Wed Dec 4 06:33:16 UTC 2024 I: starting to build racon/trixie/armhf on jenkins on '2024-12-04 06:32' Wed Dec 4 06:33:16 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/armhf_29/13751/console.log Wed Dec 4 06:33:16 UTC 2024 I: Downloading source for trixie/racon=1.5.0-3 --2024-12-04 06:33:16-- http://deb.debian.org/debian/pool/main/r/racon/racon_1.5.0-3.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2106 (2.1K) [text/prs.lines.tag] Saving to: ‘racon_1.5.0-3.dsc’ 0K .. 100% 336M=0s 2024-12-04 06:33:16 (336 MB/s) - ‘racon_1.5.0-3.dsc’ saved [2106/2106] Wed Dec 4 06:33:16 UTC 2024 I: racon_1.5.0-3.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: racon Binary: racon Architecture: any Version: 1.5.0-3 Maintainer: Debian Med Packaging Team Uploaders: Cédric Lood , Andreas Tille Homepage: https://github.com/lbcb-sci/racon Standards-Version: 4.6.1 Vcs-Browser: https://salsa.debian.org/med-team/racon Vcs-Git: https://salsa.debian.org/med-team/racon.git Testsuite: autopkgtest Build-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 Package-List: racon deb science optional arch=any Checksums-Sha1: c508bea6f7b627e1796f2017669a8e99ed548ddd 3084154 racon_1.5.0.orig.tar.gz 5d5d6ba7f343bf6ee3124a052eb1858b9431dbf1 20652 racon_1.5.0-3.debian.tar.xz Checksums-Sha256: 58fdbbd88f0990b18e3139280aa4fa81e138a9cf0761edd66c43982af784d395 3084154 racon_1.5.0.orig.tar.gz 87ebd723dfb828888b59a5ed30143aa24ec3798c933f41e00196dacc3874d911 20652 racon_1.5.0-3.debian.tar.xz Files: de1982c33464fc7cec8a172931a6cf00 3084154 racon_1.5.0.orig.tar.gz face5096f46b2ce6c9c836bb01cf1603 20652 racon_1.5.0-3.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmM1k2ERHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtHvaQ/+N79w1AElJT5zodwml2cN53AhsH46O5QP JzGAY+aYLx/AZ9C6VIbd6eiTsZ+qNDSWLqqd/ABykcNbZEA+dBiRpX08U4/5OCNi zhXwtP+rO9w0znNpX6S8jUHMnC9yFlwW4t/1GmNAZ42byGm1vA5/6IXTkg2icHL0 8SSvibSqiZgNhiitaMPnKs1fSQA2ymTONHczdKuSRjTzpVkADmdpQch3j0TwZmF5 /hcYo4651y2NbVVJRbTEwPNoDXUE3TaXo0UZVojz5sOYHDQBGcbrai64O7ycB7Pd w+y3JfPaHzfRm23vsnO6PbpG+GFOflG54PIlNHa0Z90QHGZSlZym2gjvU36M2fa9 t3ZMnBLcUBkvTPWJeis9H3mv1/gmFtomkxf0cMz928nSwO8P1MvhoyrCu66q7PzO sOI8KxZ4tdbz+JvwHaa/FBrwl+n1krpXMD8PwoGxsLrY0a/gErVXooD3YoeTzv6d U/xsrofS7jo8CIaWTT2aMoK5JN5YRbk12zH2hWnJw/7XOKBcnTbIhQjRpf4AwfjS X8IJf9txoPJEn1atb/Af7F4FqOmMoAwlDsJPrftzo9bPpfaUocqekHZZJsMro9Xi fbm+SfYqW1SkeLNSR2twNJG1r+eZm6dNsipnerAsTGM7ejcAoyu0LjtZnpoGgS/5 41EO1XUq4VQ= =933u -----END PGP SIGNATURE----- Wed Dec 4 06:33:16 UTC 2024 I: Checking whether the package is not for us Wed Dec 4 06:33:16 UTC 2024 I: Starting 1st build on remote node virt32z-armhf-rb.debian.net. Wed Dec 4 06:33:16 UTC 2024 I: Preparing to do remote build '1' on virt32z-armhf-rb.debian.net. Wed Dec 4 06:47:58 UTC 2024 I: Deleting $TMPDIR on virt32z-armhf-rb.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Tue Dec 3 18:33:22 -12 2024 I: pbuilder-time-stamp: 1733294002 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-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 gpgv: Signature made Thu Sep 29 12:45:21 2022 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./racon_1.5.0-3.dsc: no acceptable signature found 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/630/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' 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 parallel=3 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='armhf' IFS=' ' INVOCATION_ID='918df452ca224d37896a61b757dbde39' 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='630' 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/r-b-build.tN5TBszM/pbuilderrc_kgvg --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.tN5TBszM/b1 --logfile b1/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+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://10.0.0.15:3142/' I: uname -a Linux virt32z 6.1.0-28-armmp-lpae #1 SMP Debian 6.1.119-1 (2024-11-22) armv7l GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin I: user script /srv/workspace/pbuilder/630/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 ... 19684 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} libfile-stripnondeterminism-perl{a} libgssapi-krb5-2{a} libgtest-dev{a} libicu72{a} libjsoncpp26{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap-2.5-0{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{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} libthread-pool-dev{a} libtool{a} libuchardet0{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, 66 newly installed, 0 to remove and 0 not upgraded. Need to get 32.2 MB of archives. After unpacking 121 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main armhf libproc2-0 armhf 2:4.0.4-6 [56.0 kB] Get: 2 http://deb.debian.org/debian trixie/main armhf procps armhf 2:4.0.4-6 [864 kB] Get: 3 http://deb.debian.org/debian trixie/main armhf sensible-utils all 0.0.24 [24.8 kB] Get: 4 http://deb.debian.org/debian trixie/main armhf libmagic-mgc armhf 1:5.45-3+b1 [314 kB] Get: 5 http://deb.debian.org/debian trixie/main armhf libmagic1t64 armhf 1:5.45-3+b1 [98.5 kB] Get: 6 http://deb.debian.org/debian trixie/main armhf file armhf 1:5.45-3+b1 [42.3 kB] Get: 7 http://deb.debian.org/debian trixie/main armhf gettext-base armhf 0.22.5-2 [195 kB] Get: 8 http://deb.debian.org/debian trixie/main armhf libuchardet0 armhf 0.0.8-1+b2 [65.6 kB] Get: 9 http://deb.debian.org/debian trixie/main armhf groff-base armhf 1.23.0-5 [1091 kB] Get: 10 http://deb.debian.org/debian trixie/main armhf bsdextrautils armhf 2.40.2-11 [83.6 kB] Get: 11 http://deb.debian.org/debian trixie/main armhf libpipeline1 armhf 1.5.8-1 [35.0 kB] Get: 12 http://deb.debian.org/debian trixie/main armhf man-db armhf 2.13.0-1 [1382 kB] Get: 13 http://deb.debian.org/debian trixie/main armhf m4 armhf 1.4.19-4 [264 kB] Get: 14 http://deb.debian.org/debian trixie/main armhf autoconf all 2.72-3 [493 kB] Get: 15 http://deb.debian.org/debian trixie/main armhf autotools-dev all 20220109.1 [51.6 kB] Get: 16 http://deb.debian.org/debian trixie/main armhf automake all 1:1.16.5-1.3 [823 kB] Get: 17 http://deb.debian.org/debian trixie/main armhf autopoint all 0.22.5-2 [723 kB] Get: 18 http://deb.debian.org/debian trixie/main armhf cmake-data all 3.30.5-1 [2223 kB] Get: 19 http://deb.debian.org/debian trixie/main armhf libicu72 armhf 72.1-5+b1 [9088 kB] Get: 20 http://deb.debian.org/debian trixie/main armhf libxml2 armhf 2.12.7+dfsg+really2.9.14-0.2+b1 [605 kB] Get: 21 http://deb.debian.org/debian trixie/main armhf libarchive13t64 armhf 3.7.4-1.1 [306 kB] Get: 22 http://deb.debian.org/debian trixie/main armhf libbrotli1 armhf 1.1.0-2+b6 [282 kB] Get: 23 http://deb.debian.org/debian trixie/main armhf libkrb5support0 armhf 1.21.3-3 [30.0 kB] Get: 24 http://deb.debian.org/debian trixie/main armhf libcom-err2 armhf 1.47.1-1+b1 [22.3 kB] Get: 25 http://deb.debian.org/debian trixie/main armhf libk5crypto3 armhf 1.21.3-3 [75.8 kB] Get: 26 http://deb.debian.org/debian trixie/main armhf libkeyutils1 armhf 1.6.3-4 [8096 B] Get: 27 http://deb.debian.org/debian trixie/main armhf libkrb5-3 armhf 1.21.3-3 [283 kB] Get: 28 http://deb.debian.org/debian trixie/main armhf libgssapi-krb5-2 armhf 1.21.3-3 [114 kB] Get: 29 http://deb.debian.org/debian trixie/main armhf libsasl2-modules-db armhf 2.1.28+dfsg1-8 [18.2 kB] Get: 30 http://deb.debian.org/debian trixie/main armhf libsasl2-2 armhf 2.1.28+dfsg1-8 [50.2 kB] Get: 31 http://deb.debian.org/debian trixie/main armhf libldap-2.5-0 armhf 2.5.18+dfsg-3+b1 [163 kB] Get: 32 http://deb.debian.org/debian trixie/main armhf libnghttp2-14 armhf 1.64.0-1 [62.9 kB] Get: 33 http://deb.debian.org/debian trixie/main armhf libpsl5t64 armhf 0.21.2-1.1+b1 [55.8 kB] Get: 34 http://deb.debian.org/debian trixie/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b5 [53.2 kB] Get: 35 http://deb.debian.org/debian trixie/main armhf libssh2-1t64 armhf 1.11.1-1 [227 kB] Get: 36 http://deb.debian.org/debian trixie/main armhf libcurl4t64 armhf 8.11.0-1 [303 kB] Get: 37 http://deb.debian.org/debian trixie/main armhf libexpat1 armhf 2.6.4-1 [83.5 kB] Get: 38 http://deb.debian.org/debian trixie/main armhf libjsoncpp26 armhf 1.9.6-3 [69.9 kB] Get: 39 http://deb.debian.org/debian trixie/main armhf librhash1 armhf 1.4.5-1 [143 kB] Get: 40 http://deb.debian.org/debian trixie/main armhf libuv1t64 armhf 1.48.0-7 [134 kB] Get: 41 http://deb.debian.org/debian trixie/main armhf cmake armhf 3.30.5-1 [5365 kB] Get: 42 http://deb.debian.org/debian trixie/main armhf libdebhelper-perl all 13.20 [89.7 kB] Get: 43 http://deb.debian.org/debian trixie/main armhf libtool all 2.4.7-8 [517 kB] Get: 44 http://deb.debian.org/debian trixie/main armhf dh-autoreconf all 20 [17.1 kB] Get: 45 http://deb.debian.org/debian trixie/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 46 http://deb.debian.org/debian trixie/main armhf libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 47 http://deb.debian.org/debian trixie/main armhf dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 48 http://deb.debian.org/debian trixie/main armhf libelf1t64 armhf 0.192-4 [184 kB] Get: 49 http://deb.debian.org/debian trixie/main armhf dwz armhf 0.15-1+b2 [106 kB] Get: 50 http://deb.debian.org/debian trixie/main armhf gettext armhf 0.22.5-2 [1485 kB] Get: 51 http://deb.debian.org/debian trixie/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 52 http://deb.debian.org/debian trixie/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 53 http://deb.debian.org/debian trixie/main armhf debhelper all 13.20 [915 kB] Get: 54 http://deb.debian.org/debian trixie/main armhf googletest all 1.15.2-1 [514 kB] Get: 55 http://deb.debian.org/debian trixie/main armhf libbiosoup-dev all 0.11.0-2 [8000 B] Get: 56 http://deb.debian.org/debian trixie/main armhf zlib1g-dev armhf 1:1.3.dfsg+really1.3.1-1+b1 [905 kB] Get: 57 http://deb.debian.org/debian trixie/main armhf libbioparser-dev all 3.1.0-1 [9108 B] Get: 58 http://deb.debian.org/debian trixie/main armhf rapidjson-dev all 1.1.0+dfsg2-7.3 [98.0 kB] Get: 59 http://deb.debian.org/debian trixie/main armhf libcereal-dev armhf 1.3.2+dfsg-5 [221 kB] Get: 60 http://deb.debian.org/debian trixie/main armhf libedlib1 armhf 1.2.7-6+b2 [15.4 kB] Get: 61 http://deb.debian.org/debian trixie/main armhf libedlib-dev armhf 1.2.7-6+b2 [20.6 kB] Get: 62 http://deb.debian.org/debian trixie/main armhf libgtest-dev armhf 1.15.2-1 [246 kB] Get: 63 http://deb.debian.org/debian trixie/main armhf libspoa7.0.0 armhf 4.1.4-2+b1 [61.8 kB] Get: 64 http://deb.debian.org/debian trixie/main armhf libspoa-dev armhf 4.1.4-2+b1 [9788 B] Get: 65 http://deb.debian.org/debian trixie/main armhf libthread-pool-dev armhf 4.0.0-2 [7304 B] Get: 66 http://deb.debian.org/debian trixie/main armhf rampler armhf 2.1.1-1 [19.3 kB] Fetched 32.2 MB in 0s (78.0 MB/s) debconf: delaying package configuration, since apt-utils is not installed 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 ... 19684 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_0.22.5-2_armhf.deb ... Unpacking gettext-base (0.22.5-2) ... 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_1.23.0-5_armhf.deb ... Unpacking groff-base (1.23.0-5) ... 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Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/racon-1.5.0/ && 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_1.5.0-3_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 -j3 "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' [ 30%] Building CXX object CMakeFiles/racon.dir/src/logger.cpp.o [ 30%] Building CXX object CMakeFiles/racon.dir/src/polisher.cpp.o [ 30%] 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/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 /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 /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 [ 40%] 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/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 [ 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[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 -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]: Entering directory '/build/reproducible-path/racon-1.5.0/obj-arm-linux-gnueabihf' [ 80%] Building CXX object CMakeFiles/racon_test.dir/test/racon_test.cpp.o [ 80%] 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 /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 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 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 (3 ms) [ RUN ] RaconInitializeTest.WindowLengthError [ OK ] RaconInitializeTest.WindowLengthError (2 ms) [ RUN ] RaconInitializeTest.SequencesPathExtensionError [ OK ] RaconInitializeTest.SequencesPathExtensionError (3 ms) [ RUN ] RaconInitializeTest.OverlapsPathExtensionError [ OK ] RaconInitializeTest.OverlapsPathExtensionError (9 ms) [ RUN ] RaconInitializeTest.TargetPathExtensionError [ OK ] RaconInitializeTest.TargetPathExtensionError (10 ms) [----------] 5 tests from RaconInitializeTest (31 ms total) [----------] 10 tests from RaconPolishingTest [ RUN ] RaconPolishingTest.ConsensusWithQualities [racon::Polisher::initialize] loaded target sequences 0.001429 s [racon::Polisher::initialize] loaded sequences 0.067299 s [racon::Polisher::initialize] loaded overlaps 0.000847 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.054131 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.078104 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.106129 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.134065 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.158134 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.182186 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.246246 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.278128 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.302092 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.326064 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.354115 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.382120 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.410083 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.422082 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.442117 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.474123 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.490065 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.510111 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.542099 s [racon::Polisher::initialize] aligning overlaps [====================] 0.581781 s [racon::Polisher::initialize] transformed data into windows 0.003090 s [racon::Polisher::polish] generating consensus [=> ] 0.340654 s [racon::Polisher::polish] generating consensus [==> ] 0.648651 s [racon::Polisher::polish] generating consensus [===> ] 0.904665 s [racon::Polisher::polish] generating consensus [====> ] 1.100671 s [racon::Polisher::polish] generating consensus [=====> ] 1.212491 s [racon::Polisher::polish] generating consensus [======> ] 1.340623 s [racon::Polisher::polish] generating consensus [=======> ] 1.452621 s [racon::Polisher::polish] generating consensus [========> ] 1.688555 s [racon::Polisher::polish] generating consensus [=========> ] 1.808645 s [racon::Polisher::polish] generating consensus [==========> ] 2.132661 s [racon::Polisher::polish] generating consensus [===========> ] 2.428648 s [racon::Polisher::polish] generating consensus [============> ] 2.904674 s [racon::Polisher::polish] generating consensus [=============> ] 3.508702 s [racon::Polisher::polish] generating consensus [==============> ] 4.164662 s [racon::Polisher::polish] generating consensus [===============> ] 4.600646 s [racon::Polisher::polish] generating consensus [================> ] 4.924656 s [racon::Polisher::polish] generating consensus [=================> ] 5.312074 s [racon::Polisher::polish] generating consensus [==================> ] 5.548061 s [racon::Polisher::polish] generating consensus [===================>] 5.856069 s [racon::Polisher::polish] generating consensus [====================] 7.081213 s [racon::Polisher::] total = 7.770015 s [ OK ] RaconPolishingTest.ConsensusWithQualities (7807 ms) [ RUN ] RaconPolishingTest.ConsensusWithoutQualities [racon::Polisher::initialize] loaded target sequences 0.001035 s [racon::Polisher::initialize] loaded sequences 0.028697 s [racon::Polisher::initialize] loaded overlaps 0.000587 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.045062 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.069040 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.097079 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.121022 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.149057 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.173037 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.233065 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.265051 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.289005 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.309026 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.337031 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.365032 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.393008 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.405007 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.425033 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.457024 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.469091 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.493022 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.529022 s [racon::Polisher::initialize] aligning overlaps [====================] 0.563515 s [racon::Polisher::initialize] transformed data into windows 0.000889 s [racon::Polisher::polish] generating consensus [=> ] 0.360197 s [racon::Polisher::polish] generating consensus [==> ] 0.780216 s [racon::Polisher::polish] generating consensus [===> ] 1.088202 s [racon::Polisher::polish] generating consensus [====> ] 1.332248 s [racon::Polisher::polish] generating consensus [=====> ] 1.484199 s [racon::Polisher::polish] generating consensus [======> ] 1.652217 s [racon::Polisher::polish] generating consensus [=======> ] 1.832208 s [racon::Polisher::polish] generating consensus [========> ] 2.004225 s [racon::Polisher::polish] generating consensus [=========> ] 2.244166 s [racon::Polisher::polish] generating consensus [==========> ] 2.672206 s [racon::Polisher::polish] generating consensus [===========> ] 3.600208 s [racon::Polisher::polish] generating consensus [============> ] 4.140204 s [racon::Polisher::polish] generating consensus [=============> ] 4.940206 s [racon::Polisher::polish] generating consensus [==============> ] 5.524204 s [racon::Polisher::polish] generating consensus [===============> ] 6.108235 s [racon::Polisher::polish] generating consensus [================> ] 6.588151 s [racon::Polisher::polish] generating consensus [=================> ] 6.976203 s [racon::Polisher::polish] generating consensus [==================> ] 7.268248 s [racon::Polisher::polish] generating consensus [===================>] 7.608008 s [racon::Polisher::polish] generating consensus [====================] 9.645736 s [racon::Polisher::] total = 10.270796 s [ OK ] RaconPolishingTest.ConsensusWithoutQualities (10309 ms) [ RUN ] RaconPolishingTest.ConsensusWithQualitiesAndAlignments [racon::Polisher::initialize] loaded target sequences 0.001043 s [racon::Polisher::initialize] loaded sequences 0.060814 s [racon::Polisher::initialize] loaded overlaps 0.035349 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.007903 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.007941 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.007963 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.007992 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.008019 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.008044 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.008073 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.008099 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.008125 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.008153 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.008179 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.008205 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.008233 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.008258 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.008283 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.008311 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.008337 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.008877 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.009366 s [racon::Polisher::initialize] aligning overlaps [====================] 0.009678 s [racon::Polisher::initialize] transformed data into windows 0.002789 s [racon::Polisher::polish] generating consensus [=> ] 0.342039 s [racon::Polisher::polish] generating consensus [==> ] 0.654070 s [racon::Polisher::polish] generating consensus [===> ] 0.914024 s [racon::Polisher::polish] generating consensus [====> ] 1.122055 s [racon::Polisher::polish] generating consensus [=====> ] 1.218017 s [racon::Polisher::polish] generating consensus [======> ] 1.426008 s [racon::Polisher::polish] generating consensus [=======> ] 1.542005 s [racon::Polisher::polish] generating consensus [========> ] 1.694050 s [racon::Polisher::polish] generating consensus [=========> ] 1.866042 s [racon::Polisher::polish] generating consensus [==========> ] 2.074019 s [racon::Polisher::polish] generating consensus [===========> ] 2.438014 s [racon::Polisher::polish] generating consensus [============> ] 2.894014 s [racon::Polisher::polish] generating consensus [=============> ] 3.506026 s [racon::Polisher::polish] generating consensus [==============> ] 4.150022 s [racon::Polisher::polish] generating consensus [===============> ] 4.578023 s [racon::Polisher::polish] generating consensus [================> ] 4.898079 s [racon::Polisher::polish] generating consensus [=================> ] 5.322020 s [racon::Polisher::polish] generating consensus [==================> ] 5.554014 s [racon::Polisher::polish] generating consensus [===================>] 5.766015 s [racon::Polisher::polish] generating consensus [====================] 6.880920 s [racon::Polisher::] total = 7.024450 s [ OK ] RaconPolishingTest.ConsensusWithQualitiesAndAlignments (7060 ms) [ RUN ] RaconPolishingTest.ConsensusWithoutQualitiesAndWithAlignments [racon::Polisher::initialize] loaded target sequences 0.001007 s [racon::Polisher::initialize] loaded sequences 0.028700 s [racon::Polisher::initialize] loaded overlaps 0.035579 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.007492 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.007815 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.008128 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.008441 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.008749 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.009062 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.009394 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.009708 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.010021 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.010352 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.010666 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.010981 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.011294 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.011603 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.011912 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.012232 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.012536 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.012848 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.013180 s [racon::Polisher::initialize] aligning overlaps [====================] 0.013501 s [racon::Polisher::initialize] transformed data into windows 0.000896 s [racon::Polisher::polish] generating consensus [=> ] 0.338281 s [racon::Polisher::polish] generating consensus [==> ] 0.714287 s [racon::Polisher::polish] generating consensus [===> ] 1.006292 s [racon::Polisher::polish] generating consensus [====> ] 1.230304 s [racon::Polisher::polish] generating consensus [=====> ] 1.370267 s [racon::Polisher::polish] generating consensus [======> ] 1.522275 s [racon::Polisher::polish] generating consensus [=======> ] 1.678276 s [racon::Polisher::polish] generating consensus [========> ] 1.890302 s [racon::Polisher::polish] generating consensus [=========> ] 2.102282 s [racon::Polisher::polish] generating consensus [==========> ] 2.450263 s [racon::Polisher::polish] generating consensus [===========> ] 2.858267 s [racon::Polisher::polish] generating consensus [============> ] 3.370280 s [racon::Polisher::polish] generating consensus [=============> ] 4.126342 s [racon::Polisher::polish] generating consensus [==============> ] 4.734265 s [racon::Polisher::polish] generating consensus [===============> ] 5.350283 s [racon::Polisher::polish] generating consensus [================> ] 5.894330 s [racon::Polisher::polish] generating consensus [=================> ] 6.434280 s [racon::Polisher::polish] generating consensus [==================> ] 6.710279 s [racon::Polisher::polish] generating consensus [===================>] 7.030319 s [racon::Polisher::polish] generating consensus [====================] 8.878453 s [racon::Polisher::] total = 8.984472 s [ OK ] RaconPolishingTest.ConsensusWithoutQualitiesAndWithAlignments (9022 ms) [ RUN ] RaconPolishingTest.ConsensusWithQualitiesLargerWindow [racon::Polisher::initialize] loaded target sequences 0.001043 s [racon::Polisher::initialize] loaded sequences 0.062650 s [racon::Polisher::initialize] loaded overlaps 0.000627 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.049001 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.072793 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.104782 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.124733 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.156752 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.180802 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.245019 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.276831 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.300721 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.324730 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.352715 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.380745 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.408755 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.424728 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.444717 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.476945 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.488709 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.512766 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.552744 s [racon::Polisher::initialize] aligning overlaps [====================] 0.578778 s [racon::Polisher::initialize] transformed data into windows 0.002811 s [racon::Polisher::polish] generating consensus [=> ] 1.336138 s [racon::Polisher::polish] generating consensus [==> ] 1.336212 s [racon::Polisher::polish] generating consensus [===> ] 2.434765 s [racon::Polisher::polish] generating consensus [====> ] 2.435969 s [racon::Polisher::polish] generating consensus [=====> ] 2.966664 s [racon::Polisher::polish] generating consensus [======> ] 2.967671 s [racon::Polisher::polish] generating consensus [=======> ] 3.393936 s [racon::Polisher::polish] generating consensus [========> ] 3.394010 s [racon::Polisher::polish] generating consensus [=========> ] 4.217930 s [racon::Polisher::polish] generating consensus [==========> ] 4.217981 s [racon::Polisher::polish] generating consensus [===========> ] 7.129925 s [racon::Polisher::polish] generating consensus [============> ] 7.129984 s [racon::Polisher::polish] generating consensus [=============> ] 9.313940 s [racon::Polisher::polish] generating consensus [==============> ] 9.313991 s [racon::Polisher::polish] generating consensus [===============> ] 10.761927 s [racon::Polisher::polish] generating consensus [================> ] 10.762017 s [racon::Polisher::polish] generating consensus [=================> ] 12.097931 s [racon::Polisher::polish] generating consensus [==================> ] 12.097990 s [racon::Polisher::polish] generating consensus [===================>] 13.129893 s [racon::Polisher::polish] generating consensus [====================] 14.278437 s [racon::Polisher::] total = 14.961402 s [ OK ] RaconPolishingTest.ConsensusWithQualitiesLargerWindow (15066 ms) [ RUN ] RaconPolishingTest.ConsensusWithQualitiesEditDistance [racon::Polisher::initialize] loaded target sequences 0.001256 s [racon::Polisher::initialize] loaded sequences 0.060847 s [racon::Polisher::initialize] loaded overlaps 0.000690 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.045465 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.069443 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.097447 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.121442 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.149483 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.173479 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.233466 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.261466 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.285454 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.309451 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.337457 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.365458 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.393440 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.405454 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.441468 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.465440 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.497453 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.533467 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.545464 s [racon::Polisher::initialize] aligning overlaps [====================] 0.578393 s [racon::Polisher::initialize] transformed data into windows 0.002832 s [racon::Polisher::polish] generating consensus [=> ] 0.324049 s [racon::Polisher::polish] generating consensus [==> ] 0.624066 s [racon::Polisher::polish] generating consensus [===> ] 0.872058 s [racon::Polisher::polish] generating consensus [====> ] 1.068082 s [racon::Polisher::polish] generating consensus [=====> ] 1.164044 s [racon::Polisher::polish] generating consensus [======> ] 1.284062 s [racon::Polisher::polish] generating consensus [=======> ] 1.404064 s [racon::Polisher::polish] generating consensus [========> ] 1.536132 s [racon::Polisher::polish] generating consensus [=========> ] 1.732053 s [racon::Polisher::polish] generating consensus [==========> ] 1.984060 s [racon::Polisher::polish] generating consensus [===========> ] 2.316057 s [racon::Polisher::polish] generating consensus [============> ] 2.764061 s [racon::Polisher::polish] generating consensus [=============> ] 3.876064 s [racon::Polisher::polish] generating consensus [==============> ] 4.504086 s [racon::Polisher::polish] generating consensus [===============> ] 4.920063 s [racon::Polisher::polish] generating consensus [================> ] 5.228063 s [racon::Polisher::polish] generating consensus [=================> ] 5.616067 s [racon::Polisher::polish] generating consensus [==================> ] 5.840058 s [racon::Polisher::polish] generating consensus [===================>] 6.136064 s [racon::Polisher::polish] generating consensus [====================] 6.906415 s [racon::Polisher::] total = 7.581433 s [ OK ] RaconPolishingTest.ConsensusWithQualitiesEditDistance (7615 ms) [ RUN ] RaconPolishingTest.FragmentCorrectionWithQualities [racon::Polisher::initialize] loaded target sequences 0.062509 s [racon::Polisher::initialize] loaded sequences 0.067048 s [racon::Polisher::initialize] loaded overlaps 0.017713 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.049025 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.089014 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.105012 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.128996 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.153041 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.177041 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.221028 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.249045 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.289034 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.317022 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.353019 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.405035 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.441022 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.497070 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.525029 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.569041 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.597046 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.613022 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.621011 s [racon::Polisher::initialize] aligning overlaps [====================] 0.679564 s [racon::Polisher::initialize] transformed data into windows 0.006238 s [racon::Polisher::polish] generating consensus [=> ] 0.230261 s [racon::Polisher::polish] generating consensus [==> ] 0.490241 s [racon::Polisher::polish] generating consensus [===> ] 0.722339 s [racon::Polisher::polish] generating consensus [====> ] 0.726386 s [racon::Polisher::polish] generating consensus [=====> ] 0.870300 s [racon::Polisher::polish] generating consensus [======> ] 0.974335 s [racon::Polisher::polish] generating consensus [=======> ] 1.126345 s [racon::Polisher::polish] generating consensus [========> ] 1.158401 s [racon::Polisher::polish] generating consensus [=========> ] 1.482204 s [racon::Polisher::polish] generating consensus [==========> ] 1.614179 s [racon::Polisher::polish] generating consensus [===========> ] 1.722288 s [racon::Polisher::polish] generating consensus [============> ] 1.762320 s [racon::Polisher::polish] generating consensus [=============> ] 1.890201 s [racon::Polisher::polish] generating consensus [==============> ] 1.890456 s [racon::Polisher::polish] generating consensus [===============> ] 2.190329 s [racon::Polisher::polish] generating consensus [================> ] 2.190551 s [racon::Polisher::polish] generating consensus [=================> ] 2.774311 s [racon::Polisher::polish] generating consensus [==================> ] 2.974338 s [racon::Polisher::polish] generating consensus [===================>] 3.174377 s [racon::Polisher::polish] generating consensus [====================] 3.199028 s [racon::Polisher::] total = 4.036338 s [ OK ] RaconPolishingTest.FragmentCorrectionWithQualities (4076 ms) [ RUN ] RaconPolishingTest.FragmentCorrectionWithQualitiesFull [racon::Polisher::initialize] loaded target sequences 0.061493 s [racon::Polisher::initialize] loaded sequences 0.064932 s [racon::Polisher::initialize] loaded overlaps 0.017431 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.825046 s [racon::Polisher::initialize] aligning overlaps [==> ] 1.409058 s [racon::Polisher::initialize] aligning overlaps [===> ] 1.925037 s [racon::Polisher::initialize] aligning overlaps [====> ] 2.617033 s [racon::Polisher::initialize] aligning overlaps [=====> ] 3.213035 s [racon::Polisher::initialize] aligning overlaps [======> ] 3.637033 s [racon::Polisher::initialize] aligning overlaps [=======> ] 4.257024 s [racon::Polisher::initialize] aligning overlaps [========> ] 4.997023 s [racon::Polisher::initialize] aligning overlaps [=========> ] 5.637024 s [racon::Polisher::initialize] aligning overlaps [==========> ] 6.313037 s [racon::Polisher::initialize] aligning overlaps [===========> ] 6.845020 s [racon::Polisher::initialize] aligning overlaps [============> ] 7.601824 s [racon::Polisher::initialize] aligning overlaps [=============> ] 8.329075 s [racon::Polisher::initialize] aligning overlaps [==============> ] 8.885022 s [racon::Polisher::initialize] aligning overlaps [===============> ] 9.665657 s [racon::Polisher::initialize] aligning overlaps [================> ] 10.377643 s [racon::Polisher::initialize] aligning overlaps [=================> ] 11.041649 s [racon::Polisher::initialize] aligning overlaps [==================> ] 11.757601 s [racon::Polisher::initialize] aligning overlaps [===================>] 12.461609 s [racon::Polisher::initialize] aligning overlaps [====================] 13.018560 s [racon::Polisher::initialize] transformed data into windows 0.074236 s [racon::Polisher::polish] generating consensus [=> ] 15.693939 s [racon::Polisher::polish] generating consensus [==> ] 29.003186 s [racon::Polisher::polish] generating consensus [===> ] 39.646656 s [racon::Polisher::polish] generating consensus [====> ] 48.238592 s [racon::Polisher::polish] generating consensus [=====> ] 57.301938 s [racon::Polisher::polish] generating consensus [======> ] 68.022646 s [racon::Polisher::polish] generating consensus [=======> ] 78.806562 s [racon::Polisher::polish] generating consensus [========> ] 87.730615 s [racon::Polisher::polish] generating consensus [=========> ] 98.238603 s [racon::Polisher::polish] generating consensus [==========> ] 109.730120 s [racon::Polisher::polish] generating consensus [===========> ] 118.810163 s [racon::Polisher::polish] generating consensus [============> ] 130.057970 s [racon::Polisher::polish] generating consensus [=============> ] 139.209935 s [racon::Polisher::polish] generating consensus [==============> ] 148.797907 s [racon::Polisher::polish] generating consensus [===============> ] 158.729951 s [racon::Polisher::polish] generating consensus [================> ] 164.605993 s [racon::Polisher::polish] generating consensus [=================> ] 174.897929 s [racon::Polisher::polish] generating consensus [==================> ] 185.041972 s [racon::Polisher::polish] generating consensus [===================>] 194.877918 s [racon::Polisher::polish] generating consensus [====================] 203.418453 s [racon::Polisher::] total = 216.662762 s [ OK ] RaconPolishingTest.FragmentCorrectionWithQualitiesFull (216703 ms) [ RUN ] RaconPolishingTest.FragmentCorrectionWithoutQualitiesFull [racon::Polisher::initialize] loaded target sequences 0.029733 s [racon::Polisher::initialize] loaded sequences 0.029664 s [racon::Polisher::initialize] loaded overlaps 0.016999 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.718644 s [racon::Polisher::initialize] aligning overlaps [==> ] 1.178633 s [racon::Polisher::initialize] aligning overlaps [===> ] 1.634655 s [racon::Polisher::initialize] aligning overlaps [====> ] 2.270648 s [racon::Polisher::initialize] aligning overlaps [=====> ] 2.806654 s [racon::Polisher::initialize] aligning overlaps [======> ] 3.190636 s [racon::Polisher::initialize] aligning overlaps [=======> ] 3.706647 s [racon::Polisher::initialize] aligning overlaps [========> ] 4.370643 s [racon::Polisher::initialize] aligning overlaps [=========> ] 4.998653 s [racon::Polisher::initialize] aligning overlaps [==========> ] 5.591297 s [racon::Polisher::initialize] aligning overlaps [===========> ] 6.059282 s [racon::Polisher::initialize] aligning overlaps [============> ] 6.730666 s [racon::Polisher::initialize] aligning overlaps [=============> ] 7.406646 s [racon::Polisher::initialize] aligning overlaps [==============> ] 7.994636 s [racon::Polisher::initialize] aligning overlaps [===============> ] 8.738649 s [racon::Polisher::initialize] aligning overlaps [================> ] 9.446640 s [racon::Polisher::initialize] aligning overlaps [=================> ] 10.154635 s [racon::Polisher::initialize] aligning overlaps [==================> ] 10.858639 s [racon::Polisher::initialize] aligning overlaps [===================>] 11.558634 s [racon::Polisher::initialize] aligning overlaps [====================] 12.174480 s [racon::Polisher::initialize] transformed data into windows 0.024243 s [racon::Polisher::polish] generating consensus [=> ] 16.293522 s [racon::Polisher::polish] generating consensus [==> ] 28.989550 s [racon::Polisher::polish] generating consensus [===> ] 41.601584 s [racon::Polisher::polish] generating consensus [====> ] 51.485610 s [racon::Polisher::polish] generating consensus [=====> ] 62.629521 s [racon::Polisher::polish] generating consensus [======> ] 75.273549 s [racon::Polisher::polish] generating consensus [=======> ] 93.597813 s [racon::Polisher::polish] generating consensus [========> ] 106.622261 s [racon::Polisher::polish] generating consensus [=========> ] 121.049510 s [racon::Polisher::polish] generating consensus [==========> ] 137.673515 s [racon::Polisher::polish] generating consensus [===========> ] 150.617725 s [racon::Polisher::polish] generating consensus [============> ] 165.879291 s [racon::Polisher::polish] generating consensus [=============> ] 180.835444 s [racon::Polisher::polish] generating consensus [==============> ] 195.662204 s [racon::Polisher::polish] generating consensus [===============> ] 210.329650 s [racon::Polisher::polish] generating consensus [================> ] 217.958206 s [racon::Polisher::polish] generating consensus [=================> ] 235.722213 s [racon::Polisher::polish] generating consensus [==================> ] 252.221601 s [racon::Polisher::polish] generating consensus [===================>] 267.577525 s [racon::Polisher::polish] generating consensus [====================] 284.764121 s [racon::Polisher::] total = 297.044022 s [ OK ] RaconPolishingTest.FragmentCorrectionWithoutQualitiesFull (297085 ms) [ RUN ] RaconPolishingTest.FragmentCorrectionWithQualitiesFullMhap [racon::Polisher::initialize] loaded target sequences 0.064322 s [racon::Polisher::initialize] loaded sequences 0.062558 s [racon::Polisher::initialize] loaded overlaps 0.017223 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.915893 s [racon::Polisher::initialize] aligning overlaps [==> ] 1.542250 s [racon::Polisher::initialize] aligning overlaps [===> ] 2.185605 s [racon::Polisher::initialize] aligning overlaps [====> ] 2.961629 s [racon::Polisher::initialize] aligning overlaps [=====> ] 3.750244 s [racon::Polisher::initialize] aligning overlaps [======> ] 4.234175 s [racon::Polisher::initialize] aligning overlaps [=======> ] 4.846188 s [racon::Polisher::initialize] aligning overlaps [========> ] 5.633934 s [racon::Polisher::initialize] aligning overlaps [=========> ] 6.598195 s [racon::Polisher::initialize] aligning overlaps [==========> ] 7.425625 s [racon::Polisher::initialize] aligning overlaps [===========> ] 8.022013 s [racon::Polisher::initialize] aligning overlaps [============> ] 9.029886 s [racon::Polisher::initialize] aligning overlaps [=============> ] 9.921611 s [racon::Polisher::initialize] aligning overlaps [==============> ] 10.641599 s [racon::Polisher::initialize] aligning overlaps [===============> ] 11.425620 s [racon::Polisher::initialize] aligning overlaps [================> ] 12.157590 s [racon::Polisher::initialize] aligning overlaps [=================> ] 12.762154 s [racon::Polisher::initialize] aligning overlaps [==================> ] 13.569597 s [racon::Polisher::initialize] aligning overlaps [===================>] 14.369598 s [racon::Polisher::initialize] aligning overlaps [====================] 14.547381 s [racon::Polisher::initialize] transformed data into windows 0.072703 s [racon::Polisher::polish] generating consensus [=> ] 11.819410 s [racon::Polisher::polish] generating consensus [==> ] 20.179398 s [racon::Polisher::polish] generating consensus [===> ] 29.235243 s [racon::Polisher::polish] generating consensus [====> ] 36.783239 s [racon::Polisher::polish] generating consensus [=====> ] 44.823182 s [racon::Polisher::polish] generating consensus [======> ] 54.815201 s [racon::Polisher::polish] generating consensus [=======> ] 64.595206 s [racon::Polisher::polish] generating consensus [========> ] 71.639195 s [racon::Polisher::polish] generating consensus [=========> ] 80.579182 s [racon::Polisher::polish] generating consensus [==========> ] 91.251184 s [racon::Polisher::polish] generating consensus [===========> ] 99.907244 s [racon::Polisher::polish] generating consensus [============> ] 109.839251 s [racon::Polisher::polish] generating consensus [=============> ] 118.527195 s [racon::Polisher::polish] generating consensus [==============> ] 127.671195 s [racon::Polisher::polish] generating consensus [===============> ] 137.699200 s [racon::Polisher::polish] generating consensus [================> ] 143.211255 s [racon::Polisher::polish] generating consensus [=================> ] 154.219201 s [racon::Polisher::polish] generating consensus [==================> ] 166.383874 s [racon::Polisher::polish] generating consensus [===================>] 180.155207 s [racon::Polisher::polish] generating consensus [====================] 190.564566 s [racon::Polisher::] total = 205.335519 s [ OK ] RaconPolishingTest.FragmentCorrectionWithQualitiesFullMhap (205373 ms) [----------] 10 tests from RaconPolishingTest (780121 ms total) [----------] Global test environment tear-down [==========] 15 tests from 2 test suites ran. (780153 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 -j3 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-dbgsym' in '../racon-dbgsym_1.5.0-3_armhf.deb'. dpkg-deb: building package 'racon' in '../racon_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: 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/630 and its subdirectories I: Current time: Tue Dec 3 18:47:45 -12 2024 I: pbuilder-time-stamp: 1733294865 Wed Dec 4 06:48:01 UTC 2024 I: 1st build successful. Starting 2nd build on remote node virt64a-armhf-rb.debian.net. Wed Dec 4 06:48:01 UTC 2024 I: Preparing to do remote build '2' on virt64a-armhf-rb.debian.net. Wed Dec 4 07:14:28 UTC 2024 I: Deleting $TMPDIR on virt64a-armhf-rb.debian.net. Wed Dec 4 07:14:30 UTC 2024 I: racon_1.5.0-3_armhf.changes: Format: 1.8 Date: Thu, 29 Sep 2022 14:39:55 +0200 Source: racon Binary: racon racon-dbgsym Architecture: armhf Version: 1.5.0-3 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: racon - consensus module for raw de novo DNA assembly of long uncorrected Changes: racon (1.5.0-3) unstable; urgency=medium . * Standards-Version: 4.6.1 (routine-update) * Drop patch making racon compatible to old libthread_pool Checksums-Sha1: 8c75fff6430032c6ec0b2625d429b3945584af27 1011764 racon-dbgsym_1.5.0-3_armhf.deb 90d07bd8ba296a5f167eb6594e10ffec5b26503f 6228 racon_1.5.0-3_armhf.buildinfo 9a775ad8883d1d559f5e55831f583455fd8dce94 3106728 racon_1.5.0-3_armhf.deb Checksums-Sha256: ab4c9c9ed9e56cda0b074accb7bcb219b103479b670f9150dee2451c60970656 1011764 racon-dbgsym_1.5.0-3_armhf.deb dedb3ab803c3fe055bbde934facf2dbea7ef8c1ef2629a46c3f23d954fc6e93a 6228 racon_1.5.0-3_armhf.buildinfo 4b52d3a29d020089c5a83d438afd3b7019955c24d6be0dbb7888efe4992fdf5a 3106728 racon_1.5.0-3_armhf.deb Files: 84378900c74dfc77e03654607f53fef9 1011764 debug optional racon-dbgsym_1.5.0-3_armhf.deb 3250d587527527fb00ab6232821f340f 6228 science optional racon_1.5.0-3_armhf.buildinfo 8ab1df390e2bb0438dbe5a2533e2efcd 3106728 science optional racon_1.5.0-3_armhf.deb Wed Dec 4 07:14:31 UTC 2024 I: diffoscope 283 will be used to compare the two builds: Running as unit: rb-diffoscope-armhf_29-13751.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.tN5TBszM/racon_1.5.0-3.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.tN5TBszM/racon_1.5.0-3.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.tN5TBszM/racon_1.5.0-3.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.tN5TBszM/b1/racon_1.5.0-3_armhf.changes /srv/reproducible-results/rbuild-debian/r-b-build.tN5TBszM/b2/racon_1.5.0-3_armhf.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.358s) 0.358s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.050s) 0.050s 12 calls diffoscope.comparators.binary.FilesystemFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 643ms CPU time consumed: 644ms Wed Dec 4 07:14:32 UTC 2024 I: diffoscope 283 found no differences in the changes files, and a .buildinfo file also exists. Wed Dec 4 07:14:32 UTC 2024 I: racon from trixie built successfully and reproducibly on armhf. Wed Dec 4 07:14:34 UTC 2024 I: Submitting .buildinfo files to external archives: Wed Dec 4 07:14:34 UTC 2024 I: Submitting 8.0K b1/racon_1.5.0-3_armhf.buildinfo.asc Wed Dec 4 07:14:34 UTC 2024 I: Submitting 8.0K b2/racon_1.5.0-3_armhf.buildinfo.asc Wed Dec 4 07:14:35 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Wed Dec 4 07:14:35 UTC 2024 I: Done submitting .buildinfo files. Wed Dec 4 07:14:35 UTC 2024 I: Removing signed racon_1.5.0-3_armhf.buildinfo.asc files: removed './b1/racon_1.5.0-3_armhf.buildinfo.asc' removed './b2/racon_1.5.0-3_armhf.buildinfo.asc'