Diff of the two buildlogs: -- --- b1/build.log 2025-03-13 20:36:35.135895218 +0000 +++ b2/build.log 2025-03-13 20:39:18.832542974 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Thu Mar 13 08:34:22 -12 2025 -I: pbuilder-time-stamp: 1741898062 +I: Current time: Thu Apr 16 16:59:37 +14 2026 +I: pbuilder-time-stamp: 1776308377 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -26,52 +26,84 @@ dpkg-source: info: applying py3 I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/230454/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/1520015/tmp/hooks/D01_modify_environment starting +debug: Running on codethink03-arm64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Apr 16 02:59 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/1520015/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/1520015/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='arm64' - DEBIAN_FRONTEND='noninteractive' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="37" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.2.37(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=arm64 + DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='baa517ba93b74a0aa84665100947678c' - 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='230454' - PS1='# ' - PS2='> ' + INVOCATION_ID=ddac21f6300e4377845414896bd1f69c + LANG=C + LANGUAGE=nl_BE:nl + LC_ALL=C + MACHTYPE=aarch64-unknown-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=1520015 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.oK3qdURV/pbuilderrc_MgVe --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.oK3qdURV/b1 --logfile b1/build.log racon_1.5.0-3.dsc' - SUDO_GID='109' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://192.168.101.4:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.oK3qdURV/pbuilderrc_fwka --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.oK3qdURV/b2 --logfile b2/build.log racon_1.5.0-3.dsc' + SUDO_GID=109 + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://192.168.101.4:3128 I: uname -a - Linux codethink04-arm64 6.1.0-31-cloud-arm64 #1 SMP Debian 6.1.128-1 (2025-02-07) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-31-cloud-arm64 #1 SMP Debian 6.1.128-1 (2025-02-07) aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Mar 4 11:20 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/230454/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Mar 4 2025 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/1520015/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -196,7 +228,7 @@ Get: 71 http://deb.debian.org/debian trixie/main arm64 libspoa-dev arm64 4.1.4-2+b1 [9788 B] Get: 72 http://deb.debian.org/debian trixie/main arm64 libthread-pool-dev arm64 4.0.0-2 [7304 B] Get: 73 http://deb.debian.org/debian trixie/main arm64 rampler arm64 2.1.1-1+b1 [21.2 kB] -Fetched 40.1 MB in 0s (91.6 MB/s) +Fetched 40.1 MB in 0s (149 MB/s) Preconfiguring packages ... Selecting previously unselected package libproc2-0:arm64. (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 ... 19916 files and directories currently installed.) @@ -503,7 +535,11 @@ 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 +I: user script /srv/workspace/pbuilder/1520015/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/1520015/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/racon-1.5.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../racon_1.5.0-3_source.changes dpkg-buildpackage: info: source package racon dpkg-buildpackage: info: source version 1.5.0-3 dpkg-buildpackage: info: source distribution unstable @@ -529,7 +565,7 @@ -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done --- Configuring done (1.4s) +-- Configuring done (0.9s) -- Generating done (0.0s) CMake Warning: Manually-specified variables were not used by the project: @@ -556,15 +592,15 @@ make[3]: Leaving directory '/build/reproducible-path/racon-1.5.0/obj-aarch64-linux-gnu' make -f CMakeFiles/racon.dir/build.make CMakeFiles/racon.dir/build make[3]: Entering directory '/build/reproducible-path/racon-1.5.0/obj-aarch64-linux-gnu' -[ 10%] Building CXX object CMakeFiles/racon.dir/src/logger.cpp.o +[ 20%] 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 -mbranch-protection=standard -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 [ 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 -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -std=c++11 -pthread -MD -MT CMakeFiles/racon.dir/src/polisher.cpp.o -MF CMakeFiles/racon.dir/src/polisher.cpp.o.d -o CMakeFiles/racon.dir/src/polisher.cpp.o -c /build/reproducible-path/racon-1.5.0/src/polisher.cpp [ 40%] Building CXX object CMakeFiles/racon.dir/src/sequence.cpp.o +[ 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 -mbranch-protection=standard -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 -mbranch-protection=standard -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 -mbranch-protection=standard -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 -mbranch-protection=standard -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 -mbranch-protection=standard -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 @@ -574,21 +610,21 @@ make[3]: Leaving directory '/build/reproducible-path/racon-1.5.0/obj-aarch64-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-aarch64-linux-gnu' cd /build/reproducible-path/racon-1.5.0/obj-aarch64-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-aarch64-linux-gnu /build/reproducible-path/racon-1.5.0/obj-aarch64-linux-gnu /build/reproducible-path/racon-1.5.0/obj-aarch64-linux-gnu/CMakeFiles/racon_exe.dir/DependInfo.cmake "--color=" -make -f CMakeFiles/racon_test.dir/build.make CMakeFiles/racon_test.dir/depend -make[3]: Leaving directory '/build/reproducible-path/racon-1.5.0/obj-aarch64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/racon-1.5.0/obj-aarch64-linux-gnu' cd /build/reproducible-path/racon-1.5.0/obj-aarch64-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-aarch64-linux-gnu /build/reproducible-path/racon-1.5.0/obj-aarch64-linux-gnu /build/reproducible-path/racon-1.5.0/obj-aarch64-linux-gnu/CMakeFiles/racon_test.dir/DependInfo.cmake "--color=" -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-aarch64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/racon-1.5.0/obj-aarch64-linux-gnu' make -f CMakeFiles/racon_test.dir/build.make CMakeFiles/racon_test.dir/build -[ 70%] Building CXX object CMakeFiles/racon_exe.dir/src/main.cpp.o -/usr/bin/c++ -DVERSION=\"1.5.0\" -I/build/reproducible-path/racon-1.5.0/src -g -O2 -ffile-prefix-map=/build/reproducible-path/racon-1.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -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 make[3]: Entering directory '/build/reproducible-path/racon-1.5.0/obj-aarch64-linux-gnu' -[ 80%] Building CXX object CMakeFiles/racon_test.dir/test/racon_test.cpp.o +make[3]: Leaving directory '/build/reproducible-path/racon-1.5.0/obj-aarch64-linux-gnu' +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-aarch64-linux-gnu' +[ 70%] Building CXX object CMakeFiles/racon_test.dir/test/racon_test.cpp.o /usr/bin/c++ -DTEST_DATA=\"/build/reproducible-path/racon-1.5.0/test/data/\" -I/build/reproducible-path/racon-1.5.0/src -g -O2 -ffile-prefix-map=/build/reproducible-path/racon-1.5.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -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 +[ 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 -mbranch-protection=standard -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 [ 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 -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/racon_exe.dir/link.d CMakeFiles/racon_exe.dir/src/main.cpp.o -o bin/racon lib/libracon.a -ledlib -lspoa -lpthread -lz @@ -610,112 +646,112 @@ [----------] Global test environment set-up. [----------] 5 tests from RaconInitializeTest [ RUN ] RaconInitializeTest.PolisherTypeError -[ OK ] RaconInitializeTest.PolisherTypeError (13 ms) +[ OK ] RaconInitializeTest.PolisherTypeError (2 ms) [ RUN ] RaconInitializeTest.WindowLengthError -[ OK ] RaconInitializeTest.WindowLengthError (15 ms) +[ OK ] RaconInitializeTest.WindowLengthError (1 ms) [ RUN ] RaconInitializeTest.SequencesPathExtensionError -[ OK ] RaconInitializeTest.SequencesPathExtensionError (16 ms) +[ OK ] RaconInitializeTest.SequencesPathExtensionError (1 ms) [ RUN ] RaconInitializeTest.OverlapsPathExtensionError -[ OK ] RaconInitializeTest.OverlapsPathExtensionError (15 ms) +[ OK ] RaconInitializeTest.OverlapsPathExtensionError (4 ms) [ RUN ] RaconInitializeTest.TargetPathExtensionError -[ OK ] RaconInitializeTest.TargetPathExtensionError (15 ms) -[----------] 5 tests from RaconInitializeTest (77 ms total) +[ OK ] RaconInitializeTest.TargetPathExtensionError (3 ms) +[----------] 5 tests from RaconInitializeTest (13 ms total) [----------] 10 tests from RaconPolishingTest [ RUN ] RaconPolishingTest.ConsensusWithQualities -[racon::Polisher::initialize] loaded target sequences 0.006957 s -[racon::Polisher::initialize] loaded sequences 0.051797 s -[racon::Polisher::initialize] loaded overlaps 0.000287 s -[racon::Polisher::initialize] aligning overlaps [=> ] 0.115746 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.143749 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.163741 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.179740 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.195745 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.211760 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.251751 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.275749 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.291750 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.307747 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.323749 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.347743 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.363737 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.371741 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.387742 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.411737 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.419749 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.435750 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.459749 s [racon::Polisher::initialize] aligning overlaps [====================] 0.475747 s -[racon::Polisher::initialize] transformed data into windows 0.001466 s -[racon::Polisher::polish] generating consensus [=> ] 0.054390 s [racon::Polisher::polish] generating consensus [==> ] 0.102384 s [racon::Polisher::polish] generating consensus [===> ] 0.142381 s [racon::Polisher::polish] generating consensus [====> ] 0.166400 s [racon::Polisher::polish] generating consensus [=====> ] 0.190375 s [racon::Polisher::polish] generating consensus [======> ] 0.214562 s [racon::Polisher::polish] generating consensus [=======> ] 0.246561 s [racon::Polisher::polish] generating consensus [========> ] 0.258591 s [racon::Polisher::polish] generating consensus [=========> ] 0.290563 s [racon::Polisher::polish] generating consensus [==========> ] 0.322561 s [racon::Polisher::polish] generating consensus [===========> ] 0.382537 s [racon::Polisher::polish] generating consensus [============> ] 0.462565 s [racon::Polisher::polish] generating consensus [=============> ] 0.562566 s [racon::Polisher::polish] generating consensus [==============> ] 0.658287 s [racon::Polisher::polish] generating consensus [===============> ] 0.734549 s [racon::Polisher::polish] generating consensus [================> ] 0.770589 s [racon::Polisher::polish] generating consensus [=================> ] 0.806285 s [racon::Polisher::polish] generating consensus [==================> ] 0.843469 s [racon::Polisher::polish] generating consensus [===================>] 0.843805 s [racon::Polisher::polish] generating consensus [====================] 0.914909 s -[racon::Polisher::] total = 1.461723 s -[ OK ] RaconPolishingTest.ConsensusWithQualities (1468 ms) +[racon::Polisher::initialize] loaded target sequences 0.000585 s +[racon::Polisher::initialize] loaded sequences 0.032974 s +[racon::Polisher::initialize] loaded overlaps 0.000449 s +[racon::Polisher::initialize] aligning overlaps [=> ] 0.055361 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.069299 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.080271 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.092748 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.100501 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.105428 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.121511 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.141232 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.142566 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.150234 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.159042 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.174650 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.179066 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.189252 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.202446 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.219318 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.220762 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.226545 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.232461 s [racon::Polisher::initialize] aligning overlaps [====================] 0.239069 s +[racon::Polisher::initialize] transformed data into windows 0.001386 s +[racon::Polisher::polish] generating consensus [=> ] 0.028065 s [racon::Polisher::polish] generating consensus [==> ] 0.048818 s [racon::Polisher::polish] generating consensus [===> ] 0.068985 s [racon::Polisher::polish] generating consensus [====> ] 0.081336 s [racon::Polisher::polish] generating consensus [=====> ] 0.093204 s [racon::Polisher::polish] generating consensus [======> ] 0.103596 s [racon::Polisher::polish] generating consensus [=======> ] 0.112925 s [racon::Polisher::polish] generating consensus [========> ] 0.124033 s [racon::Polisher::polish] generating consensus [=========> ] 0.139358 s [racon::Polisher::polish] generating consensus [==========> ] 0.156412 s [racon::Polisher::polish] generating consensus [===========> ] 0.188720 s [racon::Polisher::polish] generating consensus [============> ] 0.255692 s [racon::Polisher::polish] generating consensus [=============> ] 0.302782 s [racon::Polisher::polish] generating consensus [==============> ] 0.348967 s [racon::Polisher::polish] generating consensus [===============> ] 0.382233 s [racon::Polisher::polish] generating consensus [================> ] 0.408358 s [racon::Polisher::polish] generating consensus [=================> ] 0.436321 s [racon::Polisher::polish] generating consensus [==================> ] 0.457427 s [racon::Polisher::polish] generating consensus [===================>] 0.480716 s [racon::Polisher::polish] generating consensus [====================] 0.548956 s +[racon::Polisher::] total = 0.834566 s +[ OK ] RaconPolishingTest.ConsensusWithQualities (841 ms) [ RUN ] RaconPolishingTest.ConsensusWithoutQualities -[racon::Polisher::initialize] loaded target sequences 0.000582 s -[racon::Polisher::initialize] loaded sequences 0.011412 s -[racon::Polisher::initialize] loaded overlaps 0.000342 s -[racon::Polisher::initialize] aligning overlaps [=> ] 0.054347 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.078395 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.102402 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.126398 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.142413 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.150405 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.178405 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.222405 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.222727 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.238411 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.254408 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.286401 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.294396 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.318402 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.334403 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.370408 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.378406 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.394395 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.418404 s [racon::Polisher::initialize] aligning overlaps [====================] 0.426727 s -[racon::Polisher::initialize] transformed data into windows 0.000350 s -[racon::Polisher::polish] generating consensus [=> ] 0.078990 s [racon::Polisher::polish] generating consensus [==> ] 0.143015 s [racon::Polisher::polish] generating consensus [===> ] 0.191093 s [racon::Polisher::polish] generating consensus [====> ] 0.227002 s [racon::Polisher::polish] generating consensus [=====> ] 0.254995 s [racon::Polisher::polish] generating consensus [======> ] 0.282983 s [racon::Polisher::polish] generating consensus [=======> ] 0.310985 s [racon::Polisher::polish] generating consensus [========> ] 0.342916 s [racon::Polisher::polish] generating consensus [=========> ] 0.387178 s [racon::Polisher::polish] generating consensus [==========> ] 0.451193 s [racon::Polisher::polish] generating consensus [===========> ] 0.523163 s [racon::Polisher::polish] generating consensus [============> ] 0.611170 s [racon::Polisher::polish] generating consensus [=============> ] 0.747188 s [racon::Polisher::polish] generating consensus [==============> ] 0.831159 s [racon::Polisher::polish] generating consensus [===============> ] 0.927171 s [racon::Polisher::polish] generating consensus [================> ] 1.007168 s [racon::Polisher::polish] generating consensus [=================> ] 1.007493 s [racon::Polisher::polish] generating consensus [==================> ] 1.019176 s [racon::Polisher::polish] generating consensus [===================>] 1.031164 s [racon::Polisher::polish] generating consensus [====================] 1.087429 s -[racon::Polisher::] total = 1.536371 s -[ OK ] RaconPolishingTest.ConsensusWithoutQualities (1541 ms) +[racon::Polisher::initialize] loaded target sequences 0.000362 s +[racon::Polisher::initialize] loaded sequences 0.011198 s +[racon::Polisher::initialize] loaded overlaps 0.000215 s +[racon::Polisher::initialize] aligning overlaps [=> ] 0.030722 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.035685 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.047730 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.060488 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.068644 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.070955 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.078545 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.089929 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.096799 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.104423 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.113656 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.122999 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.131583 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.137259 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.148778 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.168343 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.175064 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.188102 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.201900 s [racon::Polisher::initialize] aligning overlaps [====================] 0.202128 s +[racon::Polisher::initialize] transformed data into windows 0.000667 s +[racon::Polisher::polish] generating consensus [=> ] 0.030092 s [racon::Polisher::polish] generating consensus [==> ] 0.060665 s [racon::Polisher::polish] generating consensus [===> ] 0.082396 s [racon::Polisher::polish] generating consensus [====> ] 0.101430 s [racon::Polisher::polish] generating consensus [=====> ] 0.115848 s [racon::Polisher::polish] generating consensus [======> ] 0.130832 s [racon::Polisher::polish] generating consensus [=======> ] 0.146230 s [racon::Polisher::polish] generating consensus [========> ] 0.163566 s [racon::Polisher::polish] generating consensus [=========> ] 0.178387 s [racon::Polisher::polish] generating consensus [==========> ] 0.209152 s [racon::Polisher::polish] generating consensus [===========> ] 0.243558 s [racon::Polisher::polish] generating consensus [============> ] 0.285589 s [racon::Polisher::polish] generating consensus [=============> ] 0.345468 s [racon::Polisher::polish] generating consensus [==============> ] 0.388776 s [racon::Polisher::polish] generating consensus [===============> ] 0.434030 s [racon::Polisher::polish] generating consensus [================> ] 0.473465 s [racon::Polisher::polish] generating consensus [=================> ] 0.515567 s [racon::Polisher::polish] generating consensus [==================> ] 0.540606 s [racon::Polisher::polish] generating consensus [===================>] 0.571570 s [racon::Polisher::polish] generating consensus [====================] 0.741952 s +[racon::Polisher::] total = 0.965481 s +[ OK ] RaconPolishingTest.ConsensusWithoutQualities (972 ms) [ RUN ] RaconPolishingTest.ConsensusWithQualitiesAndAlignments -[racon::Polisher::initialize] loaded target sequences 0.000589 s -[racon::Polisher::initialize] loaded sequences 0.026532 s -[racon::Polisher::initialize] loaded overlaps 0.015895 s -[racon::Polisher::initialize] aligning overlaps [=> ] 0.009517 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.009865 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.010192 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.010518 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.010786 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.011316 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.011831 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.012077 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.012337 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.012588 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.012851 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.013099 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.013364 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.013614 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.013853 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.014090 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.014324 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.014562 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.014807 s [racon::Polisher::initialize] aligning overlaps [====================] 0.015046 s -[racon::Polisher::initialize] transformed data into windows 0.001515 s -[racon::Polisher::polish] generating consensus [=> ] 0.060474 s [racon::Polisher::polish] generating consensus [==> ] 0.108394 s [racon::Polisher::polish] generating consensus [===> ] 0.148385 s [racon::Polisher::polish] generating consensus [====> ] 0.184417 s [racon::Polisher::polish] generating consensus [=====> ] 0.200392 s [racon::Polisher::polish] generating consensus [======> ] 0.216395 s [racon::Polisher::polish] generating consensus [=======> ] 0.240396 s [racon::Polisher::polish] generating consensus [========> ] 0.264421 s [racon::Polisher::polish] generating consensus [=========> ] 0.292383 s [racon::Polisher::polish] generating consensus [==========> ] 0.332390 s [racon::Polisher::polish] generating consensus [===========> ] 0.360504 s [racon::Polisher::polish] generating consensus [============> ] 0.396388 s [racon::Polisher::polish] generating consensus [=============> ] 0.444392 s [racon::Polisher::polish] generating consensus [==============> ] 0.493479 s [racon::Polisher::polish] generating consensus [===============> ] 0.541031 s [racon::Polisher::polish] generating consensus [================> ] 0.569328 s [racon::Polisher::polish] generating consensus [=================> ] 0.588661 s [racon::Polisher::polish] generating consensus [==================> ] 0.589004 s [racon::Polisher::polish] generating consensus [===================>] 0.608673 s [racon::Polisher::polish] generating consensus [====================] 0.658060 s -[racon::Polisher::] total = 0.728358 s -[ OK ] RaconPolishingTest.ConsensusWithQualitiesAndAlignments (734 ms) +[racon::Polisher::initialize] loaded target sequences 0.000364 s +[racon::Polisher::initialize] loaded sequences 0.026154 s +[racon::Polisher::initialize] loaded overlaps 0.015474 s +[racon::Polisher::initialize] aligning overlaps [=> ] 0.002630 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.002787 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.002938 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.003070 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.003096 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.003153 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.003232 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.003257 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.003346 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.003438 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.003584 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.003713 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.003837 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.003903 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.004009 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.004115 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.004145 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.004265 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.004354 s [racon::Polisher::initialize] aligning overlaps [====================] 0.004386 s +[racon::Polisher::initialize] transformed data into windows 0.001330 s +[racon::Polisher::polish] generating consensus [=> ] 0.029589 s [racon::Polisher::polish] generating consensus [==> ] 0.054501 s [racon::Polisher::polish] generating consensus [===> ] 0.082360 s [racon::Polisher::polish] generating consensus [====> ] 0.098359 s [racon::Polisher::polish] generating consensus [=====> ] 0.102347 s [racon::Polisher::polish] generating consensus [======> ] 0.111881 s [racon::Polisher::polish] generating consensus [=======> ] 0.123971 s [racon::Polisher::polish] generating consensus [========> ] 0.138368 s [racon::Polisher::polish] generating consensus [=========> ] 0.143887 s [racon::Polisher::polish] generating consensus [==========> ] 0.170341 s [racon::Polisher::polish] generating consensus [===========> ] 0.193803 s [racon::Polisher::polish] generating consensus [============> ] 0.230354 s [racon::Polisher::polish] generating consensus [=============> ] 0.271478 s [racon::Polisher::polish] generating consensus [==============> ] 0.318360 s [racon::Polisher::polish] generating consensus [===============> ] 0.360926 s [racon::Polisher::polish] generating consensus [================> ] 0.386386 s [racon::Polisher::polish] generating consensus [=================> ] 0.422344 s [racon::Polisher::polish] generating consensus [==================> ] 0.439339 s [racon::Polisher::polish] generating consensus [===================>] 0.462341 s [racon::Polisher::polish] generating consensus [====================] 0.534558 s +[racon::Polisher::] total = 0.592127 s +[ OK ] RaconPolishingTest.ConsensusWithQualitiesAndAlignments (597 ms) [ RUN ] RaconPolishingTest.ConsensusWithoutQualitiesAndWithAlignments -[racon::Polisher::initialize] loaded target sequences 0.000435 s -[racon::Polisher::initialize] loaded sequences 0.011726 s -[racon::Polisher::initialize] loaded overlaps 0.015475 s -[racon::Polisher::initialize] aligning overlaps [=> ] 0.005376 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.005491 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.005619 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.005724 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.005829 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.005929 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.006048 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.006164 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.006288 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.006402 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.006586 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.006700 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.006816 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.006931 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.007044 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.007161 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.007434 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.007675 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.007918 s [racon::Polisher::initialize] aligning overlaps [====================] 0.008158 s -[racon::Polisher::initialize] transformed data into windows 0.000455 s -[racon::Polisher::polish] generating consensus [=> ] 0.060515 s [racon::Polisher::polish] generating consensus [==> ] 0.116517 s [racon::Polisher::polish] generating consensus [===> ] 0.160227 s [racon::Polisher::polish] generating consensus [====> ] 0.204253 s [racon::Polisher::polish] generating consensus [=====> ] 0.236268 s [racon::Polisher::polish] generating consensus [======> ] 0.256226 s [racon::Polisher::polish] generating consensus [=======> ] 0.276223 s [racon::Polisher::polish] generating consensus [========> ] 0.296260 s [racon::Polisher::polish] generating consensus [=========> ] 0.312228 s [racon::Polisher::polish] generating consensus [==========> ] 0.344304 s [racon::Polisher::polish] generating consensus [===========> ] 0.376234 s [racon::Polisher::polish] generating consensus [============> ] 0.416241 s [racon::Polisher::polish] generating consensus [=============> ] 0.476227 s [racon::Polisher::polish] generating consensus [==============> ] 0.520230 s [racon::Polisher::polish] generating consensus [===============> ] 0.568227 s [racon::Polisher::polish] generating consensus [================> ] 0.608267 s [racon::Polisher::polish] generating consensus [=================> ] 0.648224 s [racon::Polisher::polish] generating consensus [==================> ] 0.672227 s [racon::Polisher::polish] generating consensus [===================>] 0.704219 s [racon::Polisher::polish] generating consensus [====================] 0.799353 s -[racon::Polisher::] total = 0.843222 s -[ OK ] RaconPolishingTest.ConsensusWithoutQualitiesAndWithAlignments (844 ms) +[racon::Polisher::initialize] loaded target sequences 0.000349 s +[racon::Polisher::initialize] loaded sequences 0.011091 s +[racon::Polisher::initialize] loaded overlaps 0.015677 s +[racon::Polisher::initialize] aligning overlaps [=> ] 0.002530 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.002911 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.002922 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.002926 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.003095 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.003278 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.003434 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.003553 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.003856 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.004248 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.004253 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.004258 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.004292 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.004296 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.004333 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.004387 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.004439 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.004513 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.004518 s [racon::Polisher::initialize] aligning overlaps [====================] 0.004622 s +[racon::Polisher::initialize] transformed data into windows 0.000341 s +[racon::Polisher::polish] generating consensus [=> ] 0.052610 s [racon::Polisher::polish] generating consensus [==> ] 0.084627 s [racon::Polisher::polish] generating consensus [===> ] 0.104604 s [racon::Polisher::polish] generating consensus [====> ] 0.129151 s [racon::Polisher::polish] generating consensus [=====> ] 0.142373 s [racon::Polisher::polish] generating consensus [======> ] 0.154898 s [racon::Polisher::polish] generating consensus [=======> ] 0.168022 s [racon::Polisher::polish] generating consensus [========> ] 0.184930 s [racon::Polisher::polish] generating consensus [=========> ] 0.204914 s [racon::Polisher::polish] generating consensus [==========> ] 0.227156 s [racon::Polisher::polish] generating consensus [===========> ] 0.258359 s [racon::Polisher::polish] generating consensus [============> ] 0.300619 s [racon::Polisher::polish] generating consensus [=============> ] 0.352617 s [racon::Polisher::polish] generating consensus [==============> ] 0.400628 s [racon::Polisher::polish] generating consensus [===============> ] 0.446878 s [racon::Polisher::polish] generating consensus [================> ] 0.488656 s [racon::Polisher::polish] generating consensus [=================> ] 0.528812 s [racon::Polisher::polish] generating consensus [==================> ] 0.551650 s [racon::Polisher::polish] generating consensus [===================>] 0.576336 s [racon::Polisher::polish] generating consensus [====================] 0.697085 s +[racon::Polisher::] total = 0.740525 s +[ OK ] RaconPolishingTest.ConsensusWithoutQualitiesAndWithAlignments (742 ms) [ RUN ] RaconPolishingTest.ConsensusWithQualitiesLargerWindow -[racon::Polisher::initialize] loaded target sequences 0.000593 s -[racon::Polisher::initialize] loaded sequences 0.026462 s -[racon::Polisher::initialize] loaded overlaps 0.000263 s -[racon::Polisher::initialize] aligning overlaps [=> ] 0.033257 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.051112 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.061675 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.069646 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.077648 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.085949 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.106421 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.116381 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.124529 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.132063 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.141960 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.150601 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.159839 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.164789 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.170918 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.177474 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.182455 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.189886 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.201478 s [racon::Polisher::initialize] aligning overlaps [====================] 0.209974 s -[racon::Polisher::initialize] transformed data into windows 0.001402 s -[racon::Polisher::polish] generating consensus [=> ] 0.096044 s [racon::Polisher::polish] generating consensus [==> ] 0.096807 s [racon::Polisher::polish] generating consensus [===> ] 0.179435 s [racon::Polisher::polish] generating consensus [====> ] 0.180100 s [racon::Polisher::polish] generating consensus [=====> ] 0.221153 s [racon::Polisher::polish] generating consensus [======> ] 0.221935 s [racon::Polisher::polish] generating consensus [=======> ] 0.256103 s [racon::Polisher::polish] generating consensus [========> ] 0.256962 s [racon::Polisher::polish] generating consensus [=========> ] 0.315322 s [racon::Polisher::polish] generating consensus [==========> ] 0.316129 s [racon::Polisher::polish] generating consensus [===========> ] 0.424574 s [racon::Polisher::polish] generating consensus [============> ] 0.433120 s [racon::Polisher::polish] generating consensus [=============> ] 0.614189 s [racon::Polisher::polish] generating consensus [==============> ] 0.614212 s [racon::Polisher::polish] generating consensus [===============> ] 0.734194 s [racon::Polisher::polish] generating consensus [================> ] 0.734242 s [racon::Polisher::polish] generating consensus [=================> ] 0.838190 s [racon::Polisher::polish] generating consensus [==================> ] 0.838212 s [racon::Polisher::polish] generating consensus [===================>] 0.926195 s [racon::Polisher::polish] generating consensus [====================] 1.113346 s -[racon::Polisher::] total = 1.362445 s -[ OK ] RaconPolishingTest.ConsensusWithQualitiesLargerWindow (1371 ms) +[racon::Polisher::initialize] loaded target sequences 0.000731 s +[racon::Polisher::initialize] loaded sequences 0.043621 s +[racon::Polisher::initialize] loaded overlaps 0.000267 s +[racon::Polisher::initialize] aligning overlaps [=> ] 0.020895 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.030611 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.042490 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.050495 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.060310 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.068660 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.088782 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.101635 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.109752 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.115435 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.124146 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.132507 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.141888 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.149751 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.153797 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.161749 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.166835 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.181748 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.185751 s [racon::Polisher::initialize] aligning overlaps [====================] 0.199363 s +[racon::Polisher::initialize] transformed data into windows 0.001340 s +[racon::Polisher::polish] generating consensus [=> ] 0.093513 s [racon::Polisher::polish] generating consensus [==> ] 0.093710 s [racon::Polisher::polish] generating consensus [===> ] 0.173564 s [racon::Polisher::polish] generating consensus [====> ] 0.173596 s [racon::Polisher::polish] generating consensus [=====> ] 0.216996 s [racon::Polisher::polish] generating consensus [======> ] 0.217024 s [racon::Polisher::polish] generating consensus [=======> ] 0.249155 s [racon::Polisher::polish] generating consensus [========> ] 0.249190 s [racon::Polisher::polish] generating consensus [=========> ] 0.304399 s [racon::Polisher::polish] generating consensus [==========> ] 0.305386 s [racon::Polisher::polish] generating consensus [===========> ] 0.409766 s [racon::Polisher::polish] generating consensus [============> ] 0.426562 s [racon::Polisher::polish] generating consensus [=============> ] 0.593888 s [racon::Polisher::polish] generating consensus [==============> ] 0.605004 s [racon::Polisher::polish] generating consensus [===============> ] 0.708997 s [racon::Polisher::polish] generating consensus [================> ] 0.709043 s [racon::Polisher::polish] generating consensus [=================> ] 0.819630 s [racon::Polisher::polish] generating consensus [==================> ] 0.819648 s [racon::Polisher::polish] generating consensus [===================>] 0.901001 s [racon::Polisher::polish] generating consensus [====================] 1.077094 s +[racon::Polisher::] total = 1.333920 s +[ OK ] RaconPolishingTest.ConsensusWithQualitiesLargerWindow (1352 ms) [ RUN ] RaconPolishingTest.ConsensusWithQualitiesEditDistance -[racon::Polisher::initialize] loaded target sequences 0.000527 s -[racon::Polisher::initialize] loaded sequences 0.026325 s -[racon::Polisher::initialize] loaded overlaps 0.000221 s -[racon::Polisher::initialize] aligning overlaps [=> ] 0.042434 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.063066 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.078609 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.097268 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.103829 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.109841 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.122553 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.145294 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.149393 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.157712 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.164360 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.179629 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.183998 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.194169 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.204153 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.211129 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.211943 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.222175 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.225334 s [racon::Polisher::initialize] aligning overlaps [====================] 0.232680 s -[racon::Polisher::initialize] transformed data into windows 0.004176 s -[racon::Polisher::polish] generating consensus [=> ] 0.024363 s [racon::Polisher::polish] generating consensus [==> ] 0.046516 s [racon::Polisher::polish] generating consensus [===> ] 0.065159 s [racon::Polisher::polish] generating consensus [====> ] 0.090389 s [racon::Polisher::polish] generating consensus [=====> ] 0.098190 s [racon::Polisher::polish] generating consensus [======> ] 0.106713 s [racon::Polisher::polish] generating consensus [=======> ] 0.115373 s [racon::Polisher::polish] generating consensus [========> ] 0.128933 s [racon::Polisher::polish] generating consensus [=========> ] 0.144634 s [racon::Polisher::polish] generating consensus [==========> ] 0.164199 s [racon::Polisher::polish] generating consensus [===========> ] 0.191595 s [racon::Polisher::polish] generating consensus [============> ] 0.215586 s [racon::Polisher::polish] generating consensus [=============> ] 0.255588 s [racon::Polisher::polish] generating consensus [==============> ] 0.295603 s [racon::Polisher::polish] generating consensus [===============> ] 0.331596 s [racon::Polisher::polish] generating consensus [================> ] 0.355623 s [racon::Polisher::polish] generating consensus [=================> ] 0.391580 s [racon::Polisher::polish] generating consensus [==================> ] 0.407610 s [racon::Polisher::polish] generating consensus [===================>] 0.423591 s [racon::Polisher::polish] generating consensus [====================] 0.524935 s -[racon::Polisher::] total = 0.798250 s -[ OK ] RaconPolishingTest.ConsensusWithQualitiesEditDistance (799 ms) +[racon::Polisher::initialize] loaded target sequences 0.000410 s +[racon::Polisher::initialize] loaded sequences 0.029497 s +[racon::Polisher::initialize] loaded overlaps 0.000223 s +[racon::Polisher::initialize] aligning overlaps [=> ] 0.019647 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.034448 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.045847 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.056600 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.063459 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.067711 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.080599 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.092106 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.099002 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.106098 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.116175 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.124839 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.136431 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.140248 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.156087 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.172626 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.180107 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.188091 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.196091 s [racon::Polisher::initialize] aligning overlaps [====================] 0.203528 s +[racon::Polisher::initialize] transformed data into windows 0.001566 s +[racon::Polisher::polish] generating consensus [=> ] 0.026950 s [racon::Polisher::polish] generating consensus [==> ] 0.047016 s [racon::Polisher::polish] generating consensus [===> ] 0.063947 s [racon::Polisher::polish] generating consensus [====> ] 0.078342 s [racon::Polisher::polish] generating consensus [=====> ] 0.093546 s [racon::Polisher::polish] generating consensus [======> ] 0.106381 s [racon::Polisher::polish] generating consensus [=======> ] 0.114634 s [racon::Polisher::polish] generating consensus [========> ] 0.124615 s [racon::Polisher::polish] generating consensus [=========> ] 0.134309 s [racon::Polisher::polish] generating consensus [==========> ] 0.157911 s [racon::Polisher::polish] generating consensus [===========> ] 0.180937 s [racon::Polisher::polish] generating consensus [============> ] 0.214230 s [racon::Polisher::polish] generating consensus [=============> ] 0.258947 s [racon::Polisher::polish] generating consensus [==============> ] 0.301083 s [racon::Polisher::polish] generating consensus [===============> ] 0.334949 s [racon::Polisher::polish] generating consensus [================> ] 0.357694 s [racon::Polisher::polish] generating consensus [=================> ] 0.395032 s [racon::Polisher::polish] generating consensus [==================> ] 0.410959 s [racon::Polisher::polish] generating consensus [===================>] 0.426529 s [racon::Polisher::polish] generating consensus [====================] 0.524931 s +[racon::Polisher::] total = 0.769869 s +[ OK ] RaconPolishingTest.ConsensusWithQualitiesEditDistance (771 ms) [ RUN ] RaconPolishingTest.FragmentCorrectionWithQualities -[racon::Polisher::initialize] loaded target sequences 0.026228 s -[racon::Polisher::initialize] loaded sequences 0.026226 s -[racon::Polisher::initialize] loaded overlaps 0.007386 s -[racon::Polisher::initialize] aligning overlaps [=> ] 0.034615 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.047440 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.063315 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.080810 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.090775 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.093503 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.105027 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.113149 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.125720 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.135922 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.147001 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.164137 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.176037 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.189948 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.199045 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.213811 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.222862 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.230465 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.237123 s [racon::Polisher::initialize] aligning overlaps [====================] 0.259503 s -[racon::Polisher::initialize] transformed data into windows 0.006692 s -[racon::Polisher::polish] generating consensus [=> ] 0.023600 s [racon::Polisher::polish] generating consensus [==> ] 0.043123 s [racon::Polisher::polish] generating consensus [===> ] 0.062878 s [racon::Polisher::polish] generating consensus [====> ] 0.063375 s [racon::Polisher::polish] generating consensus [=====> ] 0.076322 s [racon::Polisher::polish] generating consensus [======> ] 0.084928 s [racon::Polisher::polish] generating consensus [=======> ] 0.098976 s [racon::Polisher::polish] generating consensus [========> ] 0.102251 s [racon::Polisher::polish] generating consensus [=========> ] 0.128860 s [racon::Polisher::polish] generating consensus [==========> ] 0.140904 s [racon::Polisher::polish] generating consensus [===========> ] 0.151178 s [racon::Polisher::polish] generating consensus [============> ] 0.155204 s [racon::Polisher::polish] generating consensus [=============> ] 0.167086 s [racon::Polisher::polish] generating consensus [==============> ] 0.167330 s [racon::Polisher::polish] generating consensus [===============> ] 0.194895 s [racon::Polisher::polish] generating consensus [================> ] 0.195243 s [racon::Polisher::polish] generating consensus [=================> ] 0.245633 s [racon::Polisher::polish] generating consensus [==================> ] 0.263860 s [racon::Polisher::polish] generating consensus [===================>] 0.281750 s [racon::Polisher::polish] generating consensus [====================] 0.286107 s -[racon::Polisher::] total = 0.613030 s -[ OK ] RaconPolishingTest.FragmentCorrectionWithQualities (613 ms) +[racon::Polisher::initialize] loaded target sequences 0.027172 s +[racon::Polisher::initialize] loaded sequences 0.026148 s +[racon::Polisher::initialize] loaded overlaps 0.007275 s +[racon::Polisher::initialize] aligning overlaps [=> ] 0.019135 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.035715 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.040589 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.049135 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.055841 s [racon::Polisher::initialize] aligning overlaps [======> ] 0.065269 s [racon::Polisher::initialize] aligning overlaps [=======> ] 0.073861 s [racon::Polisher::initialize] aligning overlaps [========> ] 0.082229 s [racon::Polisher::initialize] aligning overlaps [=========> ] 0.094757 s [racon::Polisher::initialize] aligning overlaps [==========> ] 0.105128 s [racon::Polisher::initialize] aligning overlaps [===========> ] 0.120334 s [racon::Polisher::initialize] aligning overlaps [============> ] 0.138011 s [racon::Polisher::initialize] aligning overlaps [=============> ] 0.147245 s [racon::Polisher::initialize] aligning overlaps [==============> ] 0.161191 s [racon::Polisher::initialize] aligning overlaps [===============> ] 0.174245 s [racon::Polisher::initialize] aligning overlaps [================> ] 0.185383 s [racon::Polisher::initialize] aligning overlaps [=================> ] 0.194553 s [racon::Polisher::initialize] aligning overlaps [==================> ] 0.200943 s [racon::Polisher::initialize] aligning overlaps [===================>] 0.211515 s [racon::Polisher::initialize] aligning overlaps [====================] 0.219462 s +[racon::Polisher::initialize] transformed data into windows 0.002791 s +[racon::Polisher::polish] generating consensus [=> ] 0.028018 s [racon::Polisher::polish] generating consensus [==> ] 0.053929 s [racon::Polisher::polish] generating consensus [===> ] 0.076313 s [racon::Polisher::polish] generating consensus [====> ] 0.076503 s [racon::Polisher::polish] generating consensus [=====> ] 0.090703 s [racon::Polisher::polish] generating consensus [======> ] 0.104041 s [racon::Polisher::polish] generating consensus [=======> ] 0.115998 s [racon::Polisher::polish] generating consensus [========> ] 0.119685 s [racon::Polisher::polish] generating consensus [=========> ] 0.140260 s [racon::Polisher::polish] generating consensus [==========> ] 0.151742 s [racon::Polisher::polish] generating consensus [===========> ] 0.172098 s [racon::Polisher::polish] generating consensus [============> ] 0.179946 s [racon::Polisher::polish] generating consensus [=============> ] 0.183339 s [racon::Polisher::polish] generating consensus [==============> ] 0.184567 s [racon::Polisher::polish] generating consensus [===============> ] 0.200927 s [racon::Polisher::polish] generating consensus [================> ] 0.201217 s [racon::Polisher::polish] generating consensus [=================> ] 0.255985 s [racon::Polisher::polish] generating consensus [==================> ] 0.275971 s [racon::Polisher::polish] generating consensus [===================>] 0.291923 s [racon::Polisher::polish] generating consensus [====================] 0.293113 s +[racon::Polisher::] total = 0.576375 s +[ OK ] RaconPolishingTest.FragmentCorrectionWithQualities (577 ms) [ RUN ] RaconPolishingTest.FragmentCorrectionWithQualitiesFull -[racon::Polisher::initialize] loaded target sequences 0.069883 s -[racon::Polisher::initialize] loaded sequences 0.040326 s -[racon::Polisher::initialize] loaded overlaps 0.008585 s -[racon::Polisher::initialize] aligning overlaps [=> ] 0.303017 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.462139 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.607026 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.808994 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.972809 s [racon::Polisher::initialize] aligning overlaps [======> ] 1.102224 s [racon::Polisher::initialize] aligning overlaps [=======> ] 1.276792 s [racon::Polisher::initialize] aligning overlaps [========> ] 1.502321 s [racon::Polisher::initialize] aligning overlaps [=========> ] 1.733688 s [racon::Polisher::initialize] aligning overlaps [==========> ] 1.917711 s [racon::Polisher::initialize] aligning overlaps [===========> ] 2.078107 s [racon::Polisher::initialize] aligning overlaps [============> ] 2.304639 s [racon::Polisher::initialize] aligning overlaps [=============> ] 2.552858 s [racon::Polisher::initialize] aligning overlaps [==============> ] 2.767000 s [racon::Polisher::initialize] aligning overlaps [===============> ] 3.023241 s [racon::Polisher::initialize] aligning overlaps [================> ] 3.262107 s [racon::Polisher::initialize] aligning overlaps [=================> ] 3.486845 s [racon::Polisher::initialize] aligning overlaps [==================> ] 3.725792 s [racon::Polisher::initialize] aligning overlaps [===================>] 3.977641 s [racon::Polisher::initialize] aligning overlaps [====================] 4.161443 s -[racon::Polisher::initialize] transformed data into windows 0.092166 s -[racon::Polisher::polish] generating consensus [=> ] 0.927673 s [racon::Polisher::polish] generating consensus [==> ] 1.608231 s [racon::Polisher::polish] generating consensus [===> ] 2.345084 s [racon::Polisher::polish] generating consensus [====> ] 2.951471 s [racon::Polisher::polish] generating consensus [=====> ] 3.608332 s [racon::Polisher::polish] generating consensus [======> ] 4.379792 s [racon::Polisher::polish] generating consensus [=======> ] 5.162185 s [racon::Polisher::polish] generating consensus [========> ] 5.730721 s [racon::Polisher::polish] generating consensus [=========> ] 6.462005 s [racon::Polisher::polish] generating consensus [==========> ] 7.322054 s [racon::Polisher::polish] generating consensus [===========> ] 8.034195 s [racon::Polisher::polish] generating consensus [============> ] 8.816701 s [racon::Polisher::polish] generating consensus [=============> ] 9.495858 s [racon::Polisher::polish] generating consensus [==============> ] 10.225063 s [racon::Polisher::polish] generating consensus [===============> ] 11.016974 s [racon::Polisher::polish] generating consensus [================> ] 11.448679 s [racon::Polisher::polish] generating consensus [=================> ] 12.322265 s [racon::Polisher::polish] generating consensus [==================> ] 13.141252 s [racon::Polisher::polish] generating consensus [===================>] 13.928236 s [racon::Polisher::polish] generating consensus [====================] 14.435450 s -[racon::Polisher::] total = 18.812626 s -[ OK ] RaconPolishingTest.FragmentCorrectionWithQualitiesFull (18814 ms) +[racon::Polisher::initialize] loaded target sequences 0.026188 s +[racon::Polisher::initialize] loaded sequences 0.026704 s +[racon::Polisher::initialize] loaded overlaps 0.007395 s +[racon::Polisher::initialize] aligning overlaps [=> ] 0.252766 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.411623 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.556770 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.768788 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.957028 s [racon::Polisher::initialize] aligning overlaps [======> ] 1.161049 s [racon::Polisher::initialize] aligning overlaps [=======> ] 1.525067 s [racon::Polisher::initialize] aligning overlaps [========> ] 1.972777 s [racon::Polisher::initialize] aligning overlaps [=========> ] 2.389069 s [racon::Polisher::initialize] aligning overlaps [==========> ] 2.768772 s [racon::Polisher::initialize] aligning overlaps [===========> ] 3.101079 s [racon::Polisher::initialize] aligning overlaps [============> ] 3.536829 s [racon::Polisher::initialize] aligning overlaps [=============> ] 3.815432 s [racon::Polisher::initialize] aligning overlaps [==============> ] 4.108927 s [racon::Polisher::initialize] aligning overlaps [===============> ] 4.460988 s [racon::Polisher::initialize] aligning overlaps [================> ] 4.748771 s [racon::Polisher::initialize] aligning overlaps [=================> ] 5.052774 s [racon::Polisher::initialize] aligning overlaps [==================> ] 5.300780 s [racon::Polisher::initialize] aligning overlaps [===================>] 5.577060 s [racon::Polisher::initialize] aligning overlaps [====================] 5.714686 s +[racon::Polisher::initialize] transformed data into windows 0.043528 s +[racon::Polisher::polish] generating consensus [=> ] 1.878698 s [racon::Polisher::polish] generating consensus [==> ] 2.890617 s [racon::Polisher::polish] generating consensus [===> ] 3.830674 s [racon::Polisher::polish] generating consensus [====> ] 4.558408 s [racon::Polisher::polish] generating consensus [=====> ] 5.970647 s [racon::Polisher::polish] generating consensus [======> ] 7.438366 s [racon::Polisher::polish] generating consensus [=======> ] 8.762538 s [racon::Polisher::polish] generating consensus [========> ] 9.582974 s [racon::Polisher::polish] generating consensus [=========> ] 11.166664 s [racon::Polisher::polish] generating consensus [==========> ] 12.922358 s [racon::Polisher::polish] generating consensus [===========> ] 13.926663 s [racon::Polisher::polish] generating consensus [============> ] 15.622643 s [racon::Polisher::polish] generating consensus [=============> ] 16.946640 s [racon::Polisher::polish] generating consensus [==============> ] 17.794632 s [racon::Polisher::polish] generating consensus [===============> ] 19.066651 s [racon::Polisher::polish] generating consensus [================> ] 20.034378 s [racon::Polisher::polish] generating consensus [=================> ] 20.950333 s [racon::Polisher::polish] generating consensus [==================> ] 21.694375 s [racon::Polisher::polish] generating consensus [===================>] 23.186347 s [racon::Polisher::polish] generating consensus [====================] 23.648125 s +[racon::Polisher::] total = 29.472134 s +[ OK ] RaconPolishingTest.FragmentCorrectionWithQualitiesFull (29478 ms) [ RUN ] RaconPolishingTest.FragmentCorrectionWithoutQualitiesFull -[racon::Polisher::initialize] loaded target sequences 0.032146 s -[racon::Polisher::initialize] loaded sequences 0.025752 s -[racon::Polisher::initialize] loaded overlaps 0.011858 s -[racon::Polisher::initialize] aligning overlaps [=> ] 0.308442 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.467181 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.612527 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.815206 s [racon::Polisher::initialize] aligning overlaps [=====> ] 0.960853 s [racon::Polisher::initialize] aligning overlaps [======> ] 1.098716 s [racon::Polisher::initialize] aligning overlaps [=======> ] 1.268378 s [racon::Polisher::initialize] aligning overlaps [========> ] 1.495920 s [racon::Polisher::initialize] aligning overlaps [=========> ] 1.729589 s [racon::Polisher::initialize] aligning overlaps [==========> ] 1.919144 s [racon::Polisher::initialize] aligning overlaps [===========> ] 2.081217 s [racon::Polisher::initialize] aligning overlaps [============> ] 2.315698 s [racon::Polisher::initialize] aligning overlaps [=============> ] 2.569897 s [racon::Polisher::initialize] aligning overlaps [==============> ] 2.785389 s [racon::Polisher::initialize] aligning overlaps [===============> ] 3.042911 s [racon::Polisher::initialize] aligning overlaps [================> ] 3.282630 s [racon::Polisher::initialize] aligning overlaps [=================> ] 3.483665 s [racon::Polisher::initialize] aligning overlaps [==================> ] 3.739006 s [racon::Polisher::initialize] aligning overlaps [===================>] 4.000554 s [racon::Polisher::initialize] aligning overlaps [====================] 4.159768 s -[racon::Polisher::initialize] transformed data into windows 0.021977 s -[racon::Polisher::polish] generating consensus [=> ] 1.293792 s [racon::Polisher::polish] generating consensus [==> ] 2.288900 s [racon::Polisher::polish] generating consensus [===> ] 3.272295 s [racon::Polisher::polish] generating consensus [====> ] 4.019762 s [racon::Polisher::polish] generating consensus [=====> ] 4.916264 s [racon::Polisher::polish] generating consensus [======> ] 5.914749 s [racon::Polisher::polish] generating consensus [=======> ] 6.987942 s [racon::Polisher::polish] generating consensus [========> ] 7.756652 s [racon::Polisher::polish] generating consensus [=========> ] 8.765718 s [racon::Polisher::polish] generating consensus [==========> ] 9.938453 s [racon::Polisher::polish] generating consensus [===========> ] 10.900828 s [racon::Polisher::polish] generating consensus [============> ] 11.971667 s [racon::Polisher::polish] generating consensus [=============> ] 12.966130 s [racon::Polisher::polish] generating consensus [==============> ] 13.963766 s [racon::Polisher::polish] generating consensus [===============> ] 14.973319 s [racon::Polisher::polish] generating consensus [================> ] 15.515917 s [racon::Polisher::polish] generating consensus [=================> ] 16.801628 s [racon::Polisher::polish] generating consensus [==================> ] 17.988555 s [racon::Polisher::polish] generating consensus [===================>] 19.065123 s [racon::Polisher::polish] generating consensus [====================] 19.799692 s -[racon::Polisher::] total = 24.054809 s -[ OK ] RaconPolishingTest.FragmentCorrectionWithoutQualitiesFull (24056 ms) +[racon::Polisher::initialize] loaded target sequences 0.027892 s +[racon::Polisher::initialize] loaded sequences 0.015015 s +[racon::Polisher::initialize] loaded overlaps 0.007640 s +[racon::Polisher::initialize] aligning overlaps [=> ] 0.712255 s [racon::Polisher::initialize] aligning overlaps [==> ] 1.176250 s [racon::Polisher::initialize] aligning overlaps [===> ] 1.468528 s [racon::Polisher::initialize] aligning overlaps [====> ] 1.924917 s [racon::Polisher::initialize] aligning overlaps [=====> ] 2.256249 s [racon::Polisher::initialize] aligning overlaps [======> ] 2.436387 s [racon::Polisher::initialize] aligning overlaps [=======> ] 2.624675 s [racon::Polisher::initialize] aligning overlaps [========> ] 2.880262 s [racon::Polisher::initialize] aligning overlaps [=========> ] 3.180249 s [racon::Polisher::initialize] aligning overlaps [==========> ] 3.764253 s [racon::Polisher::initialize] aligning overlaps [===========> ] 4.092248 s [racon::Polisher::initialize] aligning overlaps [============> ] 4.572252 s [racon::Polisher::initialize] aligning overlaps [=============> ] 5.092242 s [racon::Polisher::initialize] aligning overlaps [==============> ] 5.652251 s [racon::Polisher::initialize] aligning overlaps [===============> ] 6.428254 s [racon::Polisher::initialize] aligning overlaps [================> ] 7.008249 s [racon::Polisher::initialize] aligning overlaps [=================> ] 7.164252 s [racon::Polisher::initialize] aligning overlaps [==================> ] 7.288241 s [racon::Polisher::initialize] aligning overlaps [===================>] 7.440328 s [racon::Polisher::initialize] aligning overlaps [====================] 7.674727 s +[racon::Polisher::initialize] transformed data into windows 0.011312 s +[racon::Polisher::polish] generating consensus [=> ] 2.804944 s [racon::Polisher::polish] generating consensus [==> ] 4.813157 s [racon::Polisher::polish] generating consensus [===> ] 6.692885 s [racon::Polisher::polish] generating consensus [====> ] 7.904896 s [racon::Polisher::polish] generating consensus [=====> ] 9.965146 s [racon::Polisher::polish] generating consensus [======> ] 11.092946 s [racon::Polisher::polish] generating consensus [=======> ] 12.800859 s [racon::Polisher::polish] generating consensus [========> ] 13.757009 s [racon::Polisher::polish] generating consensus [=========> ] 15.652861 s [racon::Polisher::polish] generating consensus [==========> ] 18.689138 s [racon::Polisher::polish] generating consensus [===========> ] 19.988918 s [racon::Polisher::polish] generating consensus [============> ] 21.689160 s [racon::Polisher::polish] generating consensus [=============> ] 22.969166 s [racon::Polisher::polish] generating consensus [==============> ] 24.504889 s [racon::Polisher::polish] generating consensus [===============> ] 26.213155 s [racon::Polisher::polish] generating consensus [================> ] 27.593217 s [racon::Polisher::polish] generating consensus [=================> ] 30.108879 s [racon::Polisher::polish] generating consensus [==================> ] 31.748894 s [racon::Polisher::polish] generating consensus [===================>] 32.413147 s [racon::Polisher::polish] generating consensus [====================] 33.448609 s +[racon::Polisher::] total = 41.187129 s +[ OK ] RaconPolishingTest.FragmentCorrectionWithoutQualitiesFull (41191 ms) [ RUN ] RaconPolishingTest.FragmentCorrectionWithQualitiesFullMhap -[racon::Polisher::initialize] loaded target sequences 0.042029 s -[racon::Polisher::initialize] loaded sequences 0.031611 s -[racon::Polisher::initialize] loaded overlaps 0.006618 s -[racon::Polisher::initialize] aligning overlaps [=> ] 0.295249 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.450761 s [racon::Polisher::initialize] aligning overlaps [===> ] 0.605835 s [racon::Polisher::initialize] aligning overlaps [====> ] 0.819198 s [racon::Polisher::initialize] aligning overlaps [=====> ] 1.003954 s [racon::Polisher::initialize] aligning overlaps [======> ] 1.134885 s [racon::Polisher::initialize] aligning overlaps [=======> ] 1.309953 s [racon::Polisher::initialize] aligning overlaps [========> ] 1.535590 s [racon::Polisher::initialize] aligning overlaps [=========> ] 1.743102 s [racon::Polisher::initialize] aligning overlaps [==========> ] 1.952015 s [racon::Polisher::initialize] aligning overlaps [===========> ] 2.112229 s [racon::Polisher::initialize] aligning overlaps [============> ] 2.340198 s [racon::Polisher::initialize] aligning overlaps [=============> ] 2.571025 s [racon::Polisher::initialize] aligning overlaps [==============> ] 2.760609 s [racon::Polisher::initialize] aligning overlaps [===============> ] 3.026316 s [racon::Polisher::initialize] aligning overlaps [================> ] 3.267733 s [racon::Polisher::initialize] aligning overlaps [=================> ] 3.478700 s [racon::Polisher::initialize] aligning overlaps [==================> ] 3.705944 s [racon::Polisher::initialize] aligning overlaps [===================>] 3.967375 s [racon::Polisher::initialize] aligning overlaps [====================] 4.160061 s -[racon::Polisher::initialize] transformed data into windows 0.039477 s -[racon::Polisher::polish] generating consensus [=> ] 0.944264 s [racon::Polisher::polish] generating consensus [==> ] 1.606442 s [racon::Polisher::polish] generating consensus [===> ] 2.314081 s [racon::Polisher::polish] generating consensus [====> ] 2.910254 s [racon::Polisher::polish] generating consensus [=====> ] 3.558037 s [racon::Polisher::polish] generating consensus [======> ] 4.318311 s [racon::Polisher::polish] generating consensus [=======> ] 5.085759 s [racon::Polisher::polish] generating consensus [========> ] 5.643602 s [racon::Polisher::polish] generating consensus [=========> ] 6.362544 s [racon::Polisher::polish] generating consensus [==========> ] 7.209429 s [racon::Polisher::polish] generating consensus [===========> ] 7.906427 s [racon::Polisher::polish] generating consensus [============> ] 8.672189 s [racon::Polisher::polish] generating consensus [=============> ] 9.336330 s [racon::Polisher::polish] generating consensus [==============> ] 10.088616 s [racon::Polisher::polish] generating consensus [===============> ] 10.868196 s [racon::Polisher::polish] generating consensus [================> ] 11.293280 s [racon::Polisher::polish] generating consensus [=================> ] 12.154557 s [racon::Polisher::polish] generating consensus [==================> ] 12.961758 s [racon::Polisher::polish] generating consensus [===================>] 13.746563 s [racon::Polisher::polish] generating consensus [====================] 14.313976 s -[racon::Polisher::] total = 18.596557 s -[ OK ] RaconPolishingTest.FragmentCorrectionWithQualitiesFullMhap (18597 ms) -[----------] 10 tests from RaconPolishingTest (68844 ms total) +[racon::Polisher::initialize] loaded target sequences 0.035984 s +[racon::Polisher::initialize] loaded sequences 0.028422 s +[racon::Polisher::initialize] loaded overlaps 0.008117 s +[racon::Polisher::initialize] aligning overlaps [=> ] 0.474395 s [racon::Polisher::initialize] aligning overlaps [==> ] 0.794405 s [racon::Polisher::initialize] aligning overlaps [===> ] 1.074698 s [racon::Polisher::initialize] aligning overlaps [====> ] 1.450706 s [racon::Polisher::initialize] aligning overlaps [=====> ] 1.770744 s [racon::Polisher::initialize] aligning overlaps [======> ] 2.050696 s [racon::Polisher::initialize] aligning overlaps [=======> ] 2.406683 s [racon::Polisher::initialize] aligning overlaps [========> ] 2.722693 s [racon::Polisher::initialize] aligning overlaps [=========> ] 2.978719 s [racon::Polisher::initialize] aligning overlaps [==========> ] 3.202683 s [racon::Polisher::initialize] aligning overlaps [===========> ] 3.386779 s [racon::Polisher::initialize] aligning overlaps [============> ] 3.762695 s [racon::Polisher::initialize] aligning overlaps [=============> ] 4.226785 s [racon::Polisher::initialize] aligning overlaps [==============> ] 4.442719 s [racon::Polisher::initialize] aligning overlaps [===============> ] 4.734689 s [racon::Polisher::initialize] aligning overlaps [================> ] 5.106648 s [racon::Polisher::initialize] aligning overlaps [=================> ] 5.398685 s [racon::Polisher::initialize] aligning overlaps [==================> ] 5.750687 s [racon::Polisher::initialize] aligning overlaps [===================>] 6.250703 s [racon::Polisher::initialize] aligning overlaps [====================] 6.443415 s +[racon::Polisher::initialize] transformed data into windows 0.085864 s +[racon::Polisher::polish] generating consensus [=> ] 1.891691 s [racon::Polisher::polish] generating consensus [==> ] 3.371685 s [racon::Polisher::polish] generating consensus [===> ] 4.823713 s [racon::Polisher::polish] generating consensus [====> ] 6.424000 s [racon::Polisher::polish] generating consensus [=====> ] 7.376028 s [racon::Polisher::polish] generating consensus [======> ] 8.895695 s [racon::Polisher::polish] generating consensus [=======> ] 10.415679 s [racon::Polisher::polish] generating consensus [========> ] 11.799973 s [racon::Polisher::polish] generating consensus [=========> ] 12.527989 s [racon::Polisher::polish] generating consensus [==========> ] 13.467956 s [racon::Polisher::polish] generating consensus [===========> ] 14.171995 s [racon::Polisher::polish] generating consensus [============> ] 15.023726 s [racon::Polisher::polish] generating consensus [=============> ] 15.791679 s [racon::Polisher::polish] generating consensus [==============> ] 16.568184 s [racon::Polisher::polish] generating consensus [===============> ] 17.407958 s [racon::Polisher::polish] generating consensus [================> ] 17.947707 s [racon::Polisher::polish] generating consensus [=================> ] 18.807662 s [racon::Polisher::polish] generating consensus [==================> ] 19.631692 s [racon::Polisher::polish] generating consensus [===================>] 20.371692 s [racon::Polisher::polish] generating consensus [====================] 20.847594 s +[racon::Polisher::] total = 27.452029 s +[ OK ] RaconPolishingTest.FragmentCorrectionWithQualitiesFullMhap (27454 ms) +[----------] 10 tests from RaconPolishingTest (103979 ms total) [----------] Global test environment tear-down -[==========] 15 tests from 2 test suites ran. (68923 ms total) +[==========] 15 tests from 2 test suites ran. (103992 ms total) [ PASSED ] 15 tests. make[1]: Leaving directory '/build/reproducible-path/racon-1.5.0' create-stamp debian/debhelper-build-stamp @@ -768,12 +804,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/1520015/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/1520015/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env -I: removing directory /srv/workspace/pbuilder/230454 and its subdirectories -I: Current time: Thu Mar 13 08:36:34 -12 2025 -I: pbuilder-time-stamp: 1741898194 +I: removing directory /srv/workspace/pbuilder/1520015 and its subdirectories +I: Current time: Thu Apr 16 17:02:16 +14 2026 +I: pbuilder-time-stamp: 1776308536