o -c /build/reproducible-path/racon-1.5.0/src/sequence.cpp /build/reproducible-path/racon-1.5.0/src/overlap.cpp: In member function 'virtual void racon::Overlap::align_overlaps(const char*, uint32_t, const char*, uint32_t)': /build/reproducible-path/racon-1.5.0/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/reproducible-path/racon-1.5.0/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++ -I/build/reproducible-path/racon-1.5.0/src -g -O2 -ffile-prefix-map=/build/reproducible-path/racon-1.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -std=c++11 -pthread -MD -MT CMakeFiles/racon.dir/src/window.cpp.o -MF CMakeFiles/racon.dir/src/window.cpp.o.d -o CMakeFiles/racon.dir/src/window.cpp.o -c /build/reproducible-path/racon-1.5.0/src/window.cpp /build/reproducible-path/racon-1.5.0/src/window.cpp: In member function 'bool racon::Window::generate_consensus(std::shared_ptr, bool)': /build/reproducible-path/racon-1.5.0/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 [ 60%] Linking CXX static library lib/libracon.a /usr/bin/cmake -P CMakeFiles/racon.dir/cmake_clean_target.cmake /usr/bin/cmake -E cmake_link_script CMakeFiles/racon.dir/link.txt --verbose=1 /usr/bin/ar qc lib/libracon.a 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 /usr/bin/ranlib lib/libracon.a make[3]: Leaving directory '/build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf' [ 60%] Built target racon make -f CMakeFiles/racon_exe.dir/build.make CMakeFiles/racon_exe.dir/depend make -f CMakeFiles/racon_test.dir/build.make CMakeFiles/racon_test.dir/depend make[3]: Entering directory '/build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf' cd /build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/racon-1.5.0 /build/reproducible-path/racon-1.5.0 /build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf /build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf /build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf/CMakeFiles/racon_exe.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf' cd /build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/racon-1.5.0 /build/reproducible-path/racon-1.5.0 /build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf /build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf /build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf/CMakeFiles/racon_test.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf' make -f CMakeFiles/racon_exe.dir/build.make CMakeFiles/racon_exe.dir/build make[3]: Entering directory '/build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf' make -f CMakeFiles/racon_test.dir/build.make CMakeFiles/racon_test.dir/build make[3]: Entering directory '/build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf' [ 70%] Building CXX object CMakeFiles/racon_exe.dir/src/main.cpp.o /usr/bin/c++ -DVERSION=\"1.5.0\" -I/build/reproducible-path/racon-1.5.0/src -g -O2 -ffile-prefix-map=/build/reproducible-path/racon-1.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -std=c++11 -MD -MT CMakeFiles/racon_exe.dir/src/main.cpp.o -MF CMakeFiles/racon_exe.dir/src/main.cpp.o.d -o CMakeFiles/racon_exe.dir/src/main.cpp.o -c /build/reproducible-path/racon-1.5.0/src/main.cpp [ 80%] Building CXX object CMakeFiles/racon_test.dir/test/racon_test.cpp.o /usr/bin/c++ -DTEST_DATA=\"/build/reproducible-path/racon-1.5.0/test/data/\" -I/build/reproducible-path/racon-1.5.0/src -g -O2 -ffile-prefix-map=/build/reproducible-path/racon-1.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -std=c++14 -DGTEST_HAS_PTHREAD=1 -MD -MT CMakeFiles/racon_test.dir/test/racon_test.cpp.o -MF CMakeFiles/racon_test.dir/test/racon_test.cpp.o.d -o CMakeFiles/racon_test.dir/test/racon_test.cpp.o -c /build/reproducible-path/racon-1.5.0/test/racon_test.cpp [ 90%] Linking CXX executable bin/racon /usr/bin/cmake -E cmake_link_script CMakeFiles/racon_exe.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/racon-1.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/racon_exe.dir/link.d CMakeFiles/racon_exe.dir/src/main.cpp.o -o bin/racon lib/libracon.a -ledlib -lspoa -lpthread -lz make[3]: Leaving directory '/build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf' [ 90%] Built target racon_exe [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 -ffile-prefix-map=/build/reproducible-path/racon-1.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/racon_test.dir/link.d CMakeFiles/racon_test.dir/test/racon_test.cpp.o -o bin/racon_test lib/libracon.a -ledlib -lspoa -pthread -lz /usr/lib/arm-linux-gnueabihf/libgtest_main.a /usr/lib/arm-linux-gnueabihf/libgtest.a make[3]: Leaving directory '/build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf' [100%] Built target racon_test make[2]: Leaving directory '/build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf' debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/racon-1.5.0' cd test && ../obj-*/bin/racon_test Running main() from ./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 (1 ms) [ RUN ] RaconInitializeTest.SequencesPathExtensionError [ OK ] RaconInitializeTest.SequencesPathExtensionError (2 ms) [ RUN ] RaconInitializeTest.OverlapsPathExtensionError [ OK ] RaconInitializeTest.OverlapsPathExtensionError (4 ms) [ RUN ] RaconInitializeTest.TargetPathExtensionError [ OK ] RaconInitializeTest.TargetPathExtensionError (5 ms) [----------] 5 tests from RaconInitializeTest (17 ms total) [----------] 10 tests from RaconPolishingTest [ RUN ] RaconPolishingTest.ConsensusWithQualities [racon::Polisher::initialize] loaded target sequences 0.001399 s [racon::Polisher::initialize] loaded sequences 0.067986 s [racon::Polisher::initialize] loaded overlaps 0.000988 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.147229 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.207174 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.267193 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.307195 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.391183 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.439208 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.553873 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.623219 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.671198 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.691860 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.731876 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.755826 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.783665 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.799667 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.879873 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.967853 s [racon::Polisher::initialize] aligning overlaps [=================> ] 1.003831 s [racon::Polisher::initialize] aligning overlaps [==================> ] 1.063860 s [racon::Polisher::initialize] aligning overlaps [===================>] 1.091401 s [racon::Polisher::initialize] aligning overlaps [====================] 1.115971 s [racon::Polisher::initialize] transformed data into windows 0.003296 s [racon::Polisher::polish] generating consensus [=> ] 0.619332 s [racon::Polisher::polish] generating consensus [==> ] 1.235871 s [racon::Polisher::polish] generating consensus [===> ] 1.856169 s [racon::Polisher::polish] generating consensus [====> ] 2.299957 s [racon::Polisher::polish] generating consensus [=====> ] 2.559868 s [racon::Polisher::polish] generating consensus [======> ] 2.823881 s [racon::Polisher::polish] generating consensus [=======> ] 3.063917 s [racon::Polisher::polish] generating consensus [========> ] 3.351908 s [racon::Polisher::polish] generating consensus [=========> ] 3.780000 s [racon::Polisher::polish] generating consensus [==========> ] 4.263876 s [racon::Polisher::polish] generating consensus [===========> ] 5.059308 s [racon::Polisher::polish] generating consensus [============> ] 5.848399 s [racon::Polisher::polish] generating consensus [=============> ] 7.084066 s [racon::Polisher::polish] generating consensus [==============> ] 8.296016 s [racon::Polisher::polish] generating consensus [===============> ] 9.072005 s [racon::Polisher::polish] generating consensus [================> ] 9.671867 s [racon::Polisher::polish] generating consensus [=================> ] 10.279902 s [racon::Polisher::polish] generating consensus [==================> ] 10.595845 s [racon::Polisher::polish] generating consensus [===================>] 11.108160 s [racon::Polisher::polish] generating consensus [====================] 12.709390 s [racon::Polisher::] total = 13.928646 s [ OK ] RaconPolishingTest.ConsensusWithQualities (13944 ms) [ RUN ] RaconPolishingTest.ConsensusWithoutQualities [racon::Polisher::initialize] loaded target sequences 0.001181 s [racon::Polisher::initialize] loaded sequences 0.028707 s [racon::Polisher::initialize] loaded overlaps 0.000712 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.103374 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.151384 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.199381 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.259247 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.299446 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.331450 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.399498 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.438653 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.467389 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.487351 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.563558 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.607492 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.645304 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.727478 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.803479 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.871448 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.939496 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.969040 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.981193 s [racon::Polisher::initialize] aligning overlaps [====================] 0.987781 s [racon::Polisher::initialize] transformed data into windows 0.001496 s [racon::Polisher::polish] generating consensus [=> ] 0.785114 s [racon::Polisher::polish] generating consensus [==> ] 1.677195 s [racon::Polisher::polish] generating consensus [===> ] 2.125725 s [racon::Polisher::polish] generating consensus [====> ] 2.401199 s [racon::Polisher::polish] generating consensus [=====> ] 3.017136 s [racon::Polisher::polish] generating consensus [======> ] 3.377014 s [racon::Polisher::polish] generating consensus [=======> ] 3.705169 s [racon::Polisher::polish] generating consensus [========> ] 4.041063 s [racon::Polisher::polish] generating consensus [=========> ] 4.441126 s [racon::Polisher::polish] generating consensus [==========> ] 5.188562 s [racon::Polisher::polish] generating consensus [===========> ] 6.237075 s [racon::Polisher::polish] generating consensus [============> ] 7.216980 s [racon::Polisher::polish] generating consensus [=============> ] 8.536641 s [racon::Polisher::polish] generating consensus [==============> ] 10.128652 s [racon::Polisher::polish] generating consensus [===============> ] 10.796385 s [racon::Polisher::polish] generating consensus [================> ] 11.589001 s [racon::Polisher::polish] generating consensus [=================> ] 12.788640 s [racon::Polisher::polish] generating consensus [==================> ] 13.356614 s [racon::Polisher::polish] generating consensus [===================>] 14.216911 s [racon::Polisher::polish] generating consensus [====================] 17.975311 s [racon::Polisher::] total = 19.049288 s [ OK ] RaconPolishingTest.ConsensusWithoutQualities (19068 ms) [ RUN ] RaconPolishingTest.ConsensusWithQualitiesAndAlignments [racon::Polisher::initialize] loaded target sequences 0.001458 s [racon::Polisher::initialize] loaded sequences 0.062389 s [racon::Polisher::initialize] loaded overlaps 0.036246 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.017304 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.017342 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.021313 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.021604 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.021620 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.021634 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.021647 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.021660 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.021672 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.021684 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.021696 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.021708 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.021722 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.021734 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.021747 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.021759 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.021772 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.027202 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.027845 s [racon::Polisher::initialize] aligning overlaps [====================] 0.028038 s [racon::Polisher::initialize] transformed data into windows 0.003493 s [racon::Polisher::polish] generating consensus [=> ] 0.745399 s [racon::Polisher::polish] generating consensus [==> ] 1.499122 s [racon::Polisher::polish] generating consensus [===> ] 2.369905 s [racon::Polisher::polish] generating consensus [====> ] 2.805047 s [racon::Polisher::polish] generating consensus [=====> ] 2.900714 s [racon::Polisher::polish] generating consensus [======> ] 3.094195 s [racon::Polisher::polish] generating consensus [=======> ] 3.404422 s [racon::Polisher::polish] generating consensus [========> ] 3.724787 s [racon::Polisher::polish] generating consensus [=========> ] 4.074955 s [racon::Polisher::polish] generating consensus [==========> ] 4.788761 s [racon::Polisher::polish] generating consensus [===========> ] 5.452472 s [racon::Polisher::polish] generating consensus [============> ] 6.509430 s [racon::Polisher::polish] generating consensus [=============> ] 7.957374 s [racon::Polisher::polish] generating consensus [==============> ] 9.145418 s [racon::Polisher::polish] generating consensus [===============> ] 9.884966 s [racon::Polisher::polish] generating consensus [================> ] 10.745577 s [racon::Polisher::polish] generating consensus [=================> ] 11.436797 s [racon::Polisher::polish] generating consensus [==================> ] 11.745627 s [racon::Polisher::polish] generating consensus [===================>] 11.997385 s [racon::Polisher::polish] generating consensus [====================] 12.863773 s [racon::Polisher::] total = 13.025244 s [ OK ] RaconPolishingTest.ConsensusWithQualitiesAndAlignments (13045 ms) [ RUN ] RaconPolishingTest.ConsensusWithoutQualitiesAndWithAlignments [racon::Polisher::initialize] loaded target sequences 0.001248 s [racon::Polisher::initialize] loaded sequences 0.031153 s [racon::Polisher::initialize] loaded overlaps 0.039305 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.012630 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.013314 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.013963 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.014620 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.015321 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.015896 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.015919 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.015934 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.015948 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.015962 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.015976 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.015989 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.016001 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.016015 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.016036 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.016051 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.016070 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.016086 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.016099 s [racon::Polisher::initialize] aligning overlaps [====================] 0.016120 s [racon::Polisher::initialize] transformed data into windows 0.001434 s [racon::Polisher::polish] generating consensus [=> ] 0.551368 s [racon::Polisher::polish] generating consensus [==> ] 1.179348 s [racon::Polisher::polish] generating consensus [===> ] 1.903307 s [racon::Polisher::polish] generating consensus [====> ] 2.455413 s [racon::Polisher::polish] generating consensus [=====> ] 2.743317 s [racon::Polisher::polish] generating consensus [======> ] 2.955378 s [racon::Polisher::polish] generating consensus [=======> ] 3.271435 s [racon::Polisher::polish] generating consensus [========> ] 3.703384 s [racon::Polisher::polish] generating consensus [=========> ] 4.143397 s [racon::Polisher::polish] generating consensus [==========> ] 4.811580 s [racon::Polisher::polish] generating consensus [===========> ] 5.583349 s [racon::Polisher::polish] generating consensus [============> ] 6.210594 s [racon::Polisher::polish] generating consensus [=============> ] 7.143211 s [racon::Polisher::polish] generating consensus [==============> ] 7.919230 s [racon::Polisher::polish] generating consensus [===============> ] 8.595458 s [racon::Polisher::polish] generating consensus [================> ] 9.219383 s [racon::Polisher::polish] generating consensus [=================> ] 10.018598 s [racon::Polisher::polish] generating consensus [==================> ] 10.467252 s [racon::Polisher::polish] generating consensus [===================>] 11.143295 s [racon::Polisher::polish] generating consensus [====================] 13.694117 s [racon::Polisher::] total = 13.804478 s [ OK ] RaconPolishingTest.ConsensusWithoutQualitiesAndWithAlignments (13820 ms) [ RUN ] RaconPolishingTest.ConsensusWithQualitiesLargerWindow [racon::Polisher::initialize] loaded target sequences 0.001274 s [racon::Polisher::initialize] loaded sequences 0.060533 s [racon::Polisher::initialize] loaded overlaps 0.000815 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.111646 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.139648 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.203976 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.263561 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.332241 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.403705 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.555798 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.625209 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.691760 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.743030 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.815691 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.867626 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.915642 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.916414 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.917156 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.917891 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.939382 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.960028 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.960056 s [racon::Polisher::initialize] aligning overlaps [====================] 0.965879 s [racon::Polisher::initialize] transformed data into windows 0.002513 s [racon::Polisher::polish] generating consensus [=> ] 1.542493 s [racon::Polisher::polish] generating consensus [==> ] 1.874932 s [racon::Polisher::polish] generating consensus [===> ] 3.506655 s [racon::Polisher::polish] generating consensus [====> ] 3.506713 s [racon::Polisher::polish] generating consensus [=====> ] 4.055263 s [racon::Polisher::polish] generating consensus [======> ] 4.056241 s [racon::Polisher::polish] generating consensus [=======> ] 4.775294 s [racon::Polisher::polish] generating consensus [========> ] 4.776266 s [racon::Polisher::polish] generating consensus [=========> ] 5.735268 s [racon::Polisher::polish] generating consensus [==========> ] 5.736227 s [racon::Polisher::polish] generating consensus [===========> ] 7.888198 s [racon::Polisher::polish] generating consensus [============> ] 7.888956 s [racon::Polisher::polish] generating consensus [=============> ] 11.619325 s [racon::Polisher::polish] generating consensus [==============> ] 11.620363 s [racon::Polisher::polish] generating consensus [===============> ] 15.047263 s [racon::Polisher::polish] generating consensus [================> ] 15.048094 s [racon::Polisher::polish] generating consensus [=================> ] 16.735356 s [racon::Polisher::polish] generating consensus [==================> ] 16.736124 s [racon::Polisher::polish] generating consensus [===================>] 17.814474 s [racon::Polisher::polish] generating consensus [====================] 19.452145 s [racon::Polisher::] total = 20.514012 s [ OK ] RaconPolishingTest.ConsensusWithQualitiesLargerWindow (20556 ms) [ RUN ] RaconPolishingTest.ConsensusWithQualitiesEditDistance [racon::Polisher::initialize] loaded target sequences 0.001311 s [racon::Polisher::initialize] loaded sequences 0.066159 s [racon::Polisher::initialize] loaded overlaps 0.000776 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.088565 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.128929 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.184868 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.224759 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.260869 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.292979 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.353158 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.465250 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.485445 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.516894 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.552906 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.612195 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.669143 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.681129 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.725194 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.758335 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.804885 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.853216 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.854134 s [racon::Polisher::initialize] aligning overlaps [====================] 0.862408 s [racon::Polisher::initialize] transformed data into windows 0.002895 s [racon::Polisher::polish] generating consensus [=> ] 0.619937 s [racon::Polisher::polish] generating consensus [==> ] 1.191520 s [racon::Polisher::polish] generating consensus [===> ] 1.639493 s [racon::Polisher::polish] generating consensus [====> ] 2.055512 s [racon::Polisher::polish] generating consensus [=====> ] 2.255448 s [racon::Polisher::polish] generating consensus [======> ] 2.363466 s [racon::Polisher::polish] generating consensus [=======> ] 2.483431 s [racon::Polisher::polish] generating consensus [========> ] 2.579477 s [racon::Polisher::polish] generating consensus [=========> ] 2.802951 s [racon::Polisher::polish] generating consensus [==========> ] 3.078752 s [racon::Polisher::polish] generating consensus [===========> ] 3.741560 s [racon::Polisher::polish] generating consensus [============> ] 4.379553 s [racon::Polisher::polish] generating consensus [=============> ] 5.353326 s [racon::Polisher::polish] generating consensus [==============> ] 6.239512 s [racon::Polisher::polish] generating consensus [===============> ] 6.760735 s [racon::Polisher::polish] generating consensus [================> ] 7.263585 s [racon::Polisher::polish] generating consensus [=================> ] 8.080016 s [racon::Polisher::polish] generating consensus [==================> ] 8.603918 s [racon::Polisher::polish] generating consensus [===================>] 9.040889 s [racon::Polisher::polish] generating consensus [====================] 10.607558 s [racon::Polisher::] total = 11.571606 s [ OK ] RaconPolishingTest.ConsensusWithQualitiesEditDistance (11587 ms) [ RUN ] RaconPolishingTest.FragmentCorrectionWithQualities [racon::Polisher::initialize] loaded target sequences 0.062837 s [racon::Polisher::initialize] loaded sequences 0.064783 s [racon::Polisher::initialize] loaded overlaps 0.018740 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.085649 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.134831 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.202783 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.280103 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.308527 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.311791 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.354380 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.359285 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.414623 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.497639 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.602369 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.690370 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.785708 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.897593 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.967207 s [racon::Polisher::initialize] aligning overlaps [================> ] 1.042341 s [racon::Polisher::initialize] aligning overlaps [=================> ] 1.082352 s [racon::Polisher::initialize] aligning overlaps [==================> ] 1.137557 s [racon::Polisher::initialize] aligning overlaps [===================>] 1.150187 s [racon::Polisher::initialize] aligning overlaps [====================] 1.172464 s [racon::Polisher::initialize] transformed data into windows 0.006368 s [racon::Polisher::polish] generating consensus [=> ] 0.426331 s [racon::Polisher::polish] generating consensus [==> ] 0.814974 s [racon::Polisher::polish] generating consensus [===> ] 1.109269 s [racon::Polisher::polish] generating consensus [====> ] 1.109509 s [racon::Polisher::polish] generating consensus [=====> ] 1.341210 s [racon::Polisher::polish] generating consensus [======> ] 1.538309 s [racon::Polisher::polish] generating consensus [=======> ] 1.751048 s [racon::Polisher::polish] generating consensus [========> ] 1.827063 s [racon::Polisher::polish] generating consensus [=========> ] 2.419537 s [racon::Polisher::polish] generating consensus [==========> ] 2.735214 s [racon::Polisher::polish] generating consensus [===========> ] 2.998191 s [racon::Polisher::polish] generating consensus [============> ] 3.083699 s [racon::Polisher::polish] generating consensus [=============> ] 3.375609 s [racon::Polisher::polish] generating consensus [==============> ] 3.376813 s [racon::Polisher::polish] generating consensus [===============> ] 3.719642 s [racon::Polisher::polish] generating consensus [================> ] 3.723524 s [racon::Polisher::polish] generating consensus [=================> ] 4.384081 s [racon::Polisher::polish] generating consensus [==================> ] 4.607863 s [racon::Polisher::polish] generating consensus [===================>] 4.659678 s [racon::Polisher::polish] generating consensus [====================] 4.727893 s [racon::Polisher::] total = 6.056022 s [ OK ] RaconPolishingTest.FragmentCorrectionWithQualities (6071 ms) [ RUN ] RaconPolishingTest.FragmentCorrectionWithQualitiesFull [racon::Polisher::initialize] loaded target sequences 0.078949 s [racon::Polisher::initialize] loaded sequences 0.063500 s [racon::Polisher::initialize] loaded overlaps 0.017919 s [racon::Polisher::initialize] aligning overlaps [=> ] 1.689243 s [racon::Polisher::initialize] aligning overlaps [==> ] 2.681276 s [racon::Polisher::initialize] aligning overlaps [===> ] 3.692872 s [racon::Polisher::initialize] aligning overlaps [====> ] 4.943920 s [racon::Polisher::initialize] aligning overlaps [=====> ] 5.805177 s [racon::Polisher::initialize] aligning overlaps [======> ] 6.764815 s [racon::Polisher::initialize] aligning overlaps [=======> ] 7.642939 s [racon::Polisher::initialize] aligning overlaps [========> ] 9.049056 s [racon::Polisher::initialize] aligning overlaps [=========> ] 9.840795 s [racon::Polisher::initialize] aligning overlaps [==========> ] 10.384804 s [racon::Polisher::initialize] aligning overlaps [===========> ] 10.876807 s [racon::Polisher::initialize] aligning overlaps [============> ] 11.517066 s [racon::Polisher::initialize] aligning overlaps [=============> ] 12.505471 s [racon::Polisher::initialize] aligning overlaps [==============> ] 13.273529 s [racon::Polisher::initialize] aligning overlaps [===============> ] 14.097444 s [racon::Polisher::initialize] aligning overlaps [================> ] 14.901482 s [racon::Polisher::initialize] aligning overlaps [=================> ] 15.681442 s [racon::Polisher::initialize] aligning overlaps [==================> ] 16.474591 s [racon::Polisher::initialize] aligning overlaps [===================>] 17.017510 s [racon::Polisher::initialize] aligning overlaps [====================] 17.468012 s [racon::Polisher::initialize] transformed data into windows 0.079067 s [racon::Polisher::polish] generating consensus [=> ] 18.195687 s [racon::Polisher::polish] generating consensus [==> ] 31.812397 s [racon::Polisher::polish] generating consensus [===> ] 44.675800 s [racon::Polisher::polish] generating consensus [====> ] 57.152856 s [racon::Polisher::polish] generating consensus [=====> ] 70.591059 s [racon::Polisher::polish] generating consensus [======> ] 87.039872 s [racon::Polisher::polish] generating consensus [=======> ] 100.051442 s [racon::Polisher::polish] generating consensus [========> ] 110.231044 s [racon::Polisher::polish] generating consensus [=========> ] 121.695706 s [racon::Polisher::polish] generating consensus [==========> ] 133.391680 s [racon::Polisher::polish] generating consensus [===========> ] 143.467624 s [racon::Polisher::polish] generating consensus [============> ] 154.283040 s [racon::Polisher::polish] generating consensus [=============> ] 163.335056 s [racon::Polisher::polish] generating consensus [==============> ] 172.935094 s [racon::Polisher::polish] generating consensus [===============> ] 182.943053 s [racon::Polisher::polish] generating consensus [================> ] 188.731067 s [racon::Polisher::polish] generating consensus [=================> ] 199.179047 s [racon::Polisher::polish] generating consensus [==================> ] 209.375069 s [racon::Polisher::polish] generating consensus [===================>] 218.447040 s [racon::Polisher::polish] generating consensus [====================] 225.752615 s [racon::Polisher::] total = 243.464787 s [ OK ] RaconPolishingTest.FragmentCorrectionWithQualitiesFull (243481 ms) [ RUN ] RaconPolishingTest.FragmentCorrectionWithoutQualitiesFull [racon::Polisher::initialize] loaded target sequences 0.028546 s [racon::Polisher::initialize] loaded sequences 0.028391 s [racon::Polisher::initialize] loaded overlaps 0.016593 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.707463 s [racon::Polisher::initialize] aligning overlaps [==> ] 1.187473 s [racon::Polisher::initialize] aligning overlaps [===> ] 1.663451 s [racon::Polisher::initialize] aligning overlaps [====> ] 2.307488 s [racon::Polisher::initialize] aligning overlaps [=====> ] 2.859475 s [racon::Polisher::initialize] aligning overlaps [======> ] 3.251462 s [racon::Polisher::initialize] aligning overlaps [=======> ] 3.787450 s [racon::Polisher::initialize] aligning overlaps [========> ] 4.475464 s [racon::Polisher::initialize] aligning overlaps [=========> ] 5.107455 s [racon::Polisher::initialize] aligning overlaps [==========> ] 5.719455 s [racon::Polisher::initialize] aligning overlaps [===========> ] 6.187447 s [racon::Polisher::initialize] aligning overlaps [============> ] 6.875447 s [racon::Polisher::initialize] aligning overlaps [=============> ] 7.567447 s [racon::Polisher::initialize] aligning overlaps [==============> ] 8.135448 s [racon::Polisher::initialize] aligning overlaps [===============> ] 8.939448 s [racon::Polisher::initialize] aligning overlaps [================> ] 9.663445 s [racon::Polisher::initialize] aligning overlaps [=================> ] 10.299457 s [racon::Polisher::initialize] aligning overlaps [==================> ] 10.987447 s [racon::Polisher::initialize] aligning overlaps [===================>] 11.707468 s [racon::Polisher::initialize] aligning overlaps [====================] 12.139924 s [racon::Polisher::initialize] transformed data into windows 0.025334 s [racon::Polisher::polish] generating consensus [=> ] 16.015281 s [racon::Polisher::polish] generating consensus [==> ] 28.587268 s [racon::Polisher::polish] generating consensus [===> ] 41.195341 s [racon::Polisher::polish] generating consensus [====> ] 50.687108 s [racon::Polisher::polish] generating consensus [=====> ] 61.847050 s [racon::Polisher::polish] generating consensus [======> ] 74.391042 s [racon::Polisher::polish] generating consensus [=======> ] 87.935060 s [racon::Polisher::polish] generating consensus [========> ] 97.707069 s [racon::Polisher::polish] generating consensus [=========> ] 110.319051 s [racon::Polisher::polish] generating consensus [==========> ] 125.131057 s [racon::Polisher::polish] generating consensus [===========> ] 137.307105 s [racon::Polisher::polish] generating consensus [============> ] 151.051122 s [racon::Polisher::polish] generating consensus [=============> ] 164.195062 s [racon::Polisher::polish] generating consensus [==============> ] 177.015049 s [racon::Polisher::polish] generating consensus [===============> ] 190.147057 s [racon::Polisher::polish] generating consensus [================> ] 197.171126 s [racon::Polisher::polish] generating consensus [=================> ] 213.719054 s [racon::Polisher::polish] generating consensus [==================> ] 228.987115 s [racon::Polisher::polish] generating consensus [===================>] 242.807082 s [racon::Polisher::polish] generating consensus [====================] 254.436903 s [racon::Polisher::] total = 266.681355 s [ OK ] RaconPolishingTest.FragmentCorrectionWithoutQualitiesFull (266696 ms) [ RUN ] RaconPolishingTest.FragmentCorrectionWithQualitiesFullMhap [racon::Polisher::initialize] loaded target sequences 0.060174 s [racon::Polisher::initialize] loaded sequences 0.061274 s [racon::Polisher::initialize] loaded overlaps 0.015963 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.714811 s [racon::Polisher::initialize] aligning overlaps [==> ] 1.191427 s [racon::Polisher::initialize] aligning overlaps [===> ] 1.658827 s [racon::Polisher::initialize] aligning overlaps [====> ] 2.302814 s [racon::Polisher::initialize] aligning overlaps [=====> ] 2.862801 s [racon::Polisher::initialize] aligning overlaps [======> ] 3.254804 s [racon::Polisher::initialize] aligning overlaps [=======> ] 3.798800 s [racon::Polisher::initialize] aligning overlaps [========> ] 4.486803 s [racon::Polisher::initialize] aligning overlaps [=========> ] 5.102805 s [racon::Polisher::initialize] aligning overlaps [==========> ] 5.734809 s [racon::Polisher::initialize] aligning overlaps [===========> ] 6.222831 s [racon::Polisher::initialize] aligning overlaps [============> ] 6.922820 s [racon::Polisher::initialize] aligning overlaps [=============> ] 7.614823 s [racon::Polisher::initialize] aligning overlaps [==============> ] 8.166802 s [racon::Polisher::initialize] aligning overlaps [===============> ] 8.946802 s [racon::Polisher::initialize] aligning overlaps [================> ] 9.654805 s [racon::Polisher::initialize] aligning overlaps [=================> ] 10.274811 s [racon::Polisher::initialize] aligning overlaps [==================> ] 10.942802 s [racon::Polisher::initialize] aligning overlaps [===================>] 11.654814 s [racon::Polisher::initialize] aligning overlaps [====================] 12.177128 s [racon::Polisher::initialize] transformed data into windows 0.072160 s [racon::Polisher::polish] generating consensus [=> ] 11.630845 s [racon::Polisher::polish] generating consensus [==> ] 19.963433 s [racon::Polisher::polish] generating consensus [===> ] 29.459497 s [racon::Polisher::polish] generating consensus [====> ] 36.990879 s [racon::Polisher::polish] generating consensus [=====> ] 44.970835 s [racon::Polisher::polish] generating consensus [======> ] 54.498835 s [racon::Polisher::polish] generating consensus [=======> ] 64.238834 s [racon::Polisher::polish] generating consensus [========> ] 71.250850 s [racon::Polisher::polish] generating consensus [=========> ] 80.170827 s [racon::Polisher::polish] generating consensus [==========> ] 90.818825 s [racon::Polisher::polish] generating consensus [===========> ] 99.442875 s [racon::Polisher::polish] generating consensus [============> ] 109.338885 s [racon::Polisher::polish] generating consensus [=============> ] 118.002859 s [racon::Polisher::polish] generating consensus [==============> ] 127.130828 s [racon::Polisher::polish] generating consensus [===============> ] 137.134841 s [racon::Polisher::polish] generating consensus [================> ] 142.594865 s [racon::Polisher::polish] generating consensus [=================> ] 153.502825 s [racon::Polisher::polish] generating consensus [==================> ] 163.750867 s [racon::Polisher::polish] generating consensus [===================>] 173.547459 s [racon::Polisher::polish] generating consensus [====================] 181.280385 s [racon::Polisher::] total = 193.672610 s [ OK ] RaconPolishingTest.FragmentCorrectionWithQualitiesFullMhap (193686 ms) [----------] 10 tests from RaconPolishingTest (801964 ms total) [----------] Global test environment tear-down [==========] 15 tests from 2 test suites ran. (801982 ms total) [ PASSED ] 15 tests. make[1]: Leaving directory '/build/reproducible-path/racon-1.5.0' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=cmake dh_prep -O--buildsystem=cmake dh_auto_install --destdir=debian/racon/ -O--buildsystem=cmake cd obj-arm-linux-gnueabihf && make -j4 install DESTDIR=/build/reproducible-path/racon-1.5.0/debian/racon AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/build/reproducible-path/racon-1.5.0 -B/build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/reproducible-path/racon-1.5.0/debian/racon/usr/bin/racon make[1]: Leaving directory '/build/reproducible-path/racon-1.5.0/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: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-armhf.so.3 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-armhf.so.3.usr-is-merged 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' in '../racon_1.5.0-3_armhf.deb'. dpkg-deb: building package 'racon-dbgsym' in '../racon-dbgsym_1.5.0-3_armhf.deb'. dpkg-genbuildinfo --build=binary -O../racon_1.5.0-3_armhf.buildinfo dpkg-genchanges --build=binary -O../racon_1.5.0-3_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: not including original source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/18546/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/18546/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/18546 and its subdirectories I: Current time: Mon Jan 20 17:13:06 +14 2025 I: pbuilder-time-stamp: 1737342786