Thu Apr 25 12:22:10 UTC 2024 I: starting to build racon/trixie/amd64 on jenkins on '2024-04-25 12:22' Thu Apr 25 12:22:10 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_20/17724/console.log Thu Apr 25 12:22:10 UTC 2024 I: Downloading source for trixie/racon=1.5.0-3 --2024-04-25 12:22:10-- 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% 315M=0s 2024-04-25 12:22:10 (315 MB/s) - ‘racon_1.5.0-3.dsc’ saved [2106/2106] Thu Apr 25 12:22:10 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----- Thu Apr 25 12:22:10 UTC 2024 I: Checking whether the package is not for us Thu Apr 25 12:22:10 UTC 2024 I: Starting 1st build on remote node ionos15-amd64.debian.net. Thu Apr 25 12:22:10 UTC 2024 I: Preparing to do remote build '1' on ionos15-amd64.debian.net. Thu Apr 25 12:24:54 UTC 2024 I: Deleting $TMPDIR on ionos15-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Wed May 28 06:45:15 -12 2025 I: pbuilder-time-stamp: 1748457915 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/4190141/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='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='ff1f07553e5b46428240c66d6399bbc7' 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='4190141' 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.XrTqBlLh/pbuilderrc_TF1E --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.XrTqBlLh/b1 --logfile b1/build.log racon_1.5.0-3.dsc' SUDO_GID='111' SUDO_UID='106' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://213.165.73.152:3128' I: uname -a Linux ionos15-amd64 6.6.13+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.6.13-1~bpo12+1 (2024-02-15) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 May 27 17:46 /bin -> usr/bin I: user script /srv/workspace/pbuilder/4190141/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: amd64 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 ... 19722 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} 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} libbioparser-dev{a} libbiosoup-dev{a} libcereal-dev{a} libdebhelper-perl{a} libedlib-dev{a} libedlib1{a} libelf1{a} libfile-stripnondeterminism-perl{a} libgtest-dev{a} libicu72{a} libmagic-mgc{a} libmagic1{a} libpipeline1{a} libspoa-dev{a} libspoa7.0.0{a} libsub-override-perl{a} libthread-pool-dev{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} rampler{a} rapidjson-dev{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 43 newly installed, 0 to remove and 0 not upgraded. Need to get 21.2 MB of archives. After unpacking 82.2 MB will be used. The following packages have unmet dependencies: pbuilder-satisfydepends-dummy : Depends: cmake but it is not installable The following actions will resolve these dependencies: Remove the following packages: 1) libgnutls30 [3.8.3-1 (now)] 2) libhogweed6 [3.9.1-2+b1 (now)] 3) libnettle8 [3.9.1-2+b1 (now)] 4) libssl3 [3.1.5-1 (now)] Install the following packages: 5) cmake [3.28.3-1 (testing)] 6) cmake-data [3.28.3-1 (testing)] 7) libarchive13t64 [3.7.2-2 (testing)] 8) libbrotli1 [1.1.0-2+b3 (testing)] 9) libcom-err2 [1.47.0-2+b1 (testing)] 10) libcurl4 [8.5.0-2 (testing)] 11) libexpat1 [2.6.2-1 (testing)] 12) libgnutls30t64 [3.8.5-2 (testing)] 13) libgssapi-krb5-2 [1.20.1-5+b1 (testing)] 14) libhogweed6t64 [3.9.1-2.2 (testing)] 15) libjsoncpp25 [1.9.5-6+b2 (testing)] 16) libk5crypto3 [1.20.1-5+b1 (testing)] 17) libkeyutils1 [1.6.3-3 (testing)] 18) libkrb5-3 [1.20.1-5+b1 (testing)] 19) libkrb5support0 [1.20.1-5+b1 (testing)] 20) libldap-2.5-0 [2.5.13+dfsg-5+b3 (testing)] 21) libnettle8t64 [3.9.1-2.2 (testing)] 22) libnghttp2-14 [1.59.0-1 (testing)] 23) libproc2-0 [2:4.0.4-4 (testing)] 24) libpsl5t64 [0.21.2-1.1 (testing)] 25) librhash0 [1.4.3-3+b1 (testing)] 26) librtmp1 [2.4+20151223.gitfa8646d.1-2+b4 (testing)] 27) libsasl2-2 [2.1.28+dfsg1-4+b1 (testing)] 28) libsasl2-modules-db [2.1.28+dfsg1-4+b1 (testing)] 29) libssh2-1t64 [1.11.0-4.1+b2 (testing)] 30) libssl3t64 [3.2.1-3 (testing)] 31) libuv1 [1.48.0-1 (testing)] 32) procps [2:4.0.4-4 (testing)] 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} libcurl4{a} libdebhelper-perl{a} libedlib-dev{a} libedlib1{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libgnutls30t64{a} libgssapi-krb5-2{a} libgtest-dev{a} libhogweed6t64{a} libicu72{a} libjsoncpp25{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap-2.5-0{a} libmagic-mgc{a} libmagic1{a} libnettle8t64{a} libnghttp2-14{a} libpipeline1{a} libproc2-0{a} libpsl5t64{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libspoa-dev{a} libspoa7.0.0{a} libssh2-1t64{a} libssl3t64{a} libsub-override-perl{a} libthread-pool-dev{a} libtool{a} libuchardet0{a} libuv1{a} libxml2{a} m4{a} man-db{a} po-debconf{a} procps{a} rampler{a} rapidjson-dev{a} sensible-utils{a} zlib1g-dev{a} The following packages will be REMOVED: libgnutls30{a} libhogweed6{a} libnettle8{a} libssl3{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 lynx psmisc publicsuffix wget 0 packages upgraded, 71 newly installed, 4 to remove and 0 not upgraded. Need to get 41.9 MB of archives. After unpacking 142 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main amd64 libnettle8t64 amd64 3.9.1-2.2 [296 kB] Get: 2 http://deb.debian.org/debian trixie/main amd64 libhogweed6t64 amd64 3.9.1-2.2 [328 kB] Get: 3 http://deb.debian.org/debian trixie/main amd64 libgnutls30t64 amd64 3.8.5-2 [1437 kB] Get: 4 http://deb.debian.org/debian trixie/main amd64 libssl3t64 amd64 3.2.1-3 [2244 kB] Get: 5 http://deb.debian.org/debian trixie/main amd64 libproc2-0 amd64 2:4.0.4-4 [64.6 kB] Get: 6 http://deb.debian.org/debian trixie/main amd64 procps amd64 2:4.0.4-4 [880 kB] Get: 7 http://deb.debian.org/debian trixie/main amd64 sensible-utils all 0.0.22 [22.4 kB] Get: 8 http://deb.debian.org/debian trixie/main amd64 libmagic-mgc amd64 1:5.45-2+b1 [314 kB] Get: 9 http://deb.debian.org/debian trixie/main amd64 libmagic1 amd64 1:5.45-2+b1 [105 kB] Get: 10 http://deb.debian.org/debian trixie/main amd64 file amd64 1:5.45-2+b1 [43.1 kB] Get: 11 http://deb.debian.org/debian trixie/main amd64 gettext-base amd64 0.21-14+b1 [161 kB] Get: 12 http://deb.debian.org/debian trixie/main amd64 libuchardet0 amd64 0.0.8-1+b1 [68.8 kB] Get: 13 http://deb.debian.org/debian trixie/main amd64 groff-base amd64 1.23.0-3 [1180 kB] Get: 14 http://deb.debian.org/debian trixie/main amd64 bsdextrautils amd64 2.39.3-6 [89.4 kB] Get: 15 http://deb.debian.org/debian trixie/main amd64 libpipeline1 amd64 1.5.7-2 [38.0 kB] Get: 16 http://deb.debian.org/debian trixie/main amd64 man-db amd64 2.12.0-3 [1401 kB] Get: 17 http://deb.debian.org/debian trixie/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 18 http://deb.debian.org/debian trixie/main amd64 autoconf all 2.71-3 [332 kB] Get: 19 http://deb.debian.org/debian trixie/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 20 http://deb.debian.org/debian trixie/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 21 http://deb.debian.org/debian trixie/main amd64 autopoint all 0.21-14 [496 kB] Get: 22 http://deb.debian.org/debian trixie/main amd64 libicu72 amd64 72.1-4+b1 [9395 kB] Get: 23 http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.9.14+dfsg-1.3+b2 [692 kB] Get: 24 http://deb.debian.org/debian trixie/main amd64 libarchive13t64 amd64 3.7.2-2 [346 kB] Get: 25 http://deb.debian.org/debian trixie/main amd64 libbrotli1 amd64 1.1.0-2+b3 [305 kB] Get: 26 http://deb.debian.org/debian trixie/main amd64 libkrb5support0 amd64 1.20.1-5+b1 [33.2 kB] Get: 27 http://deb.debian.org/debian trixie/main amd64 libcom-err2 amd64 1.47.0-2+b1 [20.1 kB] Get: 28 http://deb.debian.org/debian trixie/main amd64 libk5crypto3 amd64 1.20.1-5+b1 [80.0 kB] Get: 29 http://deb.debian.org/debian trixie/main amd64 libkeyutils1 amd64 1.6.3-3 [8952 B] Get: 30 http://deb.debian.org/debian trixie/main amd64 libkrb5-3 amd64 1.20.1-5+b1 [333 kB] Get: 31 http://deb.debian.org/debian trixie/main amd64 libgssapi-krb5-2 amd64 1.20.1-5+b1 [135 kB] Get: 32 http://deb.debian.org/debian trixie/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-4+b1 [19.7 kB] Get: 33 http://deb.debian.org/debian trixie/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-4+b1 [57.0 kB] Get: 34 http://deb.debian.org/debian trixie/main amd64 libldap-2.5-0 amd64 2.5.13+dfsg-5+b3 [184 kB] Get: 35 http://deb.debian.org/debian trixie/main amd64 libnghttp2-14 amd64 1.59.0-1 [74.3 kB] Get: 36 http://deb.debian.org/debian trixie/main amd64 libpsl5t64 amd64 0.21.2-1.1 [56.8 kB] Get: 37 http://deb.debian.org/debian trixie/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b4 [58.5 kB] Get: 38 http://deb.debian.org/debian trixie/main amd64 libssh2-1t64 amd64 1.11.0-4.1+b2 [215 kB] Get: 39 http://deb.debian.org/debian trixie/main amd64 libcurl4 amd64 8.5.0-2 [427 kB] Get: 40 http://deb.debian.org/debian trixie/main amd64 libexpat1 amd64 2.6.2-1 [103 kB] Get: 41 http://deb.debian.org/debian trixie/main amd64 libjsoncpp25 amd64 1.9.5-6+b2 [81.9 kB] Get: 42 http://deb.debian.org/debian trixie/main amd64 librhash0 amd64 1.4.3-3+b1 [132 kB] Get: 43 http://deb.debian.org/debian trixie/main amd64 libuv1 amd64 1.48.0-1 [147 kB] Get: 44 http://deb.debian.org/debian trixie/main amd64 cmake-data all 3.28.3-1 [2128 kB] Get: 45 http://deb.debian.org/debian trixie/main amd64 cmake amd64 3.28.3-1 [10.5 MB] Get: 46 http://deb.debian.org/debian trixie/main amd64 libdebhelper-perl all 13.15.3 [88.0 kB] Get: 47 http://deb.debian.org/debian trixie/main amd64 libtool all 2.4.7-7 [517 kB] Get: 48 http://deb.debian.org/debian trixie/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 49 http://deb.debian.org/debian trixie/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 50 http://deb.debian.org/debian trixie/main amd64 libsub-override-perl all 0.10-1 [10.6 kB] Get: 51 http://deb.debian.org/debian trixie/main amd64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 52 http://deb.debian.org/debian trixie/main amd64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 53 http://deb.debian.org/debian trixie/main amd64 libelf1 amd64 0.190-1+b1 [176 kB] Get: 54 http://deb.debian.org/debian trixie/main amd64 dwz amd64 0.15-1 [109 kB] Get: 55 http://deb.debian.org/debian trixie/main amd64 gettext amd64 0.21-14+b1 [1301 kB] Get: 56 http://deb.debian.org/debian trixie/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 57 http://deb.debian.org/debian trixie/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 58 http://deb.debian.org/debian trixie/main amd64 debhelper all 13.15.3 [901 kB] Get: 59 http://deb.debian.org/debian trixie/main amd64 googletest all 1.14.0-1 [512 kB] Get: 60 http://deb.debian.org/debian trixie/main amd64 libbiosoup-dev all 0.11.0-2 [8000 B] Get: 61 http://deb.debian.org/debian trixie/main amd64 zlib1g-dev amd64 1:1.3.dfsg-3+b1 [919 kB] Get: 62 http://deb.debian.org/debian trixie/main amd64 libbioparser-dev all 3.1.0-1 [9108 B] Get: 63 http://deb.debian.org/debian trixie/main amd64 rapidjson-dev all 1.1.0+dfsg2-7.1 [97.7 kB] Get: 64 http://deb.debian.org/debian trixie/main amd64 libcereal-dev amd64 1.3.2+dfsg-5 [221 kB] Get: 65 http://deb.debian.org/debian trixie/main amd64 libedlib1 amd64 1.2.7-5 [17.7 kB] Get: 66 http://deb.debian.org/debian trixie/main amd64 libedlib-dev amd64 1.2.7-5 [22.5 kB] Get: 67 http://deb.debian.org/debian trixie/main amd64 libgtest-dev amd64 1.14.0-1+b1 [250 kB] Get: 68 http://deb.debian.org/debian trixie/main amd64 libspoa7.0.0 amd64 4.1.4-1 [70.3 kB] Get: 69 http://deb.debian.org/debian trixie/main amd64 libspoa-dev amd64 4.1.4-1 [9400 B] Get: 70 http://deb.debian.org/debian trixie/main amd64 libthread-pool-dev amd64 4.0.0-2 [7312 B] Get: 71 http://deb.debian.org/debian trixie/main amd64 rampler amd64 2.1.1-1 [21.2 kB] Fetched 41.9 MB in 8s (5416 kB/s) debconf: delaying package configuration, since apt-utils is not installed dpkg: libnettle8:amd64: dependency problems, but removing anyway as you requested: libhogweed6:amd64 depends on libnettle8. libgnutls30:amd64 depends on libnettle8 (>= 3.9~). (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 ... 19722 files and directories currently installed.) Removing libnettle8:amd64 (3.9.1-2+b1) ... Selecting previously unselected package libnettle8t64:amd64. (Reading database ... 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(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 ... 19710 files and directories currently installed.) Preparing to unpack .../libssl3t64_3.2.1-3_amd64.deb ... Unpacking libssl3t64:amd64 (3.2.1-3) ... Setting up libssl3t64:amd64 (3.2.1-3) ... Selecting previously unselected package libproc2-0:amd64. (Reading database ... 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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 amd64 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-x86_64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb 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/x86_64-linux-gnu -Dracon_build_tests=ON -Dracon_build_wrapper=ON .. -- The CXX compiler identification is GNU 13.2.0 -- 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 (0.9s) -- 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-x86_64-linux-gnu # Somehow the means in the patch for CMakeLists.txt to replace -lpthread by -pthread to not work # Just hack it here sed -i 's/-lpthread/-pthread/' obj-*/CMakeFiles/racon_test.dir/link.txt make[1]: Leaving directory '/build/reproducible-path/racon-1.5.0' dh_auto_build -O--buildsystem=cmake cd obj-x86_64-linux-gnu && make -j42 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/racon-1.5.0/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/racon-1.5.0 -B/build/reproducible-path/racon-1.5.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start 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make[3]: Entering directory '/build/reproducible-path/racon-1.5.0/obj-x86_64-linux-gnu' [ 10%] Building CXX object CMakeFiles/racon.dir/src/logger.cpp.o [ 20%] Building CXX object CMakeFiles/racon.dir/src/polisher.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 -fcf-protection -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 -fcf-protection -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 [ 50%] Building CXX object CMakeFiles/racon.dir/src/window.cpp.o [ 50%] Building CXX object CMakeFiles/racon.dir/src/sequence.cpp.o [ 50%] 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 -fcf-protection -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 /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 -fcf-protection -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 -fcf-protection -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 [ 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-x86_64-linux-gnu' [ 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-x86_64-linux-gnu' cd /build/reproducible-path/racon-1.5.0/obj-x86_64-linux-gnu && /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-x86_64-linux-gnu /build/reproducible-path/racon-1.5.0/obj-x86_64-linux-gnu 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'/build/reproducible-path/racon-1.5.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/racon-1.5.0/obj-x86_64-linux-gnu' [ 70%] Building CXX object CMakeFiles/racon_exe.dir/src/main.cpp.o [ 80%] Building CXX object CMakeFiles/racon_test.dir/test/racon_test.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 -fcf-protection -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 -fcf-protection -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 -fcf-protection -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-x86_64-linux-gnu' [ 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 -fcf-protection -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/x86_64-linux-gnu/libgtest_main.a /usr/lib/x86_64-linux-gnu/libgtest.a make[3]: Leaving directory '/build/reproducible-path/racon-1.5.0/obj-x86_64-linux-gnu' [100%] Built target racon_test make[2]: Leaving directory '/build/reproducible-path/racon-1.5.0/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/racon-1.5.0/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/racon-1.5.0/obj-x86_64-linux-gnu' 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 (8 ms) [ RUN ] RaconInitializeTest.WindowLengthError [ OK ] RaconInitializeTest.WindowLengthError (0 ms) [ RUN ] RaconInitializeTest.SequencesPathExtensionError [ OK ] RaconInitializeTest.SequencesPathExtensionError (1 ms) [ RUN ] RaconInitializeTest.OverlapsPathExtensionError [ OK ] RaconInitializeTest.OverlapsPathExtensionError (5 ms) [ RUN ] RaconInitializeTest.TargetPathExtensionError [ OK ] RaconInitializeTest.TargetPathExtensionError (4 ms) [----------] 5 tests from RaconInitializeTest (21 ms total) [----------] 10 tests from RaconPolishingTest [ RUN ] RaconPolishingTest.ConsensusWithQualities [racon::Polisher::initialize] loaded target sequences 0.000485 s [racon::Polisher::initialize] loaded sequences 0.031044 s [racon::Polisher::initialize] loaded overlaps 0.000349 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.020107 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.030967 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.042885 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.051151 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.061773 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.071468 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.097805 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.111818 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.121176 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.129375 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.140851 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.150778 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.161581 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.167014 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.174716 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.191036 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.197934 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.206978 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.219376 s [racon::Polisher::initialize] aligning overlaps [====================] 0.229631 s [racon::Polisher::initialize] transformed data into windows 0.001704 s [racon::Polisher::polish] generating consensus [=> ] 0.018602 s [racon::Polisher::polish] generating consensus [==> ] 0.033115 s [racon::Polisher::polish] generating consensus [===> ] 0.047159 s [racon::Polisher::polish] generating consensus [====> ] 0.059120 s [racon::Polisher::polish] generating consensus [=====> ] 0.066204 s [racon::Polisher::polish] generating consensus [======> ] 0.074200 s [racon::Polisher::polish] generating consensus [=======> ] 0.081708 s [racon::Polisher::polish] generating consensus [========> ] 0.090449 s [racon::Polisher::polish] generating consensus [=========> ] 0.101529 s [racon::Polisher::polish] generating consensus [==========> ] 0.113751 s [racon::Polisher::polish] generating consensus [===========> ] 0.133836 s [racon::Polisher::polish] generating consensus [============> ] 0.158464 s [racon::Polisher::polish] generating consensus [=============> ] 0.192338 s [racon::Polisher::polish] generating consensus [==============> ] 0.224486 s [racon::Polisher::polish] generating consensus [===============> ] 0.248439 s [racon::Polisher::polish] generating consensus [================> ] 0.266139 s [racon::Polisher::polish] generating consensus [=================> ] 0.291751 s [racon::Polisher::polish] generating consensus [==================> ] 0.305821 s [racon::Polisher::polish] generating consensus [===================>] 0.319987 s [racon::Polisher::polish] generating consensus [====================] 0.398463 s [racon::Polisher::] total = 0.674370 s [ OK ] RaconPolishingTest.ConsensusWithQualities (686 ms) [ RUN ] RaconPolishingTest.ConsensusWithoutQualities [racon::Polisher::initialize] loaded target sequences 0.000421 s [racon::Polisher::initialize] loaded sequences 0.012548 s [racon::Polisher::initialize] loaded overlaps 0.000275 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.016906 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.026020 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.037996 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.046259 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.056837 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.066429 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.089593 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.101153 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.110599 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.118885 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.130456 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.140397 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.151168 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.156788 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.164231 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.179097 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.184240 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.193062 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.205173 s [racon::Polisher::initialize] aligning overlaps [====================] 0.221182 s [racon::Polisher::initialize] transformed data into windows 0.000514 s [racon::Polisher::polish] generating consensus [=> ] 0.020917 s [racon::Polisher::polish] generating consensus [==> ] 0.039461 s [racon::Polisher::polish] generating consensus [===> ] 0.059521 s [racon::Polisher::polish] generating consensus [====> ] 0.075504 s [racon::Polisher::polish] generating consensus [=====> ] 0.085841 s [racon::Polisher::polish] generating consensus [======> ] 0.095540 s [racon::Polisher::polish] generating consensus [=======> ] 0.107752 s [racon::Polisher::polish] generating consensus [========> ] 0.118890 s [racon::Polisher::polish] generating consensus [=========> ] 0.131011 s [racon::Polisher::polish] generating consensus [==========> ] 0.149171 s [racon::Polisher::polish] generating consensus [===========> ] 0.175802 s [racon::Polisher::polish] generating consensus [============> ] 0.205532 s [racon::Polisher::polish] generating consensus [=============> ] 0.248153 s [racon::Polisher::polish] generating consensus [==============> ] 0.284164 s [racon::Polisher::polish] generating consensus [===============> ] 0.316364 s [racon::Polisher::polish] generating consensus [================> ] 0.347418 s [racon::Polisher::polish] generating consensus [=================> ] 0.379002 s [racon::Polisher::polish] generating consensus [==================> ] 0.396612 s [racon::Polisher::polish] generating consensus [===================>] 0.417293 s [racon::Polisher::polish] generating consensus [====================] 0.540701 s [racon::Polisher::] total = 0.786452 s [ OK ] RaconPolishingTest.ConsensusWithoutQualities (797 ms) [ RUN ] RaconPolishingTest.ConsensusWithQualitiesAndAlignments [racon::Polisher::initialize] loaded target sequences 0.000397 s [racon::Polisher::initialize] loaded sequences 0.029465 s [racon::Polisher::initialize] loaded overlaps 0.017401 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.002424 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.002526 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.002640 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.002763 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.002832 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.002912 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.003033 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.003228 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.003292 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.003353 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.003468 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.003662 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.003745 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.003865 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.003995 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.004161 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.004224 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.004281 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.004358 s [racon::Polisher::initialize] aligning overlaps [====================] 0.004427 s [racon::Polisher::initialize] transformed data into windows 0.001572 s [racon::Polisher::polish] generating consensus [=> ] 0.018874 s [racon::Polisher::polish] generating consensus [==> ] 0.045966 s [racon::Polisher::polish] generating consensus [===> ] 0.063900 s [racon::Polisher::polish] generating consensus [====> ] 0.074275 s [racon::Polisher::polish] generating consensus [=====> ] 0.082972 s [racon::Polisher::polish] generating consensus [======> ] 0.090360 s [racon::Polisher::polish] generating consensus [=======> ] 0.098256 s [racon::Polisher::polish] generating consensus [========> ] 0.106772 s [racon::Polisher::polish] generating consensus [=========> ] 0.116462 s [racon::Polisher::polish] generating consensus [==========> ] 0.127995 s [racon::Polisher::polish] generating consensus [===========> ] 0.146807 s [racon::Polisher::polish] generating consensus [============> ] 0.171483 s [racon::Polisher::polish] generating consensus [=============> ] 0.204243 s [racon::Polisher::polish] generating consensus [==============> ] 0.236412 s [racon::Polisher::polish] generating consensus [===============> ] 0.259833 s [racon::Polisher::polish] generating consensus [================> ] 0.276964 s [racon::Polisher::polish] generating consensus [=================> ] 0.300841 s [racon::Polisher::polish] generating consensus [==================> ] 0.315063 s [racon::Polisher::polish] generating consensus [===================>] 0.327121 s [racon::Polisher::polish] generating consensus [====================] 0.388149 s [racon::Polisher::] total = 0.453509 s [ OK ] RaconPolishingTest.ConsensusWithQualitiesAndAlignments (462 ms) [ RUN ] RaconPolishingTest.ConsensusWithoutQualitiesAndWithAlignments [racon::Polisher::initialize] loaded target sequences 0.000398 s [racon::Polisher::initialize] loaded sequences 0.012329 s [racon::Polisher::initialize] loaded overlaps 0.017033 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.001913 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.002019 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.002122 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.002252 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.002345 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.002438 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.002508 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.002655 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.002724 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.002821 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.002924 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.003084 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.003223 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.003286 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.003413 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.003579 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.003635 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.003650 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.003742 s [racon::Polisher::initialize] aligning overlaps [====================] 0.003852 s [racon::Polisher::initialize] transformed data into windows 0.000421 s [racon::Polisher::polish] generating consensus [=> ] 0.018772 s [racon::Polisher::polish] generating consensus [==> ] 0.052919 s [racon::Polisher::polish] generating consensus [===> ] 0.071606 s [racon::Polisher::polish] generating consensus [====> ] 0.086058 s [racon::Polisher::polish] generating consensus [=====> ] 0.095917 s [racon::Polisher::polish] generating consensus [======> ] 0.105381 s [racon::Polisher::polish] generating consensus [=======> ] 0.115870 s [racon::Polisher::polish] generating consensus [========> ] 0.127641 s [racon::Polisher::polish] generating consensus [=========> ] 0.139452 s [racon::Polisher::polish] generating consensus [==========> ] 0.157324 s [racon::Polisher::polish] generating consensus [===========> ] 0.179229 s [racon::Polisher::polish] generating consensus [============> ] 0.206914 s [racon::Polisher::polish] generating consensus [=============> ] 0.242948 s [racon::Polisher::polish] generating consensus [==============> ] 0.278422 s [racon::Polisher::polish] generating consensus [===============> ] 0.311960 s [racon::Polisher::polish] generating consensus [================> ] 0.340674 s [racon::Polisher::polish] generating consensus [=================> ] 0.369386 s [racon::Polisher::polish] generating consensus [==================> ] 0.387381 s [racon::Polisher::polish] generating consensus [===================>] 0.404831 s [racon::Polisher::polish] generating consensus [====================] 0.489765 s [racon::Polisher::] total = 0.531502 s [ OK ] RaconPolishingTest.ConsensusWithoutQualitiesAndWithAlignments (534 ms) [ RUN ] RaconPolishingTest.ConsensusWithQualitiesLargerWindow [racon::Polisher::initialize] loaded target sequences 0.000429 s [racon::Polisher::initialize] loaded sequences 0.029352 s [racon::Polisher::initialize] loaded overlaps 0.000308 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.017335 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.026033 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.037791 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.046064 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.056661 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.066249 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.089377 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.100781 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.110063 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.118243 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.129639 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.139529 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.150291 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.155725 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.163010 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.179166 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.184630 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.193484 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.205521 s [racon::Polisher::initialize] aligning overlaps [====================] 0.220194 s [racon::Polisher::initialize] transformed data into windows 0.001509 s [racon::Polisher::polish] generating consensus [=> ] 0.058932 s [racon::Polisher::polish] generating consensus [==> ] 0.058952 s [racon::Polisher::polish] generating consensus [===> ] 0.156310 s [racon::Polisher::polish] generating consensus [====> ] 0.156342 s [racon::Polisher::polish] generating consensus [=====> ] 0.182345 s [racon::Polisher::polish] generating consensus [======> ] 0.182364 s [racon::Polisher::polish] generating consensus [=======> ] 0.204813 s [racon::Polisher::polish] generating consensus [========> ] 0.204846 s [racon::Polisher::polish] generating consensus [=========> ] 0.239740 s [racon::Polisher::polish] generating consensus [==========> ] 0.239760 s [racon::Polisher::polish] generating consensus [===========> ] 0.303246 s [racon::Polisher::polish] generating consensus [============> ] 0.303265 s [racon::Polisher::polish] generating consensus [=============> ] 0.425049 s [racon::Polisher::polish] generating consensus [==============> ] 0.425080 s [racon::Polisher::polish] generating consensus [===============> ] 0.497411 s [racon::Polisher::polish] generating consensus [================> ] 0.497526 s [racon::Polisher::polish] generating consensus [=================> ] 0.559749 s [racon::Polisher::polish] generating consensus [==================> ] 0.559766 s [racon::Polisher::polish] generating consensus [===================>] 0.615219 s [racon::Polisher::polish] generating consensus [====================] 0.671855 s [racon::Polisher::] total = 0.935057 s [ OK ] RaconPolishingTest.ConsensusWithQualitiesLargerWindow (964 ms) [ RUN ] RaconPolishingTest.ConsensusWithQualitiesEditDistance [racon::Polisher::initialize] loaded target sequences 0.000392 s [racon::Polisher::initialize] loaded sequences 0.029365 s [racon::Polisher::initialize] loaded overlaps 0.000293 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.017310 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.026017 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.037881 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.046169 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.056793 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.066376 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.089613 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.101678 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.113069 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.121239 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.132732 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.144278 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.155070 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.160517 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.167865 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.178842 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.184343 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.193165 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.205325 s [racon::Polisher::initialize] aligning overlaps [====================] 0.220813 s [racon::Polisher::initialize] transformed data into windows 0.001652 s [racon::Polisher::polish] generating consensus [=> ] 0.017764 s [racon::Polisher::polish] generating consensus [==> ] 0.031863 s [racon::Polisher::polish] generating consensus [===> ] 0.044940 s [racon::Polisher::polish] generating consensus [====> ] 0.056608 s [racon::Polisher::polish] generating consensus [=====> ] 0.063156 s [racon::Polisher::polish] generating consensus [======> ] 0.070862 s [racon::Polisher::polish] generating consensus [=======> ] 0.078275 s [racon::Polisher::polish] generating consensus [========> ] 0.086719 s [racon::Polisher::polish] generating consensus [=========> ] 0.097270 s [racon::Polisher::polish] generating consensus [==========> ] 0.108808 s [racon::Polisher::polish] generating consensus [===========> ] 0.128419 s [racon::Polisher::polish] generating consensus [============> ] 0.152770 s [racon::Polisher::polish] generating consensus [=============> ] 0.184998 s [racon::Polisher::polish] generating consensus [==============> ] 0.215634 s [racon::Polisher::polish] generating consensus [===============> ] 0.238841 s [racon::Polisher::polish] generating consensus [================> ] 0.254814 s [racon::Polisher::polish] generating consensus [=================> ] 0.277591 s [racon::Polisher::polish] generating consensus [==================> ] 0.291281 s [racon::Polisher::polish] generating consensus [===================>] 0.305371 s [racon::Polisher::polish] generating consensus [====================] 0.378492 s [racon::Polisher::] total = 0.640742 s [ OK ] RaconPolishingTest.ConsensusWithQualitiesEditDistance (644 ms) [ RUN ] RaconPolishingTest.FragmentCorrectionWithQualities [racon::Polisher::initialize] loaded target sequences 0.029371 s [racon::Polisher::initialize] loaded sequences 0.029226 s [racon::Polisher::initialize] loaded overlaps 0.007775 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.018814 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.033335 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.038763 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.048553 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.057276 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.067341 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.083000 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.092391 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.106741 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.118428 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.131191 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.150931 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.164589 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.180532 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.190940 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.207919 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.218334 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.223088 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.235587 s [racon::Polisher::initialize] aligning overlaps [====================] 0.249192 s [racon::Polisher::initialize] transformed data into windows 0.002945 s [racon::Polisher::polish] generating consensus [=> ] 0.015932 s [racon::Polisher::polish] generating consensus [==> ] 0.033501 s [racon::Polisher::polish] generating consensus [===> ] 0.050506 s [racon::Polisher::polish] generating consensus [====> ] 0.050800 s [racon::Polisher::polish] generating consensus [=====> ] 0.061259 s [racon::Polisher::polish] generating consensus [======> ] 0.067721 s [racon::Polisher::polish] generating consensus [=======> ] 0.078295 s [racon::Polisher::polish] generating consensus [========> ] 0.080970 s [racon::Polisher::polish] generating consensus [=========> ] 0.100664 s [racon::Polisher::polish] generating consensus [==========> ] 0.110164 s [racon::Polisher::polish] generating consensus [===========> ] 0.118307 s [racon::Polisher::polish] generating consensus [============> ] 0.121541 s [racon::Polisher::polish] generating consensus [=============> ] 0.131074 s [racon::Polisher::polish] generating consensus [==============> ] 0.131352 s [racon::Polisher::polish] generating consensus [===============> ] 0.152998 s [racon::Polisher::polish] generating consensus [================> ] 0.153304 s [racon::Polisher::polish] generating consensus [=================> ] 0.191908 s [racon::Polisher::polish] generating consensus [==================> ] 0.206121 s [racon::Polisher::polish] generating consensus [===================>] 0.219964 s [racon::Polisher::polish] generating consensus [====================] 0.223154 s [racon::Polisher::] total = 0.542083 s [ OK ] RaconPolishingTest.FragmentCorrectionWithQualities (545 ms) [ RUN ] RaconPolishingTest.FragmentCorrectionWithQualitiesFull [racon::Polisher::initialize] loaded target sequences 0.029266 s [racon::Polisher::initialize] loaded sequences 0.029387 s [racon::Polisher::initialize] loaded overlaps 0.007608 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.280500 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.465458 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.636122 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.881386 s [racon::Polisher::initialize] aligning overlaps [=====> ] 1.095285 s [racon::Polisher::initialize] aligning overlaps [======> ] 1.245555 s [racon::Polisher::initialize] aligning overlaps [=======> ] 1.448383 s [racon::Polisher::initialize] aligning overlaps [========> ] 1.708383 s [racon::Polisher::initialize] aligning overlaps [=========> ] 1.948649 s [racon::Polisher::initialize] aligning overlaps [==========> ] 2.190025 s [racon::Polisher::initialize] aligning overlaps [===========> ] 2.376712 s [racon::Polisher::initialize] aligning overlaps [============> ] 2.640847 s [racon::Polisher::initialize] aligning overlaps [=============> ] 2.908008 s [racon::Polisher::initialize] aligning overlaps [==============> ] 3.155625 s [racon::Polisher::initialize] aligning overlaps [===============> ] 3.452525 s [racon::Polisher::initialize] aligning overlaps [================> ] 3.728962 s [racon::Polisher::initialize] aligning overlaps [=================> ] 3.961043 s [racon::Polisher::initialize] aligning overlaps [==================> ] 4.255764 s [racon::Polisher::initialize] aligning overlaps [===================>] 4.601286 s [racon::Polisher::initialize] aligning overlaps [====================] 4.860268 s [racon::Polisher::initialize] transformed data into windows 0.043149 s [racon::Polisher::polish] generating consensus [=> ] 0.807195 s [racon::Polisher::polish] generating consensus [==> ] 1.342686 s [racon::Polisher::polish] generating consensus [===> ] 1.934545 s [racon::Polisher::polish] generating consensus [====> ] 2.386490 s [racon::Polisher::polish] generating consensus [=====> ] 2.892103 s [racon::Polisher::polish] generating consensus [======> ] 3.475907 s [racon::Polisher::polish] generating consensus [=======> ] 4.060546 s [racon::Polisher::polish] generating consensus [========> ] 4.490405 s [racon::Polisher::polish] generating consensus [=========> ] 5.047100 s [racon::Polisher::polish] generating consensus [==========> ] 5.704310 s [racon::Polisher::polish] generating consensus [===========> ] 6.258666 s [racon::Polisher::polish] generating consensus [============> ] 6.842167 s [racon::Polisher::polish] generating consensus [=============> ] 7.347029 s [racon::Polisher::polish] generating consensus [==============> ] 7.895709 s [racon::Polisher::polish] generating consensus [===============> ] 8.485136 s [racon::Polisher::polish] generating consensus [================> ] 8.806394 s [racon::Polisher::polish] generating consensus [=================> ] 9.464088 s [racon::Polisher::polish] generating consensus [==================> ] 10.081349 s [racon::Polisher::polish] generating consensus [===================>] 10.675191 s [racon::Polisher::polish] generating consensus [====================] 11.058716 s [racon::Polisher::] total = 16.030940 s [ OK ] RaconPolishingTest.FragmentCorrectionWithQualitiesFull (16034 ms) [ RUN ] RaconPolishingTest.FragmentCorrectionWithoutQualitiesFull [racon::Polisher::initialize] loaded target sequences 0.012375 s [racon::Polisher::initialize] loaded sequences 0.012414 s [racon::Polisher::initialize] loaded overlaps 0.007623 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.283243 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.469110 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.640750 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.884214 s [racon::Polisher::initialize] aligning overlaps [=====> ] 1.099155 s [racon::Polisher::initialize] aligning overlaps [======> ] 1.250715 s [racon::Polisher::initialize] aligning overlaps [=======> ] 1.454458 s [racon::Polisher::initialize] aligning overlaps [========> ] 1.718167 s [racon::Polisher::initialize] aligning overlaps [=========> ] 1.958672 s [racon::Polisher::initialize] aligning overlaps [==========> ] 2.199912 s [racon::Polisher::initialize] aligning overlaps [===========> ] 2.386110 s [racon::Polisher::initialize] aligning overlaps [============> ] 2.649835 s [racon::Polisher::initialize] aligning overlaps [=============> ] 2.916657 s [racon::Polisher::initialize] aligning overlaps [==============> ] 3.148135 s [racon::Polisher::initialize] aligning overlaps [===============> ] 3.448513 s [racon::Polisher::initialize] aligning overlaps [================> ] 3.739204 s [racon::Polisher::initialize] aligning overlaps [=================> ] 3.976910 s [racon::Polisher::initialize] aligning overlaps [==================> ] 4.292864 s [racon::Polisher::initialize] aligning overlaps [===================>] 4.613354 s [racon::Polisher::initialize] aligning overlaps [====================] 4.831655 s [racon::Polisher::initialize] transformed data into windows 0.011666 s [racon::Polisher::polish] generating consensus [=> ] 0.988448 s [racon::Polisher::polish] generating consensus [==> ] 1.739652 s [racon::Polisher::polish] generating consensus [===> ] 2.474281 s [racon::Polisher::polish] generating consensus [====> ] 3.026847 s [racon::Polisher::polish] generating consensus [=====> ] 3.715517 s [racon::Polisher::polish] generating consensus [======> ] 4.466252 s [racon::Polisher::polish] generating consensus [=======> ] 5.263196 s [racon::Polisher::polish] generating consensus [========> ] 5.840021 s [racon::Polisher::polish] generating consensus [=========> ] 6.598689 s [racon::Polisher::polish] generating consensus [==========> ] 7.475718 s [racon::Polisher::polish] generating consensus [===========> ] 8.216887 s [racon::Polisher::polish] generating consensus [============> ] 9.013140 s [racon::Polisher::polish] generating consensus [=============> ] 9.741152 s [racon::Polisher::polish] generating consensus [==============> ] 10.485518 s [racon::Polisher::polish] generating consensus [===============> ] 11.236326 s [racon::Polisher::polish] generating consensus [================> ] 11.638624 s [racon::Polisher::polish] generating consensus [=================> ] 12.602113 s [racon::Polisher::polish] generating consensus [==================> ] 13.495481 s [racon::Polisher::polish] generating consensus [===================>] 14.304667 s [racon::Polisher::polish] generating consensus [====================] 14.835262 s [racon::Polisher::] total = 19.712468 s [ OK ] RaconPolishingTest.FragmentCorrectionWithoutQualitiesFull (19715 ms) [ RUN ] RaconPolishingTest.FragmentCorrectionWithQualitiesFullMhap [racon::Polisher::initialize] loaded target sequences 0.029415 s [racon::Polisher::initialize] loaded sequences 0.029233 s [racon::Polisher::initialize] loaded overlaps 0.007229 s [racon::Polisher::initialize] aligning overlaps [=> ] 0.280387 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.464043 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.636499 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.881840 s [racon::Polisher::initialize] aligning overlaps [=====> ] 1.095502 s [racon::Polisher::initialize] aligning overlaps [======> ] 1.245733 s [racon::Polisher::initialize] aligning overlaps [=======> ] 1.448461 s [racon::Polisher::initialize] aligning overlaps [========> ] 1.708389 s [racon::Polisher::initialize] aligning overlaps [=========> ] 1.949789 s [racon::Polisher::initialize] aligning overlaps [==========> ] 2.190782 s [racon::Polisher::initialize] aligning overlaps [===========> ] 2.376665 s [racon::Polisher::initialize] aligning overlaps [============> ] 2.640224 s [racon::Polisher::initialize] aligning overlaps [=============> ] 2.906830 s [racon::Polisher::initialize] aligning overlaps [==============> ] 3.135001 s [racon::Polisher::initialize] aligning overlaps [===============> ] 3.432426 s [racon::Polisher::initialize] aligning overlaps [================> ] 3.710811 s [racon::Polisher::initialize] aligning overlaps [=================> ] 3.954747 s [racon::Polisher::initialize] aligning overlaps [==================> ] 4.232712 s [racon::Polisher::initialize] aligning overlaps [===================>] 4.533235 s [racon::Polisher::initialize] aligning overlaps [====================] 4.768172 s [racon::Polisher::initialize] transformed data into windows 0.044294 s [racon::Polisher::polish] generating consensus [=> ] 0.697349 s [racon::Polisher::polish] generating consensus [==> ] 1.219224 s [racon::Polisher::polish] generating consensus [===> ] 1.767484 s [racon::Polisher::polish] generating consensus [====> ] 2.218470 s [racon::Polisher::polish] generating consensus [=====> ] 2.723131 s [racon::Polisher::polish] generating consensus [======> ] 3.304468 s [racon::Polisher::polish] generating consensus [=======> ] 3.888146 s [racon::Polisher::polish] generating consensus [========> ] 4.315349 s [racon::Polisher::polish] generating consensus [=========> ] 4.867575 s [racon::Polisher::polish] generating consensus [==========> ] 5.511262 s [racon::Polisher::polish] generating consensus [===========> ] 6.060635 s [racon::Polisher::polish] generating consensus [============> ] 6.637572 s [racon::Polisher::polish] generating consensus [=============> ] 7.136257 s [racon::Polisher::polish] generating consensus [==============> ] 7.679227 s [racon::Polisher::polish] generating consensus [===============> ] 8.265226 s [racon::Polisher::polish] generating consensus [================> ] 8.584020 s [racon::Polisher::polish] generating consensus [=================> ] 9.237137 s [racon::Polisher::polish] generating consensus [==================> ] 9.850480 s [racon::Polisher::polish] generating consensus [===================>] 10.440710 s [racon::Polisher::polish] generating consensus [====================] 10.885701 s [racon::Polisher::] total = 15.765685 s [ OK ] RaconPolishingTest.FragmentCorrectionWithQualitiesFullMhap (15768 ms) [----------] 10 tests from RaconPolishingTest (56154 ms total) [----------] Global test environment tear-down [==========] 15 tests from 2 test suites ran. (56175 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-x86_64-linux-gnu && make -j42 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-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/racon-1.5.0 -B/build/reproducible-path/racon-1.5.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/reproducible-path/racon-1.5.0/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/reproducible-path/racon-1.5.0/obj-x86_64-linux-gnu' 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-x86_64-linux-gnu' dh_install -O--buildsystem=cmake dh_installdocs -O--buildsystem=cmake dh_installchangelogs -O--buildsystem=cmake dh_installexamples -O--buildsystem=cmake dh_installman -O--buildsystem=cmake dh_installsystemduser -O--buildsystem=cmake dh_lintian -O--buildsystem=cmake dh_perl -O--buildsystem=cmake dh_link -O--buildsystem=cmake dh_strip_nondeterminism -O--buildsystem=cmake dh_compress -O--buildsystem=cmake dh_fixperms -O--buildsystem=cmake dh_missing -O--buildsystem=cmake dh_dwz -a -O--buildsystem=cmake dh_strip -a -O--buildsystem=cmake dh_makeshlibs -a -O--buildsystem=cmake dh_shlibdeps -a -O--buildsystem=cmake dh_installdeb -O--buildsystem=cmake dh_gencontrol -O--buildsystem=cmake dh_md5sums -O--buildsystem=cmake dh_builddeb -O--buildsystem=cmake dpkg-deb: building package 'racon' in '../racon_1.5.0-3_amd64.deb'. dpkg-deb: building package 'racon-dbgsym' in '../racon-dbgsym_1.5.0-3_amd64.deb'. dpkg-genbuildinfo --build=binary -O../racon_1.5.0-3_amd64.buildinfo dpkg-genchanges --build=binary -O../racon_1.5.0-3_amd64.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/4190141 and its subdirectories I: Current time: Wed May 28 06:47:54 -12 2025 I: pbuilder-time-stamp: 1748458074 Thu Apr 25 12:24:55 UTC 2024 I: 1st build successful. Starting 2nd build on remote node ionos1-amd64.debian.net. Thu Apr 25 12:24:55 UTC 2024 I: Preparing to do remote build '2' on ionos1-amd64.debian.net. Thu Apr 25 12:54:32 UTC 2024 I: Deleting $TMPDIR on ionos1-amd64.debian.net. Thu Apr 25 12:54:33 UTC 2024 I: racon_1.5.0-3_amd64.changes: Format: 1.8 Date: Thu, 29 Sep 2022 14:39:55 +0200 Source: racon Binary: racon racon-dbgsym Architecture: amd64 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: bd5f4096cabc958c4f74f742eeb057fb5f6346c0 1006080 racon-dbgsym_1.5.0-3_amd64.deb b5466ec478bf8ef7c68db1b137be2d27e707016a 6449 racon_1.5.0-3_amd64.buildinfo 26fdfe7dfafa1019a9afec568d1a120827b73fba 3115464 racon_1.5.0-3_amd64.deb Checksums-Sha256: f97357c5eb7921cd749de17e5bbf69ce03978b3b158ff1cffffee1f561c1632d 1006080 racon-dbgsym_1.5.0-3_amd64.deb 29b379b5db4800a2f28c67d0d0f029459f0b895d1aea973c18fdee341cf7b436 6449 racon_1.5.0-3_amd64.buildinfo 09fe18ed6b8ffc969d75fe89a95f27711a9c8a19712401e4d46a8c9ad263fffb 3115464 racon_1.5.0-3_amd64.deb Files: 539428a3e639fd6dae3783950d9b9852 1006080 debug optional racon-dbgsym_1.5.0-3_amd64.deb 47863d193d123cd17652de4dca87002d 6449 science optional racon_1.5.0-3_amd64.buildinfo 783cc99852ca8f7f894c2542882e99e8 3115464 science optional racon_1.5.0-3_amd64.deb Thu Apr 25 12:54:34 UTC 2024 I: diffoscope 265 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_20-17724.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.XrTqBlLh/racon_1.5.0-3.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.XrTqBlLh/racon_1.5.0-3.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.XrTqBlLh/racon_1.5.0-3.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.XrTqBlLh/b1/racon_1.5.0-3_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.XrTqBlLh/b2/racon_1.5.0-3_amd64.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: 0.376s) 0.376s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.065s) 0.065s 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: 685ms CPU time consumed: 685ms Thu Apr 25 12:54:35 UTC 2024 I: diffoscope 265 found no differences in the changes files, and a .buildinfo file also exists. Thu Apr 25 12:54:35 UTC 2024 I: racon from trixie built successfully and reproducibly on amd64. Thu Apr 25 12:54:37 UTC 2024 I: Submitting .buildinfo files to external archives: Thu Apr 25 12:54:37 UTC 2024 I: Submitting 8.0K b1/racon_1.5.0-3_amd64.buildinfo.asc Thu Apr 25 12:54:42 UTC 2024 I: Submitting 8.0K b2/racon_1.5.0-3_amd64.buildinfo.asc Thu Apr 25 12:54:46 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Thu Apr 25 12:54:46 UTC 2024 I: Done submitting .buildinfo files. Thu Apr 25 12:54:46 UTC 2024 I: Removing signed racon_1.5.0-3_amd64.buildinfo.asc files: removed './b1/racon_1.5.0-3_amd64.buildinfo.asc' removed './b2/racon_1.5.0-3_amd64.buildinfo.asc'