I: pbuilder: network access will be disabled during build I: Current time: Mon Jun 2 11:46:37 +14 2025 I: pbuilder-time-stamp: 1748814397 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 [tnseq-transit_3.3.4-1.dsc] I: copying [./tnseq-transit_3.3.4.orig.tar.gz] I: copying [./tnseq-transit_3.3.4-1.debian.tar.xz] I: Extracting source gpgv: Signature made Sun Feb 18 14:11:03 2024 gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: issuer "emollier@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./tnseq-transit_3.3.4-1.dsc: no acceptable signature found dpkg-source: info: extracting tnseq-transit in tnseq-transit-3.3.4 dpkg-source: info: unpacking tnseq-transit_3.3.4.orig.tar.gz dpkg-source: info: unpacking tnseq-transit_3.3.4-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying skip_test_requiring_non_existing_input_data.patch dpkg-source: info: applying fix_problematic_comparison.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2221546/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 Jun 1 21:46 /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/2221546/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/2221546/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="2" [2]="21" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") BASH_VERSION='5.2.21(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 ' 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=c1f5f76a45d645e79b4e15fd2667e9e6 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=2221546 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.09133qLP/pbuilderrc_sLKJ --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.09133qLP/b2 --logfile b2/build.log tnseq-transit_3.3.4-1.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 i-capture-the-hostname 6.1.0-20-cloud-arm64 #1 SMP Debian 6.1.85-1 (2024-04-11) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 May 24 13:38 /bin -> usr/bin I: user script /srv/workspace/pbuilder/2221546/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: arm64 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), dh-sequence-python3, python3-dev, python3-setuptools, python3-numpy, python3-scipy, python3-pil, python3-matplotlib, python3-sklearn, python3-statsmodels, python3-pubsub, bwa dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19941 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 dh-sequence-python3; however: Package dh-sequence-python3 is not installed. pbuilder-satisfydepends-dummy depends on python3-dev; however: Package python3-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-scipy; however: Package python3-scipy is not installed. pbuilder-satisfydepends-dummy depends on python3-pil; however: Package python3-pil is not installed. pbuilder-satisfydepends-dummy depends on python3-matplotlib; however: Package python3-matplotlib is not installed. pbuilder-satisfydepends-dummy depends on python3-sklearn; however: Package python3-sklearn is not installed. pbuilder-satisfydepends-dummy depends on python3-statsmodels; however: Package python3-statsmodels is not installed. pbuilder-satisfydepends-dummy depends on python3-pubsub; however: Package python3-pubsub is not installed. pbuilder-satisfydepends-dummy depends on bwa; however: Package bwa 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} bwa{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libicu72{a} libmagic-mgc{a} libmagic1{a} libpipeline1{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{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, 31 newly installed, 0 to remove and 0 not upgraded. Need to get 18.8 MB of archives. After unpacking 76.3 MB will be used. The following packages have unmet dependencies: pbuilder-satisfydepends-dummy : Depends: dh-sequence-python3 which is a virtual package, provided by: - dh-python (6.20240422), but it is not installable Depends: python3-dev but it is not installable Depends: python3-setuptools but it is not installable Depends: python3-numpy but it is not installable Depends: python3-scipy but it is not installable Depends: python3-pil but it is not installable Depends: python3-matplotlib but it is not installable Depends: python3-sklearn but it is not installable Depends: python3-statsmodels but it is not installable Depends: python3-pubsub but it is not installable The following actions will resolve these dependencies: Remove the following packages: 1) libdb5.3 [5.3.28+dfsg2-4+b1 (now)] 2) libssl3 [3.1.5-1 (now)] Install the following packages: 3) blt [2.5.3+dfsg-7 (testing)] 4) dh-python [6.20240422 (testing)] 5) fontconfig-config [2.15.0-1.1 (testing)] 6) fonts-dejavu-core [2.37-8 (testing)] 7) fonts-dejavu-mono [2.37-8 (testing)] 8) fonts-lyx [2.4.0~RC3-1 (testing)] 9) libblis4-serial [0.9.0-1+b2 (testing)] 10) libbrotli1 [1.1.0-2+b3 (testing)] 11) libbsd0 [0.12.2-1 (testing)] 12) libdb5.3t64 [5.3.28+dfsg2-7 (testing)] 13) libdeflate0 [1.20-1 (testing)] 14) libexpat1 [2.6.2-1 (testing)] 15) libexpat1-dev [2.6.2-1 (testing)] 16) libfontconfig1 [2.15.0-1.1 (testing)] 17) libfreetype6 [2.13.2+dfsg-1+b4 (testing)] 18) libfribidi0 [1.0.13-3+b1 (testing)] 19) libgfortran5 [14-20240330-1 (testing)] 20) libglib2.0-0t64 [2.78.4-7 (testing)] 21) libgraphite2-3 [1.3.14-2 (testing)] 22) libharfbuzz0b [8.3.0-2+b1 (testing)] 23) libimagequant0 [2.18.0-1+b1 (testing)] 24) libjbig0 [2.1-6.1+b1 (testing)] 25) libjpeg62-turbo [1:2.1.5-2+b2 (testing)] 26) libjs-jquery [3.6.1+dfsg+~3.5.14-1 (testing)] 27) libjs-jquery-ui [1.13.2+dfsg-1 (testing)] 28) libjs-sphinxdoc [7.2.6-6 (testing)] 29) libjs-underscore [1.13.4~dfsg+~1.11.4-3 (testing)] 30) liblapack3 [3.12.0-3 (testing)] 31) liblbfgsb0 [3.0+dfsg.4-1+b1 (testing)] 32) liblcms2-2 [2.14-2+b1 (testing)] 33) liblerc4 [4.0.0+ds-4+b1 (testing)] 34) libopenjp2-7 [2.5.0-2+b3 (testing)] 35) libpng16-16t64 [1.6.43-5 (testing)] 36) libproc2-0 [2:4.0.4-4 (testing)] 37) libpython3-dev [3.11.8-1 (testing)] 38) libpython3-stdlib [3.11.8-1 (testing)] 39) libpython3.11-dev [3.11.9-1 (testing)] 40) libpython3.11-minimal [3.11.9-1 (testing)] 41) libpython3.11-stdlib [3.11.9-1 (testing)] 42) libpython3.11t64 [3.11.9-1 (testing)] 43) libpython3.12-minimal [3.12.3-1 (testing)] 44) libpython3.12-stdlib [3.12.3-1 (testing)] 45) libqhull-r8.0 [2020.2-6+b1 (testing)] 46) libraqm0 [0.10.1-1+b1 (testing)] 47) libreadline8t64 [8.2-4 (testing)] 48) libsharpyuv0 [1.3.2-0.4+b1 (testing)] 49) libssl3t64 [3.2.1-3 (testing)] 50) libtcl8.6 [8.6.14+dfsg-1 (testing)] 51) libtiff6 [4.5.1+git230720-4 (testing)] 52) libtk8.6 [8.6.14-1 (testing)] 53) libwebp7 [1.3.2-0.4+b1 (testing)] 54) libwebpdemux2 [1.3.2-0.4+b1 (testing)] 55) libwebpmux3 [1.3.2-0.4+b1 (testing)] 56) libx11-6 [2:1.8.7-1+b1 (testing)] 57) libx11-data [2:1.8.7-1 (testing)] 58) libxau6 [1:1.0.9-1+b1 (testing)] 59) libxcb1 [1.15-1 (testing)] 60) libxdmcp6 [1:1.1.2-3+b1 (testing)] 61) libxext6 [2:1.3.4-1+b1 (testing)] 62) libxft2 [2.3.6-1+b1 (testing)] 63) libxrender1 [1:0.9.10-1.1+b1 (testing)] 64) libxslt1.1 [1.1.35-1+b1 (testing)] 65) libxss1 [1:1.2.3-1+b1 (testing)] 66) media-types [10.1.0 (testing)] 67) netbase [6.4 (testing)] 68) procps [2:4.0.4-4 (testing)] 69) python-matplotlib-data [3.6.3-1 (testing)] 70) python3 [3.11.8-1 (testing)] 71) python3-all [3.11.8-1 (testing)] 72) python3-appdirs [1.4.4-4 (testing)] 73) python3-attr [23.2.0-2 (testing)] 74) python3-brotli [1.1.0-2+b3 (testing)] 75) python3-contourpy [1.0.7-3 (testing)] 76) python3-cycler [0.12.1-1 (testing)] 77) python3-dateutil [2.9.0-2 (testing)] 78) python3-decorator [5.1.1-5 (testing)] 79) python3-dev [3.11.8-1 (testing)] 80) python3-distutils [3.12.3-1 (testing)] 81) python3-fonttools [4.46.0-1 (testing)] 82) python3-fs [2.4.16-4 (testing)] 83) python3-joblib [1.3.2-2 (testing)] 84) python3-kiwisolver [1.4.5-1 (testing)] 85) python3-lib2to3 [3.12.3-1 (testing)] 86) python3-lxml [5.1.0-1 (testing)] 87) python3-lz4 [4.0.2+dfsg-1+b3 (testing)] 88) python3-matplotlib [3.6.3-1+b2 (testing)] 89) python3-minimal [3.11.8-1 (testing)] 90) python3-mpmath [1.3.0-1 (testing)] 91) python3-numpy [1:1.24.2-2 (testing)] 92) python3-packaging [24.0-1 (testing)] 93) python3-pandas [2.1.4+dfsg-5 (testing)] 94) python3-pandas-lib [2.1.4+dfsg-5 (testing)] 95) python3-patsy [0.5.6-1 (testing)] 96) python3-pil [10.3.0-2 (testing)] 97) python3-pil.imagetk [10.3.0-2 (testing)] 98) python3-pkg-resources [68.1.2-2 (testing)] 99) python3-pubsub [4.0.3-7 (testing)] 100) python3-pyparsing [3.1.2-1 (testing)] 101) python3-scipy [1.11.4-6 (testing)] 102) python3-setuptools [68.1.2-2 (testing)] 103) python3-six [1.16.0-6 (testing)] 104) python3-sklearn [1.4.1.post1+dfsg-1 (testing)] 105) python3-sklearn-lib [1.4.1.post1+dfsg-1 (testing)] 106) python3-statsmodels [0.14.1+dfsg-2 (testing)] 107) python3-statsmodels-lib [0.14.1+dfsg-2 (testing)] 108) python3-sympy [1.12-7 (testing)] 109) python3-threadpoolctl [3.1.0-1 (testing)] 110) python3-tk [3.12.3-1 (testing)] 111) python3-tz [2024.1-2 (testing)] 112) python3-ufolib2 [0.16.0+dfsg1-1 (testing)] 113) python3.11 [3.11.9-1 (testing)] 114) python3.11-dev [3.11.9-1 (testing)] 115) python3.11-minimal [3.11.9-1 (testing)] 116) python3.12 [3.12.3-1 (testing)] 117) python3.12-minimal [3.12.3-1 (testing)] 118) readline-common [8.2-4 (testing)] 119) tk8.6-blt2.5 [2.5.3+dfsg-7 (testing)] 120) tzdata [2024a-3 (testing)] 121) unicode-data [15.1.0-1 (testing)] 122) x11-common [1:7.7+23 (testing)] 123) zlib1g-dev [1:1.3.dfsg-3.1 (testing)] The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} blt{a} bsdextrautils{a} bwa{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} fonts-lyx{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libblis4-serial{a} libbrotli1{a} libbsd0{a} libdb5.3t64{a} libdebhelper-perl{a} libdeflate0{a} libelf1t64{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgfortran5{a} libglib2.0-0t64{a} libgraphite2-3{a} libharfbuzz0b{a} libicu72{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-jquery-ui{a} libjs-sphinxdoc{a} libjs-underscore{a} liblapack3{a} liblbfgsb0{a} liblcms2-2{a} liblerc4{a} libmagic-mgc{a} libmagic1{a} libopenjp2-7{a} libpipeline1{a} libpng16-16t64{a} libproc2-0{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.11-dev{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libpython3.11t64{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libqhull-r8.0{a} libraqm0{a} libreadline8t64{a} libsharpyuv0{a} libssl3t64{a} libsub-override-perl{a} libtcl8.6{a} libtiff6{a} libtk8.6{a} libtool{a} libuchardet0{a} libwebp7{a} libwebpdemux2{a} libwebpmux3{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxft2{a} libxml2{a} libxrender1{a} libxslt1.1{a} libxss1{a} m4{a} man-db{a} media-types{a} netbase{a} po-debconf{a} procps{a} python-matplotlib-data{a} python3{a} python3-all{a} python3-appdirs{a} python3-attr{a} python3-brotli{a} python3-contourpy{a} python3-cycler{a} python3-dateutil{a} python3-decorator{a} python3-dev{a} python3-distutils{a} python3-fonttools{a} python3-fs{a} python3-joblib{a} python3-kiwisolver{a} python3-lib2to3{a} python3-lxml{a} python3-lz4{a} python3-matplotlib{a} python3-minimal{a} python3-mpmath{a} python3-numpy{a} python3-packaging{a} python3-pandas{a} python3-pandas-lib{a} python3-patsy{a} python3-pil{a} python3-pil.imagetk{a} python3-pkg-resources{a} python3-pubsub{a} python3-pyparsing{a} python3-scipy{a} python3-setuptools{a} python3-six{a} python3-sklearn{a} python3-sklearn-lib{a} python3-statsmodels{a} python3-statsmodels-lib{a} python3-sympy{a} python3-threadpoolctl{a} python3-tk{a} python3-tz{a} python3-ufolib2{a} python3.11{a} python3.11-dev{a} python3.11-minimal{a} python3.12{a} python3.12-minimal{a} readline-common{a} sensible-utils{a} tk8.6-blt2.5{a} tzdata{a} unicode-data{a} x11-common{a} zlib1g-dev{a} The following packages will be REMOVED: libdb5.3{a} libssl3{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl isympy-common javascript-common libarchive-cpio-perl libglib2.0-data libltdl-dev libmail-sendmail-perl lynx psmisc python3-bottleneck python3-bs4 python3-colorama python3-cssselect python3-cvxopt python3-html5lib python3-jinja2 python3-numexpr python3-odf python3-olefile python3-openpyxl python3-psutil python3-pytest python3-simplejson python3-tables shared-mime-info wget xdg-user-dirs 0 packages upgraded, 152 newly installed, 2 to remove and 0 not upgraded. Need to get 135 MB of archives. After unpacking 643 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main arm64 libdb5.3t64 arm64 5.3.28+dfsg2-7 [625 kB] Get: 2 http://deb.debian.org/debian trixie/main arm64 libssl3t64 arm64 3.2.1-3 [2537 kB] Get: 3 http://deb.debian.org/debian trixie/main arm64 libpython3.11-minimal arm64 3.11.9-1 [813 kB] Get: 4 http://deb.debian.org/debian trixie/main arm64 libexpat1 arm64 2.6.2-1 [88.7 kB] Get: 5 http://deb.debian.org/debian trixie/main arm64 python3.11-minimal arm64 3.11.9-1 [1767 kB] Get: 6 http://deb.debian.org/debian trixie/main arm64 python3-minimal arm64 3.11.8-1 [26.3 kB] Get: 7 http://deb.debian.org/debian trixie/main arm64 media-types all 10.1.0 [26.9 kB] Get: 8 http://deb.debian.org/debian trixie/main arm64 netbase all 6.4 [12.8 kB] Get: 9 http://deb.debian.org/debian trixie/main arm64 tzdata all 2024a-3 [255 kB] Get: 10 http://deb.debian.org/debian trixie/main arm64 readline-common all 8.2-4 [69.3 kB] Get: 11 http://deb.debian.org/debian trixie/main arm64 libreadline8t64 arm64 8.2-4 [157 kB] Get: 12 http://deb.debian.org/debian trixie/main arm64 libpython3.11-stdlib arm64 3.11.9-1 [1775 kB] Get: 13 http://deb.debian.org/debian trixie/main arm64 python3.11 arm64 3.11.9-1 [602 kB] Get: 14 http://deb.debian.org/debian trixie/main arm64 libpython3-stdlib arm64 3.11.8-1 [9332 B] Get: 15 http://deb.debian.org/debian trixie/main arm64 python3 arm64 3.11.8-1 [27.4 kB] Get: 16 http://deb.debian.org/debian trixie/main arm64 libpython3.12-minimal arm64 3.12.3-1 [802 kB] Get: 17 http://deb.debian.org/debian trixie/main arm64 python3.12-minimal arm64 3.12.3-1 [1931 kB] Get: 18 http://deb.debian.org/debian trixie/main arm64 libproc2-0 arm64 2:4.0.4-4 [61.7 kB] Get: 19 http://deb.debian.org/debian trixie/main arm64 procps arm64 2:4.0.4-4 [869 kB] Get: 20 http://deb.debian.org/debian trixie/main arm64 sensible-utils all 0.0.22 [22.4 kB] Get: 21 http://deb.debian.org/debian trixie/main arm64 libmagic-mgc arm64 1:5.45-2+b1 [314 kB] Get: 22 http://deb.debian.org/debian trixie/main arm64 libmagic1 arm64 1:5.45-2+b1 [100 kB] Get: 23 http://deb.debian.org/debian trixie/main arm64 file arm64 1:5.45-2+b1 [43.2 kB] Get: 24 http://deb.debian.org/debian trixie/main arm64 gettext-base arm64 0.21-14+b1 [160 kB] Get: 25 http://deb.debian.org/debian trixie/main arm64 libuchardet0 arm64 0.0.8-1+b1 [69.0 kB] Get: 26 http://deb.debian.org/debian trixie/main arm64 groff-base arm64 1.23.0-3+b1 [1126 kB] Get: 27 http://deb.debian.org/debian trixie/main arm64 bsdextrautils arm64 2.39.3-6 [90.0 kB] Get: 28 http://deb.debian.org/debian trixie/main arm64 libpipeline1 arm64 1.5.7-2 [36.5 kB] Get: 29 http://deb.debian.org/debian trixie/main arm64 man-db arm64 2.12.0-3 [1385 kB] Get: 30 http://deb.debian.org/debian trixie/main arm64 m4 arm64 1.4.19-4 [277 kB] Get: 31 http://deb.debian.org/debian trixie/main arm64 autoconf all 2.71-3 [332 kB] Get: 32 http://deb.debian.org/debian trixie/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 33 http://deb.debian.org/debian trixie/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 34 http://deb.debian.org/debian trixie/main arm64 autopoint all 0.21-14 [496 kB] Get: 35 http://deb.debian.org/debian trixie/main arm64 libtcl8.6 arm64 8.6.14+dfsg-1 [975 kB] Get: 36 http://deb.debian.org/debian trixie/main arm64 libbrotli1 arm64 1.1.0-2+b3 [295 kB] Get: 37 http://deb.debian.org/debian trixie/main arm64 libpng16-16t64 arm64 1.6.43-5 [272 kB] Get: 38 http://deb.debian.org/debian trixie/main arm64 libfreetype6 arm64 2.13.2+dfsg-1+b4 [408 kB] Get: 39 http://deb.debian.org/debian trixie/main arm64 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 40 http://deb.debian.org/debian trixie/main arm64 fonts-dejavu-core all 2.37-8 [840 kB] Get: 41 http://deb.debian.org/debian trixie/main arm64 fontconfig-config arm64 2.15.0-1.1 [317 kB] Get: 42 http://deb.debian.org/debian trixie/main arm64 libfontconfig1 arm64 2.15.0-1.1 [385 kB] Get: 43 http://deb.debian.org/debian trixie/main arm64 libxau6 arm64 1:1.0.9-1+b1 [18.1 kB] Get: 44 http://deb.debian.org/debian trixie/main arm64 libbsd0 arm64 0.12.2-1 [129 kB] Get: 45 http://deb.debian.org/debian trixie/main arm64 libxdmcp6 arm64 1:1.1.2-3+b1 [24.3 kB] Get: 46 http://deb.debian.org/debian trixie/main arm64 libxcb1 arm64 1.15-1 [143 kB] Get: 47 http://deb.debian.org/debian trixie/main arm64 libx11-data all 2:1.8.7-1 [328 kB] Get: 48 http://deb.debian.org/debian trixie/main arm64 libx11-6 arm64 2:1.8.7-1+b1 [775 kB] Get: 49 http://deb.debian.org/debian trixie/main arm64 libxrender1 arm64 1:0.9.10-1.1+b1 [27.0 kB] Get: 50 http://deb.debian.org/debian trixie/main arm64 libxft2 arm64 2.3.6-1+b1 [51.0 kB] Get: 51 http://deb.debian.org/debian trixie/main arm64 libxext6 arm64 2:1.3.4-1+b1 [51.7 kB] Get: 52 http://deb.debian.org/debian trixie/main arm64 x11-common all 1:7.7+23 [252 kB] Get: 53 http://deb.debian.org/debian trixie/main arm64 libxss1 arm64 1:1.2.3-1+b1 [17.0 kB] Get: 54 http://deb.debian.org/debian trixie/main arm64 libtk8.6 arm64 8.6.14-1 [732 kB] Get: 55 http://deb.debian.org/debian trixie/main arm64 tk8.6-blt2.5 arm64 2.5.3+dfsg-7 [533 kB] Get: 56 http://deb.debian.org/debian trixie/main arm64 blt arm64 2.5.3+dfsg-7 [6024 B] Get: 57 http://deb.debian.org/debian trixie/main arm64 bwa arm64 0.7.17-7+b3 [194 kB] Get: 58 http://deb.debian.org/debian trixie/main arm64 libdebhelper-perl all 13.15.3 [88.0 kB] Get: 59 http://deb.debian.org/debian trixie/main arm64 libtool all 2.4.7-7 [517 kB] Get: 60 http://deb.debian.org/debian trixie/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 61 http://deb.debian.org/debian trixie/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 62 http://deb.debian.org/debian trixie/main arm64 libsub-override-perl all 0.10-1 [10.6 kB] Get: 63 http://deb.debian.org/debian trixie/main arm64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 64 http://deb.debian.org/debian trixie/main arm64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 65 http://deb.debian.org/debian trixie/main arm64 libelf1t64 arm64 0.191-1+b1 [187 kB] Get: 66 http://deb.debian.org/debian trixie/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 67 http://deb.debian.org/debian trixie/main arm64 libicu72 arm64 72.1-4+b1 [9224 kB] Get: 68 http://deb.debian.org/debian trixie/main arm64 libxml2 arm64 2.9.14+dfsg-1.3+b3 [624 kB] Get: 69 http://deb.debian.org/debian trixie/main arm64 gettext arm64 0.21-14+b1 [1249 kB] Get: 70 http://deb.debian.org/debian trixie/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 71 http://deb.debian.org/debian trixie/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 72 http://deb.debian.org/debian trixie/main arm64 debhelper all 13.15.3 [901 kB] Get: 73 http://deb.debian.org/debian trixie/main arm64 python3-pkg-resources all 68.1.2-2 [241 kB] Get: 74 http://deb.debian.org/debian trixie/main arm64 python3-lib2to3 all 3.12.3-1 [77.6 kB] Get: 75 http://deb.debian.org/debian trixie/main arm64 python3-distutils all 3.12.3-1 [131 kB] Get: 76 http://deb.debian.org/debian trixie/main arm64 python3-setuptools all 68.1.2-2 [468 kB] Get: 77 http://deb.debian.org/debian trixie/main arm64 dh-python all 6.20240422 [107 kB] Get: 78 http://deb.debian.org/debian trixie/main arm64 fonts-lyx all 2.4.0~RC3-1 [189 kB] Get: 79 http://deb.debian.org/debian trixie/main arm64 libblis4-serial arm64 0.9.0-1+b2 [791 kB] Get: 80 http://deb.debian.org/debian trixie/main arm64 libdeflate0 arm64 1.20-1 [41.5 kB] Get: 81 http://deb.debian.org/debian trixie/main arm64 libexpat1-dev arm64 2.6.2-1 [278 kB] Get: 82 http://deb.debian.org/debian trixie/main arm64 libfribidi0 arm64 1.0.13-3+b1 [71.3 kB] Get: 83 http://deb.debian.org/debian trixie/main arm64 libgfortran5 arm64 14-20240330-1 [361 kB] Get: 84 http://deb.debian.org/debian trixie/main arm64 libglib2.0-0t64 arm64 2.78.4-7 [1364 kB] Get: 85 http://deb.debian.org/debian trixie/main arm64 libgraphite2-3 arm64 1.3.14-2 [69.2 kB] Get: 86 http://deb.debian.org/debian trixie/main arm64 libharfbuzz0b arm64 8.3.0-2+b1 [2178 kB] Get: 87 http://deb.debian.org/debian trixie/main arm64 libimagequant0 arm64 2.18.0-1+b1 [34.6 kB] Get: 88 http://deb.debian.org/debian trixie/main arm64 libjbig0 arm64 2.1-6.1+b1 [30.4 kB] Get: 89 http://deb.debian.org/debian trixie/main arm64 libjpeg62-turbo arm64 1:2.1.5-2+b2 [172 kB] Get: 90 http://deb.debian.org/debian trixie/main arm64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 91 http://deb.debian.org/debian trixie/main arm64 libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get: 92 http://deb.debian.org/debian trixie/main arm64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 93 http://deb.debian.org/debian trixie/main arm64 libjs-sphinxdoc all 7.2.6-6 [150 kB] Get: 94 http://deb.debian.org/debian trixie/main arm64 liblapack3 arm64 3.12.0-3 [1757 kB] Get: 95 http://deb.debian.org/debian trixie/main arm64 liblbfgsb0 arm64 3.0+dfsg.4-1+b1 [25.0 kB] Get: 96 http://deb.debian.org/debian trixie/main arm64 liblcms2-2 arm64 2.14-2+b1 [144 kB] Get: 97 http://deb.debian.org/debian trixie/main arm64 liblerc4 arm64 4.0.0+ds-4+b1 [142 kB] Get: 98 http://deb.debian.org/debian trixie/main arm64 libopenjp2-7 arm64 2.5.0-2+b3 [177 kB] Get: 99 http://deb.debian.org/debian trixie/main arm64 libpython3.11t64 arm64 3.11.9-1 [1814 kB] Get: 100 http://deb.debian.org/debian trixie/main arm64 zlib1g-dev arm64 1:1.3.dfsg-3.1 [915 kB] Get: 101 http://deb.debian.org/debian trixie/main arm64 libpython3.11-dev arm64 3.11.9-1 [4358 kB] Get: 102 http://deb.debian.org/debian trixie/main arm64 libpython3-dev arm64 3.11.8-1 [9564 B] Get: 103 http://deb.debian.org/debian trixie/main arm64 libpython3.12-stdlib arm64 3.12.3-1 [1889 kB] Get: 104 http://deb.debian.org/debian trixie/main arm64 libqhull-r8.0 arm64 2020.2-6+b1 [226 kB] Get: 105 http://deb.debian.org/debian trixie/main arm64 libraqm0 arm64 0.10.1-1+b1 [13.7 kB] Get: 106 http://deb.debian.org/debian trixie/main arm64 libsharpyuv0 arm64 1.3.2-0.4+b1 [107 kB] Get: 107 http://deb.debian.org/debian trixie/main arm64 libwebp7 arm64 1.3.2-0.4+b1 [263 kB] Get: 108 http://deb.debian.org/debian trixie/main arm64 libtiff6 arm64 4.5.1+git230720-4 [307 kB] Get: 109 http://deb.debian.org/debian trixie/main arm64 libwebpdemux2 arm64 1.3.2-0.4+b1 [107 kB] Get: 110 http://deb.debian.org/debian trixie/main arm64 libwebpmux3 arm64 1.3.2-0.4+b1 [119 kB] Get: 111 http://deb.debian.org/debian trixie/main arm64 libxslt1.1 arm64 1.1.35-1+b1 [221 kB] Get: 112 http://deb.debian.org/debian trixie/main arm64 python-matplotlib-data all 3.6.3-1 [2744 kB] Get: 113 http://deb.debian.org/debian trixie/main arm64 python3.12 arm64 3.12.3-1 [659 kB] Get: 114 http://deb.debian.org/debian trixie/main arm64 python3-all arm64 3.11.8-1 [1056 B] Get: 115 http://deb.debian.org/debian trixie/main arm64 python3-appdirs all 1.4.4-4 [12.5 kB] Get: 116 http://deb.debian.org/debian trixie/main arm64 python3-attr all 23.2.0-2 [65.5 kB] Get: 117 http://deb.debian.org/debian trixie/main arm64 python3-brotli arm64 1.1.0-2+b3 [316 kB] Get: 118 http://deb.debian.org/debian trixie/main arm64 python3-numpy arm64 1:1.24.2-2 [4122 kB] Get: 119 http://deb.debian.org/debian trixie/main arm64 python3-contourpy arm64 1.0.7-3 [247 kB] Get: 120 http://deb.debian.org/debian trixie/main arm64 python3-cycler all 0.12.1-1 [9496 B] Get: 121 http://deb.debian.org/debian trixie/main arm64 python3-six all 1.16.0-6 [16.3 kB] Get: 122 http://deb.debian.org/debian trixie/main arm64 python3-dateutil all 2.9.0-2 [79.4 kB] Get: 123 http://deb.debian.org/debian trixie/main arm64 python3-decorator all 5.1.1-5 [15.1 kB] Get: 124 http://deb.debian.org/debian trixie/main arm64 python3.11-dev arm64 3.11.9-1 [501 kB] Get: 125 http://deb.debian.org/debian trixie/main arm64 python3-dev arm64 3.11.8-1 [26.1 kB] Get: 126 http://deb.debian.org/debian trixie/main arm64 python3-scipy arm64 1.11.4-6 [17.5 MB] Get: 127 http://deb.debian.org/debian trixie/main arm64 python3-ufolib2 all 0.16.0+dfsg1-1 [32.9 kB] Get: 128 http://deb.debian.org/debian trixie/main arm64 python3-mpmath all 1.3.0-1 [419 kB] Get: 129 http://deb.debian.org/debian trixie/main arm64 python3-sympy all 1.12-7 [3869 kB] Get: 130 http://deb.debian.org/debian trixie/main arm64 python3-tz all 2024.1-2 [30.9 kB] Get: 131 http://deb.debian.org/debian trixie/main arm64 python3-fs all 2.4.16-4 [95.4 kB] Get: 132 http://deb.debian.org/debian trixie/main arm64 python3-lxml arm64 5.1.0-1 [1810 kB] Get: 133 http://deb.debian.org/debian trixie/main arm64 python3-lz4 arm64 4.0.2+dfsg-1+b3 [26.6 kB] Get: 134 http://deb.debian.org/debian trixie/main arm64 unicode-data all 15.1.0-1 [8547 kB] Get: 135 http://deb.debian.org/debian trixie/main arm64 python3-fonttools arm64 4.46.0-1 [1510 kB] Get: 136 http://deb.debian.org/debian trixie/main arm64 python3-joblib all 1.3.2-2 [218 kB] Get: 137 http://deb.debian.org/debian trixie/main arm64 python3-kiwisolver arm64 1.4.5-1 [75.0 kB] Get: 138 http://deb.debian.org/debian trixie/main arm64 python3-pil arm64 10.3.0-2 [552 kB] Get: 139 http://deb.debian.org/debian trixie/main arm64 python3-tk arm64 3.12.3-1 [110 kB] Get: 140 http://deb.debian.org/debian trixie/main arm64 python3-pil.imagetk arm64 10.3.0-2 [80.0 kB] Get: 141 http://deb.debian.org/debian trixie/main arm64 python3-pyparsing all 3.1.2-1 [146 kB] Get: 142 http://deb.debian.org/debian trixie/main arm64 python3-packaging all 24.0-1 [45.5 kB] Get: 143 http://deb.debian.org/debian trixie/main arm64 python3-matplotlib arm64 3.6.3-1+b2 [7970 kB] Get: 144 http://deb.debian.org/debian trixie/main arm64 python3-pandas-lib arm64 2.1.4+dfsg-5 [6620 kB] Get: 145 http://deb.debian.org/debian trixie/main arm64 python3-pandas all 2.1.4+dfsg-5 [3015 kB] Get: 146 http://deb.debian.org/debian trixie/main arm64 python3-patsy all 0.5.6-1 [173 kB] Get: 147 http://deb.debian.org/debian trixie/main arm64 python3-pubsub all 4.0.3-7 [46.7 kB] Get: 148 http://deb.debian.org/debian trixie/main arm64 python3-threadpoolctl all 3.1.0-1 [21.2 kB] Get: 149 http://deb.debian.org/debian trixie/main arm64 python3-sklearn-lib arm64 1.4.1.post1+dfsg-1 [5691 kB] Get: 150 http://deb.debian.org/debian trixie/main arm64 python3-sklearn all 1.4.1.post1+dfsg-1 [2246 kB] Get: 151 http://deb.debian.org/debian trixie/main arm64 python3-statsmodels-lib arm64 0.14.1+dfsg-2 [2104 kB] Get: 152 http://deb.debian.org/debian trixie/main arm64 python3-statsmodels all 0.14.1+dfsg-2 [4826 kB] Fetched 135 MB in 1s (145 MB/s) debconf: delaying package configuration, since apt-utils is not installed dpkg: libdb5.3:arm64: dependency problems, but removing anyway as you requested: libperl5.38:arm64 depends on libdb5.3. libpam-modules:arm64 depends on libdb5.3. (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 ... 19941 files and directories currently installed.) Removing libdb5.3:arm64 (5.3.28+dfsg2-4+b1) ... Selecting previously unselected package libdb5.3t64: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 ... 19934 files and directories currently installed.) Preparing to unpack .../libdb5.3t64_5.3.28+dfsg2-7_arm64.deb ... Unpacking libdb5.3t64:arm64 (5.3.28+dfsg2-7) ... Setting up libdb5.3t64:arm64 (5.3.28+dfsg2-7) ... dpkg: libssl3:arm64: dependency problems, but removing anyway as you requested: libkrb5-3:arm64 depends on libssl3 (>= 3.0.0). coreutils depends on libssl3 (>= 3.0.0). (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 ... 19940 files and directories currently installed.) Removing libssl3:arm64 (3.1.5-1) ... Selecting previously unselected package libssl3t64: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 ... 19927 files and directories currently installed.) Preparing to unpack .../libssl3t64_3.2.1-3_arm64.deb ... Unpacking libssl3t64:arm64 (3.2.1-3) ... Setting up libssl3t64:arm64 (3.2.1-3) ... Selecting previously unselected package libpython3.11-minimal: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 ... 19942 files and directories currently installed.) Preparing to unpack .../libpython3.11-minimal_3.11.9-1_arm64.deb ... Unpacking libpython3.11-minimal:arm64 (3.11.9-1) ... Selecting previously unselected package libexpat1:arm64. Preparing to unpack .../libexpat1_2.6.2-1_arm64.deb ... Unpacking libexpat1:arm64 (2.6.2-1) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../python3.11-minimal_3.11.9-1_arm64.deb ... Unpacking python3.11-minimal (3.11.9-1) ... Setting up libpython3.11-minimal:arm64 (3.11.9-1) ... Setting up libexpat1:arm64 (2.6.2-1) ... Setting up python3.11-minimal (3.11.9-1) ... Selecting previously unselected package python3-minimal. (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 ... 20258 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.11.8-1_arm64.deb ... Unpacking python3-minimal (3.11.8-1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../2-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package tzdata. Preparing to unpack .../3-tzdata_2024a-3_all.deb ... Unpacking tzdata (2024a-3) ... Selecting previously unselected package readline-common. Preparing to unpack .../4-readline-common_8.2-4_all.deb ... Unpacking readline-common (8.2-4) ... Selecting previously unselected package libreadline8t64:arm64. Preparing to unpack .../5-libreadline8t64_8.2-4_arm64.deb ... 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Setting up libpython3.12-minimal:arm64 (3.12.3-1) ... Setting up x11-common (1:7.7+23) ... invoke-rc.d: could not determine current runlevel Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libmagic1:arm64 (1:5.45-2+b1) ... Setting up libdeflate0:arm64 (1.20-1) ... Setting up gettext-base (0.21-14+b1) ... Setting up m4 (1.4.19-4) ... Setting up libqhull-r8.0:arm64 (2020.2-6+b1) ... Setting up libblis4-serial:arm64 (0.9.0-1+b2) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/blis-serial/libblis.so.4 to provide /usr/lib/aarch64-linux-gnu/libblis.so.4 (libblis.so.4-aarch64-linux-gnu) in auto mode update-alternatives: using /usr/lib/aarch64-linux-gnu/blis-serial/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode Setting up file (1:5.45-2+b1) ... Setting up libjbig0:arm64 (2.1-6.1+b1) ... Setting up libelf1t64:arm64 (0.191-1+b1) ... Setting up tzdata (2024a-3) ... Current default time zone: 'Etc/UTC' Local time is now: Sun Jun 1 21:47:41 UTC 2025. Universal Time is now: Sun Jun 1 21:47:41 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up unicode-data (15.1.0-1) ... Setting up autotools-dev (20220109.1) ... Setting up libglib2.0-0t64:arm64 (2.78.4-7) ... No schema files found: doing nothing. Setting up libexpat1-dev:arm64 (2.6.2-1) ... Setting up libjpeg62-turbo:arm64 (1:2.1.5-2+b2) ... Setting up libx11-data (2:1.8.7-1) ... Setting up libfribidi0:arm64 (1.0.13-3+b1) ... Setting up libimagequant0:arm64 (2.18.0-1+b1) ... Setting up libproc2-0:arm64 (2:4.0.4-4) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libpng16-16t64:arm64 (1.6.43-5) ... Setting up libtcl8.6:arm64 (8.6.14+dfsg-1) ... Setting up autopoint (0.21-14) ... Setting up fonts-dejavu-core (2.37-8) ... Setting up libgfortran5:arm64 (14-20240330-1) ... Setting up autoconf (2.71-3) ... Setting up libwebp7:arm64 (1.3.2-0.4+b1) ... 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Setting up liblapack3:arm64 (3.12.0-3) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode Setting up libxcb1:arm64 (1.15-1) ... Setting up gettext (0.21-14+b1) ... Setting up libtool (2.4.7-7) ... Setting up fontconfig-config (2.15.0-1.1) ... Setting up libwebpdemux2:arm64 (1.3.2-0.4+b1) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... Setting up libfreetype6:arm64 (2.13.2+dfsg-1+b4) ... Setting up libjs-sphinxdoc (7.2.6-6) ... Setting up libreadline8t64:arm64 (8.2-4) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up groff-base (1.23.0-3+b1) ... Setting up libxslt1.1:arm64 (1.1.35-1+b1) ... Setting up libx11-6:arm64 (2:1.8.7-1+b1) ... Setting up libharfbuzz0b:arm64 (8.3.0-2+b1) ... Setting up libfontconfig1:arm64 (2.15.0-1.1) ... Setting up liblbfgsb0:arm64 (3.0+dfsg.4-1+b1) ... Setting up libpython3.12-stdlib:arm64 (3.12.3-1) ... Setting up libxrender1:arm64 (1:0.9.10-1.1+b1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpython3.11-stdlib:arm64 (3.11.9-1) ... Setting up python3.12 (3.12.3-1) ... Setting up libpython3.11t64:arm64 (3.11.9-1) ... Setting up libxext6:arm64 (2:1.3.4-1+b1) ... Setting up man-db (2.12.0-3) ... Not building database; man-db/auto-update is not 'true'. Setting up libpython3.11-dev:arm64 (3.11.9-1) ... Setting up libraqm0:arm64 (0.10.1-1+b1) ... Setting up libxss1:arm64 (1:1.2.3-1+b1) ... Setting up libpython3-stdlib:arm64 (3.11.8-1) ... Setting up python3.11 (3.11.9-1) ... Setting up libxft2:arm64 (2.3.6-1+b1) ... Setting up libpython3-dev:arm64 (3.11.8-1) ... Setting up python3.11-dev (3.11.9-1) ... Setting up libtk8.6:arm64 (8.6.14-1) ... Setting up debhelper (13.15.3) ... Setting up python3 (3.11.8-1) ... Setting up python3-tz (2024.1-2) ... Setting up python3-six (1.16.0-6) ... Setting up python3-pil:arm64 (10.3.0-2) ... Setting up python3-decorator (5.1.1-5) ... Setting up python3-packaging (24.0-1) ... Setting up python3-pyparsing (3.1.2-1) ... Setting up python3-brotli (1.1.0-2+b3) ... Setting up python3-cycler (0.12.1-1) ... Setting up python3-kiwisolver (1.4.5-1) ... Setting up python3-pubsub (4.0.3-7) ... Setting up python3-lxml:arm64 (5.1.0-1) ... Setting up python3-dateutil (2.9.0-2) ... Setting up python3-mpmath (1.3.0-1) ... Setting up python3-lib2to3 (3.12.3-1) ... Setting up python3-appdirs (1.4.4-4) ... Setting up python3-pkg-resources (68.1.2-2) ... Setting up python3-distutils (3.12.3-1) ... python3.12: can't get files for byte-compilation Setting up python3-sympy (1.12-7) ... Setting up python3-attr (23.2.0-2) ... Setting up tk8.6-blt2.5 (2.5.3+dfsg-7) ... Setting up python3-setuptools (68.1.2-2) ... Setting up python3-joblib (1.3.2-2) ... Setting up python3-lz4 (4.0.2+dfsg-1+b3) ... Setting up blt (2.5.3+dfsg-7) ... Setting up python3-threadpoolctl (3.1.0-1) ... Setting up python3-all (3.11.8-1) ... Setting up python3-tk:arm64 (3.12.3-1) ... Setting up python3-fs (2.4.16-4) ... Setting up python3-pil.imagetk:arm64 (10.3.0-2) ... Setting up python3-dev (3.11.8-1) ... Setting up python3-numpy (1:1.24.2-2) ... Setting up python3-contourpy (1.0.7-3) ... Setting up python3-statsmodels-lib:arm64 (0.14.1+dfsg-2) ... Setting up dh-python (6.20240422) ... Setting up python3-scipy (1.11.4-6) ... Setting up python3-pandas-lib:arm64 (2.1.4+dfsg-5) ... Setting up python3-sklearn-lib:arm64 (1.4.1.post1+dfsg-1) ... Setting up python3-patsy (0.5.6-1) ... Setting up python3-pandas (2.1.4+dfsg-5) ... Setting up python3-sklearn (1.4.1.post1+dfsg-1) ... Setting up python3-statsmodels (0.14.1+dfsg-2) ... Setting up python3-fonttools (4.46.0-1) ... Setting up python3-ufolib2 (0.16.0+dfsg1-1) ... Setting up python3-matplotlib (3.6.3-1+b2) ... Processing triggers for libc-bin (2.37-18) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: user script /srv/workspace/pbuilder/2221546/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for trixie I: user script /srv/workspace/pbuilder/2221546/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/tnseq-transit-3.3.4/ && 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 > ../tnseq-transit_3.3.4-1_source.changes dpkg-buildpackage: info: source package tnseq-transit dpkg-buildpackage: info: source version 3.3.4-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean --buildsystem=pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/tnseq-transit-3.3.4' dh_auto_clean I: pybuild base:311: python3.11 setup.py clean running clean removing '/build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build' (and everything under it) 'build/bdist.linux-aarch64' does not exist -- can't clean it 'build/scripts-3.11' does not exist -- can't clean it rm -rf tests_invalid_data rm -rf tnseq_transit.egg-info make[1]: Leaving directory '/build/reproducible-path/tnseq-transit-3.3.4' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/tnseq-transit-3.3.4' mkdir -p tests_invalid_data if [ -L tests/H37Rv.fna ] && ! [ -e tests/H37Rv.fna ] \ ; then mv tests/H37Rv.fna tests_invalid_data \ ; fi dh_auto_configure I: pybuild base:311: python3.11 setup.py config running config make[1]: Leaving directory '/build/reproducible-path/tnseq-transit-3.3.4' dh_auto_build -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3 setup.py build running build running build_py creating /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit copying src/pytransit/view_trash.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit copying src/pytransit/trash.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit copying src/pytransit/transit_tools.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit copying src/pytransit/transit_gui.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit copying src/pytransit/tnseq_tools.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit copying src/pytransit/stat_tools.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit copying src/pytransit/qcDisplay.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit copying src/pytransit/norm_tools.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit copying src/pytransit/images.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit copying src/pytransit/fileDisplay.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit copying src/pytransit/draw_trash.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit copying src/pytransit/__main__.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit copying src/pytransit/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit creating /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytpp copying src/pytpp/tpp_tools.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytpp copying src/pytpp/tpp_gui.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytpp copying src/pytpp/__main__.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytpp copying src/pytpp/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytpp creating /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/export copying src/pytransit/export/prot_table.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/export copying src/pytransit/export/mean_counts.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/export copying src/pytransit/export/igv.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/export copying src/pytransit/export/combined_wig.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/export copying src/pytransit/export/base.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/export copying src/pytransit/export/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/export creating /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/convert copying src/pytransit/convert/gff_to_prot_table.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/convert copying src/pytransit/convert/base.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/convert copying src/pytransit/convert/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/convert creating /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/zinb.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/utest.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/ttnfitness.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/tnseq_stats.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/tn5gaps.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/resampling.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/rankproduct.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/pathway_enrichment.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/normalize.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/norm.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/hmm.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/heatmap.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/gumbel.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/griffin.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/gi.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/example.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/corrplot.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/binomial.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/base.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/anova.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis copying src/pytransit/analysis/CGI.py -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis running egg_info creating tnseq_transit.egg-info writing tnseq_transit.egg-info/PKG-INFO writing dependency_links to tnseq_transit.egg-info/dependency_links.txt writing entry points to tnseq_transit.egg-info/entry_points.txt writing requirements to tnseq_transit.egg-info/requires.txt writing top-level names to tnseq_transit.egg-info/top_level.txt writing manifest file 'tnseq_transit.egg-info/SOURCES.txt' reading manifest file 'tnseq_transit.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'VERSION' warning: no files found matching '*.html' under directory 'src/pytransit/doc/build/html' warning: no files found matching '*.png' under directory 'src/pytransit/doc/build/html/_images' warning: no files found matching '*' under directory 'src/pytransit/doc/build/html/_modules' warning: no files found matching '*' under directory 'src/pytransit/doc/build/html/_static' adding license file 'LICENSE.md' writing manifest file 'tnseq_transit.egg-info/SOURCES.txt' /usr/lib/python3/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'pytransit.data' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pytransit.data' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pytransit.data' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pytransit.data' to be distributed and are already explicitly excluding 'pytransit.data' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'pytransit.data.CGI' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pytransit.data.CGI' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pytransit.data.CGI' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pytransit.data.CGI' to be distributed and are already explicitly excluding 'pytransit.data.CGI' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'pytransit.genomes' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pytransit.genomes' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pytransit.genomes' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pytransit.genomes' to be distributed and are already explicitly excluding 'pytransit.genomes' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) creating /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/COG_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/GO_associated_Rvs-3-11-18.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/GO_associated_Rvs.csv -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/GO_term_names.dat -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/GO_terms_for_each_Rv.obo-3-11-18.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/H37Rv.sanger_associated_RVS.csv -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/H37Rv_COG_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/H37Rv_GO_terms.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/H37Rv_sanger_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/README.md -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/cholesterol_H37Rv_merged.wig -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/cholesterol_H37Rv_rep1.wig -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/cholesterol_H37Rv_rep2.wig -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/cholesterol_H37Rv_rep3.wig -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/cholesterol_glycerol_combined.dat -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/gene_ontology.1_2.3-11-18.obo -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/glycerol_H37Rv_merged.wig -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/glycerol_H37Rv_rep1.wig -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/glycerol_H37Rv_rep2.wig -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/iron_combined_wig4.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/iron_samples_metadata.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/samples_metadata_cg.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/samples_metadata_cg_covar.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/samples_metadata_cg_interactions.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/sanger_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/smeg_COG_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data copying src/pytransit/data/smeg_GO_terms.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data creating /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI copying src/pytransit/data/CGI/IDs.H37Rv.CRISPRi.lib.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI copying src/pytransit/data/CGI/RIF_D1_combined_counts.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI copying src/pytransit/data/CGI/samples_metadata.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI copying src/pytransit/data/CGI/sgRNA_info.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI copying src/pytransit/data/CGI/temp_cdr.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI copying src/pytransit/data/CGI/temp_frac_abund.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI copying src/pytransit/data/CGI/uninduced_ATC_counts.txt -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI creating /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes copying src/pytransit/genomes/BCG.fna -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes copying src/pytransit/genomes/BCG.prot_table -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes copying src/pytransit/genomes/H37Rv.fna -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes copying src/pytransit/genomes/H37Rv.prot_table -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes copying src/pytransit/genomes/H37RvBD.fna -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes copying src/pytransit/genomes/H37RvBD.prot_table -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes copying src/pytransit/genomes/H37RvBD_mod3.prot_table -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes copying src/pytransit/genomes/H37RvMA2.fna -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes copying src/pytransit/genomes/H37RvMA2.prot_table -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes copying src/pytransit/genomes/genomes.html -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes copying src/pytransit/genomes/mc2_155_tamu.fna -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes copying src/pytransit/genomes/mc2_155_tamu.prot_table -> /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/tnseq-transit-3.3.4' dh_auto_test -- --system=custom --test-args="PYTHONPATH=tests {interpreter} -m unittest -v tests/*.py" I: pybuild base:311: PYTHONPATH=tests python3.11 -m unittest -v tests/*.py test_Binomial (tests.test_analysis_methods.TestMethods.test_Binomial) ... /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/glycerol_H37Rv_rep1.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/glycerol_H37Rv_rep2.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/glycerol_H37Rv_rep1.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/glycerol_H37Rv_rep2.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:1290: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/data/test.prot_table' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:1217: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/data/test.prot_table' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:521: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/data/test.prot_table' mode='r' encoding='UTF-8'> for line in open(self.annotation): ResourceWarning: Enable tracemalloc to get the object allocation traceback #################### tests.test_analysis_methods.TestMethods.test_Binomial #################### [binomial] Starting Binomial Method [binomial] Getting Data [binomial] Setting Parameters [binomial] Setting Initial Values [binomial] Running Binomial Method... 0.2% [binomial] Running Binomial Method... 0.3% [binomial] Running Binomial Method... 0.4% [binomial] Running Binomial Method... 0.5% [binomial] Running Binomial Method... 0.5% [binomial] Running Binomial Method... 0.6% [binomial] Running Binomial Method... 0.7% [binomial] Running Binomial Method... 0.8% [binomial] Running Binomial Method... 0.9% [binomial] Running Binomial Method... 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Running Binomial Method... 54.8% [binomial] Running Binomial Method... 54.9% [binomial] Running Binomial Method... 55.0% [binomial] Running Binomial Method... 55.1% [binomial] Running Binomial Method... 55.2% [binomial] Running Binomial Method... 55.3% [binomial] Running Binomial Method... 55.4% [binomial] Running Binomial Method... 55.5% [binomial] Running Binomial Method... 55.5% [binomial] Running Binomial Method... 55.6% [binomial] Running Binomial Method... 55.7% [binomial] Running Binomial Method... 55.8% [binomial] Running Binomial Method... 55.9% [binomial] Running Binomial Method... 56.0% [binomial] Running Binomial Method... 56.1% [binomial] Running Binomial Method... 56.2% [binomial] Running Binomial Method... 56.3% [binomial] Running Binomial Method... 56.4% [binomial] Running Binomial Method... 56.5% [binomial] Running Binomial Method... 56.5% [binomial] Running Binomial Method... 56.6% [binomial] Running Binomial Method... 56.7% [binomial] Running Binomial Method... 56.8% 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Running Binomial Method... 61.0% [binomial] Running Binomial Method... 61.1% [binomial] Running Binomial Method... 61.2% [binomial] Running Binomial Method... 61.3% [binomial] Running Binomial Method... 61.4% [binomial] Running Binomial Method... 61.5% [binomial] Running Binomial Method... 61.5% [binomial] Running Binomial Method... 61.6% [binomial] Running Binomial Method... 61.7% [binomial] Running Binomial Method... 61.8% [binomial] Running Binomial Method... 61.9% [binomial] Running Binomial Method... 62.0% [binomial] Running Binomial Method... 62.1% [binomial] Running Binomial Method... 62.2% [binomial] Running Binomial Method... 62.3% [binomial] Running Binomial Method... 62.4% [binomial] Running Binomial Method... 62.5% [binomial] Running Binomial Method... 62.5% [binomial] Running Binomial Method... 62.6% [binomial] Running Binomial Method... 62.7% [binomial] Running Binomial Method... 62.8% [binomial] Running Binomial Method... 62.9% [binomial] Running Binomial Method... 63.0% 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Running Binomial Method... 67.2% [binomial] Running Binomial Method... 67.3% [binomial] Running Binomial Method... 67.4% [binomial] Running Binomial Method... 67.5% [binomial] Running Binomial Method... 67.5% [binomial] Running Binomial Method... 67.6% [binomial] Running Binomial Method... 67.7% [binomial] Running Binomial Method... 67.8% [binomial] Running Binomial Method... 67.9% [binomial] Running Binomial Method... 68.0% [binomial] Running Binomial Method... 68.1% [binomial] Running Binomial Method... 68.2% [binomial] Running Binomial Method... 68.3% [binomial] Running Binomial Method... 68.4% [binomial] Running Binomial Method... 68.5% [binomial] Running Binomial Method... 68.5% [binomial] Running Binomial Method... 68.6% [binomial] Running Binomial Method... 68.7% [binomial] Running Binomial Method... 68.8% [binomial] Running Binomial Method... 68.9% [binomial] Running Binomial Method... 69.0% [binomial] Running Binomial Method... 69.1% [binomial] Running Binomial Method... 69.2% [binomial] Running Binomial Method... 69.3% [binomial] Running Binomial Method... 69.4% [binomial] Running Binomial Method... 69.5% [binomial] Running Binomial Method... 69.5% [binomial] Running Binomial Method... 69.6% [binomial] Running Binomial Method... 69.7% [binomial] Running Binomial Method... 69.8% [binomial] Running Binomial Method... 69.9% [binomial] Running Binomial Method... 70.0% [binomial] Running Binomial Method... 70.1% [binomial] Running Binomial Method... 70.2% [binomial] Running Binomial Method... 70.3% [binomial] Running Binomial Method... 70.4% [binomial] Running Binomial Method... 70.5% [binomial] Running Binomial Method... 70.5% [binomial] Running Binomial Method... 70.6% [binomial] Running Binomial Method... 70.7% [binomial] Running Binomial Method... 70.8% [binomial] Running Binomial Method... 70.9% [binomial] Running Binomial Method... 71.0% [binomial] Running Binomial Method... 71.1% [binomial] Running Binomial Method... 71.2% [binomial] Running Binomial 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Running Binomial Method... 73.4% [binomial] Running Binomial Method... 73.5% [binomial] Running Binomial Method... 73.5% [binomial] Running Binomial Method... 73.6% [binomial] Running Binomial Method... 73.7% [binomial] Running Binomial Method... 73.8% [binomial] Running Binomial Method... 73.9% [binomial] Running Binomial Method... 74.0% [binomial] Running Binomial Method... 74.1% [binomial] Running Binomial Method... 74.2% [binomial] Running Binomial Method... 74.3% [binomial] Running Binomial Method... 74.4% [binomial] Running Binomial Method... 74.5% [binomial] Running Binomial Method... 74.5% [binomial] Running Binomial Method... 74.6% [binomial] Running Binomial Method... 74.7% [binomial] Running Binomial Method... 74.8% [binomial] Running Binomial Method... 74.9% [binomial] Running Binomial Method... 75.0% [binomial] Running Binomial Method... 75.1% [binomial] Running Binomial Method... 75.2% [binomial] Running Binomial Method... 75.3% [binomial] Running Binomial Method... 75.4% 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Method... 77.5% [binomial] Running Binomial Method... 77.5% [binomial] Running Binomial Method... 77.6% [binomial] Running Binomial Method... 77.7% [binomial] Running Binomial Method... 77.8% [binomial] Running Binomial Method... 77.9% [binomial] Running Binomial Method... 78.0% [binomial] Running Binomial Method... 78.1% [binomial] Running Binomial Method... 78.2% [binomial] Running Binomial Method... 78.3% [binomial] Running Binomial Method... 78.4% [binomial] Running Binomial Method... 78.5% [binomial] Running Binomial Method... 78.5% [binomial] Running Binomial Method... 78.6% [binomial] Running Binomial Method... 78.7% [binomial] Running Binomial Method... 78.8% [binomial] Running Binomial Method... 78.9% [binomial] Running Binomial Method... 79.0% [binomial] Running Binomial Method... 79.1% [binomial] Running Binomial Method... 79.2% [binomial] Running Binomial Method... 79.3% [binomial] Running Binomial Method... 79.4% [binomial] Running Binomial Method... 79.5% [binomial] Running Binomial Method... 79.5% [binomial] Running Binomial Method... 79.6% [binomial] Running Binomial Method... 79.7% [binomial] Running Binomial Method... 79.8% [binomial] Running Binomial Method... 79.9% [binomial] Running Binomial Method... 80.0% [binomial] Running Binomial Method... 80.1% [binomial] Running Binomial Method... 80.2% [binomial] Running Binomial Method... 80.3% [binomial] Running Binomial Method... 80.4% [binomial] Running Binomial Method... 80.5% [binomial] Running Binomial Method... 80.5% [binomial] Running Binomial Method... 80.6% [binomial] Running Binomial Method... 80.7% [binomial] Running Binomial Method... 80.8% [binomial] Running Binomial Method... 80.9% [binomial] Running Binomial Method... 81.0% [binomial] Running Binomial Method... 81.1% [binomial] Running Binomial Method... 81.2% [binomial] Running Binomial Method... 81.3% [binomial] Running Binomial Method... 81.4% [binomial] Running Binomial Method... 81.5% [binomial] Running Binomial Method... 81.5% 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Running Binomial Method... 85.7% [binomial] Running Binomial Method... 85.8% [binomial] Running Binomial Method... 85.9% [binomial] Running Binomial Method... 86.0% [binomial] Running Binomial Method... 86.1% [binomial] Running Binomial Method... 86.2% [binomial] Running Binomial Method... 86.3% [binomial] Running Binomial Method... 86.4% [binomial] Running Binomial Method... 86.5% [binomial] Running Binomial Method... 86.5% [binomial] Running Binomial Method... 86.6% [binomial] Running Binomial Method... 86.7% [binomial] Running Binomial Method... 86.8% [binomial] Running Binomial Method... 86.9% [binomial] Running Binomial Method... 87.0% [binomial] Running Binomial Method... 87.1% [binomial] Running Binomial Method... 87.2% [binomial] Running Binomial Method... 87.3% [binomial] Running Binomial Method... 87.4% [binomial] Running Binomial Method... 87.5% [binomial] Running Binomial Method... 87.5% [binomial] Running Binomial Method... 87.6% [binomial] Running Binomial Method... 87.7% 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Running Binomial Method... 91.9% [binomial] Running Binomial Method... 92.0% [binomial] Running Binomial Method... 92.1% [binomial] Running Binomial Method... 92.2% [binomial] Running Binomial Method... 92.3% [binomial] Running Binomial Method... 92.4% [binomial] Running Binomial Method... 92.5% [binomial] Running Binomial Method... 92.5% [binomial] Running Binomial Method... 92.6% [binomial] Running Binomial Method... 92.7% [binomial] Running Binomial Method... 92.8% [binomial] Running Binomial Method... 92.9% [binomial] Running Binomial Method... 93.0% [binomial] Running Binomial Method... 93.1% [binomial] Running Binomial Method... 93.2% [binomial] Running Binomial Method... 93.3% [binomial] Running Binomial Method... 93.4% [binomial] Running Binomial Method... 93.5% [binomial] Running Binomial Method... 93.5% [binomial] Running Binomial Method... 93.6% [binomial] Running Binomial Method... 93.7% [binomial] Running Binomial Method... 93.8% [binomial] Running Binomial Method... 93.9% [binomial] Running Binomial Method... 94.0% [binomial] Running Binomial Method... 94.1% [binomial] Running Binomial Method... 94.2% [binomial] Running Binomial Method... 94.3% [binomial] Running Binomial Method... 94.4% [binomial] Running Binomial Method... 94.5% [binomial] Running Binomial Method... 94.5% [binomial] Running Binomial Method... 94.6% [binomial] Running Binomial Method... 94.7% [binomial] Running Binomial Method... 94.8% [binomial] Running Binomial Method... 94.9% [binomial] Running Binomial Method... 95.0% [binomial] Running Binomial Method... 95.1% [binomial] Running Binomial Method... 95.2% [binomial] Running Binomial Method... 95.3% [binomial] Running Binomial Method... 95.4% [binomial] Running Binomial Method... 95.5% [binomial] Running Binomial Method... 95.5% [binomial] Running Binomial Method... 95.6% [binomial] Running Binomial Method... 95.7% [binomial] Running Binomial Method... 95.8% [binomial] Running Binomial Method... 95.9% [binomial] Running Binomial Method... 96.0% [binomial] Running Binomial Method... 96.1% [binomial] Running Binomial Method... 96.2% [binomial] Running Binomial Method... 96.3% [binomial] Running Binomial Method... 96.4% [binomial] Running Binomial Method... 96.5% [binomial] Running Binomial Method... 96.5% [binomial] Running Binomial Method... 96.6% [binomial] Running Binomial Method... 96.7% [binomial] Running Binomial Method... 96.8% [binomial] Running Binomial Method... 96.9% [binomial] Running Binomial Method... 97.0% [binomial] Running Binomial Method... 97.1% [binomial] Running Binomial Method... 97.2% [binomial] Running Binomial Method... 97.3% [binomial] Running Binomial Method... 97.4% [binomial] Running Binomial Method... 97.5% [binomial] Running Binomial Method... 97.5% [binomial] Running Binomial Method... 97.6% [binomial] Running Binomial Method... 97.7% [binomial] Running Binomial Method... 97.8% [binomial] Running Binomial Method... 97.9% [binomial] Running Binomial Method... 98.0% [binomial] Running Binomial Method... 98.1% [binomial] Running Binomial Method... 98.2% [binomial] Running Binomial Method... 98.3% [binomial] Running Binomial Method... 98.4% [binomial] Running Binomial Method... 98.5% [binomial] Running Binomial Method... 98.5% [binomial] Running Binomial Method... 98.6% [binomial] Running Binomial Method... 98.7% [binomial] Running Binomial Method... 98.8% [binomial] Running Binomial Method... 98.9% [binomial] Running Binomial Method... 99.0% [binomial] Running Binomial Method... 99.1% [binomial] Running Binomial Method... 99.2% [binomial] Running Binomial Method... 99.3% [binomial] Running Binomial Method... 99.4% [binomial] Running Binomial Method... 99.5% [binomial] Running Binomial Method... 99.5% [binomial] Running Binomial Method... 99.6% [binomial] Running Binomial Method... 99.7% [binomial] Running Binomial Method... 99.8% [binomial] Running Binomial Method... 99.9% [binomial] Running Binomial Method... 100.0% ok test_GI (tests.test_analysis_methods.TestMethods.test_GI) ... /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/cholesterol_H37Rv_rep1.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/cholesterol_H37Rv_rep2.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/cholesterol_H37Rv_rep3.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/cholesterol_H37Rv_rep1.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/cholesterol_H37Rv_rep2.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/cholesterol_H37Rv_rep3.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback [binomial] [binomial] Adding File: /build/reproducible-path/tnseq-transit-3.3.4/tests/testoutput.txt [binomial] Finished Binomial Method Removing output file... #################### tests.test_analysis_methods.TestMethods.test_GI #################### [gi] Starting Genetic Interactions Method [gi] Getting Data [gi] Normalizing using: TTR [gi] Running GI Method... 2% [gi] analyzing Rv0244c (0.0% done) [gi] Running GI Method... 4% [gi] analyzing Rv0362 (2.0% done) [gi] Running GI Method... 6% [gi] analyzing Rv0450c (4.0% done) [gi] Running GI Method... 8% [gi] analyzing Rv0485 (6.0% done) [gi] Running GI Method... 10% [gi] analyzing Rv0694 (8.0% done) [gi] Running GI Method... 12% [gi] analyzing Rv0761c (10.0% done) [gi] Running GI Method... 14% [gi] analyzing Rv1129c (12.0% done) [gi] Running GI Method... 16% [gi] analyzing Rv1130 (14.0% done) [gi] Running GI Method... 18% [gi] analyzing Rv1183 (16.0% done) [gi] Running GI Method... 20% [gi] analyzing Rv1428c (18.0% done) [gi] Running GI Method... 22% [gi] analyzing Rv3200c (20.0% done) [gi] Running GI Method... 24% [gi] analyzing Rv3559c (22.0% done) [gi] Running GI Method... 25% [gi] analyzing Rv3564 (24.0% done) [gi] Running GI Method... 27% [gi] analyzing Rv3575c (26.0% done) [gi] Running GI Method... 29% [gi] analyzing Rv0381c (28.0% done) [gi] Running GI Method... 31% [gi] analyzing Rv1432 (30.0% done) [gi] Running GI Method... 33% [gi] analyzing Rv3543c (32.0% done) [gi] Running GI Method... 35% [gi] analyzing Rv3570c (34.0% done) [gi] Running GI Method... 37% [gi] analyzing Rv0495c (36.0% done) [gi] Running GI Method... 39% [gi] analyzing Rv0805 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[gi] Running GI Method... 71% [gi] analyzing Rv2567 (70.0% done) [gi] Running GI Method... 73% [gi] analyzing Rv2887 (72.0% done) [gi] Running GI Method... 75% [gi] analyzing Rv3005c (74.0% done) [gi] Running GI Method... 76% [gi] analyzing Rv1111c (76.0% done) [gi] Running GI Method... 78% [gi] analyzing Rv1072 (78.0% done) [gi] Running GI Method... 80% [gi] analyzing Rv2958c (80.0% done) [gi] Running GI Method... 82% [gi] analyzing Rv3552 (82.0% done) [gi] Running GI Method... 84% [gi] analyzing Rv0129c (84.0% done) [gi] Running GI Method... 86% [gi] analyzing Rv1821 (86.0% done) [gi] Running GI Method... 88% [gi] analyzing Rv2224c (88.0% done) [gi] Running GI Method... 90% [gi] analyzing Rv3567c (90.0% done) [gi] Running GI Method... 92% [gi] analyzing Rv0924c (92.0% done) [gi] Running GI Method... 94% [gi] analyzing Rv0249c (94.0% done) [gi] Running GI Method... 96% [gi] analyzing Rv2021c (96.0% done) [gi] Running GI Method... 98% [gi] analyzing Rv2694c (98.0% done) [gi] Running GI Method... 100% /usr/lib/python3.11/unittest/case.py:579: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/testoutput.txt' mode='w' encoding='UTF-8'> if method() is not None: ResourceWarning: Enable tracemalloc to get the object allocation traceback ok test_Griffin (tests.test_analysis_methods.TestMethods.test_Griffin) ... [gi] analyzing Rv3586 (100.0% done) [gi] Adding File: /build/reproducible-path/tnseq-transit-3.3.4/tests/testoutput.txt [gi] Finished Genetic Interactions Method Removing output file... #################### tests.test_analysis_methods.TestMethods.test_Griffin #################### [griffin] Starting Griffin Method [griffin] Getting Data [griffin] Running Griffin Method... 2.0% [griffin] Running Griffin Method... 3.9% [griffin] Running Griffin Method... 5.9% [griffin] Running Griffin Method... 7.8% [griffin] Running Griffin Method... 9.8% [griffin] Running Griffin Method... 11.8% [griffin] Running Griffin Method... 13.7% [griffin] Running Griffin Method... 15.7% [griffin] Running Griffin Method... 17.6% [griffin] Running Griffin Method... 19.6% [griffin] Running Griffin Method... 21.6% [griffin] Running Griffin Method... 23.5% [griffin] Running Griffin Method... 25.5% [griffin] Running Griffin Method... 27.5% [griffin] Running Griffin Method... 29.4% [griffin] Running Griffin Method... 31.4% [griffin] Running Griffin Method... 33.3% [griffin] Running Griffin Method... 35.3% [griffin] Running Griffin Method... 37.3% [griffin] Running Griffin Method... 39.2% [griffin] Running Griffin Method... 41.2% [griffin] Running Griffin Method... 43.1% [griffin] Running Griffin Method... 45.1% [griffin] Running Griffin Method... 47.1% [griffin] Running Griffin Method... 49.0% [griffin] Running Griffin Method... 51.0% [griffin] Running Griffin Method... 52.9% [griffin] Running Griffin Method... 54.9% [griffin] Running Griffin Method... 56.9% [griffin] Running Griffin Method... 58.8% [griffin] Running Griffin Method... 60.8% [griffin] Running Griffin Method... 62.7% [griffin] Running Griffin Method... 64.7% [griffin] Running Griffin Method... 66.7% [griffin] Running Griffin Method... 68.6% [griffin] Running Griffin Method... 70.6% [griffin] Running Griffin Method... 72.5% [griffin] Running Griffin Method... 74.5% [griffin] Running Griffin Method... 76.5% [griffin] Running Griffin Method... 78.4% [griffin] Running Griffin Method... 80.4% [griffin] Running Griffin Method... 82.4% [griffin] Running Griffin Method... 84.3% [griffin] Running Griffin Method... 86.3% [griffin] Running Griffin Method... 88.2% [griffin] Running Griffin Method... 90.2% [griffin] Running Griffin Method... 92.2% [griffin] Running Griffin Method... 94.1% [griffin] Running Griffin Method... 96.1% [griffin] Running Griffin Method... 98.0% [griffin] Running Griffin Method... 100.0% ok test_Gumbel (tests.test_analysis_methods.TestMethods.test_Gumbel) ... [griffin] [griffin] Adding File: /build/reproducible-path/tnseq-transit-3.3.4/tests/testoutput.txt [griffin] Finished Griffin Method Removing output file... #################### tests.test_analysis_methods.TestMethods.test_Gumbel #################### [gumbel] Reading Annotation [gumbel] Getting Data [gumbel] Doing Regression [gumbel] Setting Initial Class [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 0.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 0.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 0.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 0.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 0.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 0.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 0.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 0.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 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[gumbel] Running Gumbel Method with Binomial Essentiality Calls... 17.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 17.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 17.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 17.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 17.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 17.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 17.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 17.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 18.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 18.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 18.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 18.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 18.4% [gumbel] Running Gumbel Method with Binomial 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Method with Binomial Essentiality Calls... 19.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 19.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 19.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 20.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 20.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 20.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 20.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 20.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 20.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 20.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 20.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 20.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 20.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 20.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 21.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 21.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 21.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 21.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 21.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 21.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 21.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 21.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 21.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 21.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 21.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 22.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 22.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 22.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 22.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 22.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 22.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 22.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 22.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 22.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 22.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 22.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 23.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 23.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 23.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 23.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 23.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 23.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 23.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 23.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 23.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 23.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 23.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 24.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 24.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 24.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 24.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 24.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 24.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 24.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 24.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 24.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 24.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 24.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 25.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 25.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 25.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 25.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 25.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 25.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 25.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 25.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 25.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 25.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 25.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 27.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 27.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 27.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 27.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 27.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 27.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 27.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 27.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 27.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 27.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 27.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 28.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 28.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 28.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 28.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 28.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 28.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 28.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 28.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 28.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 28.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 28.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 29.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 29.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 29.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 29.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 29.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 29.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 29.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 29.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 29.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 29.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 29.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 30.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 30.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 30.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 30.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 30.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 30.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 30.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 30.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 30.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 30.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 30.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 100.0% ok test_HMM (tests.test_analysis_methods.TestMethods.test_HMM) ... /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/analysis/hmm.py:194: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/data/test.wig' mode='r' encoding='UTF-8'> T = len([1 for line in open(ctrldata[0]).readlines() if not line.startswith("#")]) ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/data/test.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/data/test.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback [gumbel] [gumbel] Adding File: /build/reproducible-path/tnseq-transit-3.3.4/tests/testoutput.txt [gumbel] Finished Gumbel Method Removing output file... #################### tests.test_analysis_methods.TestMethods.test_HMM #################### [hmm] Starting HMM Method [hmm] Getting Data [hmm] Normalizing using: TTR [hmm] Running HMM Method... 2.5% [hmm] Running HMM Method... 5.0% [hmm] Running HMM Method... 7.5% [hmm] Running HMM Method... 10.0% [hmm] Running HMM Method... 12.5% [hmm] Running HMM Method... 15.0% [hmm] Running HMM Method... 17.5% [hmm] Running HMM Method... 20.0% [hmm] Running HMM Method... 22.5% [hmm] Running HMM Method... 25.0% [hmm] Running HMM Method... 27.5% [hmm] Running HMM Method... 30.0% [hmm] Running HMM Method... 32.5% [hmm] Running HMM Method... 35.0% [hmm] Running HMM Method... 37.5% [hmm] Running HMM Method... 40.0% [hmm] Running HMM Method... 42.5% [hmm] Running HMM Method... 45.0% [hmm] Running HMM Method... 47.5% [hmm] Running HMM Method... 50.0% [hmm] Running HMM Method... 50.0% [hmm] Running HMM Method... 52.5% [hmm] Running HMM Method... 55.0% [hmm] Running HMM Method... 57.5% [hmm] Running HMM Method... 60.0% [hmm] Running HMM Method... 62.5% [hmm] Running HMM Method... 65.0% [hmm] Running HMM Method... 67.5% [hmm] Running HMM Method... 70.0% [hmm] Running HMM Method... 72.5% [hmm] Running HMM Method... 75.0% [hmm] Running HMM Method... 77.5% [hmm] Running HMM Method... 80.0% [hmm] Running HMM Method... 82.5% [hmm] Running HMM Method... 85.0% [hmm] Running HMM Method... 87.5% [hmm] Running HMM Method... 90.0% [hmm] Running HMM Method... 92.5% [hmm] Running HMM Method... 95.0% [hmm] Running HMM Method... 97.5% ok test_anova (tests.test_analysis_methods.TestMethods.test_anova) ... /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:84: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/samples_metadata_cg.txt' mode='r' encoding='UTF-8'> for line in open(metadata_file): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:124: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/data/test.prot_table' mode='r' encoding='UTF-8'> for line in open(fname): ResourceWarning: Enable tracemalloc to get the object allocation traceback [hmm] [hmm] Finished HMM - Sites Method [hmm] Adding File: /build/reproducible-path/tnseq-transit-3.3.4/tests/testoutput.txt.sites.txt [hmm] Creating HMM Genes Level Output [hmm] Adding File: /build/reproducible-path/tnseq-transit-3.3.4/tests/testoutput.txt.genes.txt [hmm] Finished HMM Method #################### tests.test_analysis_methods.TestMethods.test_anova #################### [anova] Starting Anova analysis [anova] Getting Data [anova] Normalizing using: TTR [anova] Running Anova [anova] Running Anova Method... 2.0% [anova] Running Anova Method... 3.9% [anova] Running Anova Method... 5.9% [anova] Running Anova Method... 7.8% [anova] Running Anova Method... 9.8% [anova] Running Anova Method... 11.8% [anova] Running Anova Method... 13.7% [anova] Running Anova Method... 15.7% [anova] Running Anova Method... 17.6% [anova] Running Anova Method... 19.6% [anova] Running Anova Method... 21.6% [anova] Running Anova Method... 23.5% [anova] Running Anova Method... 25.5% [anova] Running Anova Method... 27.5% [anova] Running Anova Method... 29.4% [anova] Running Anova Method... 31.4% [anova] Running Anova Method... 33.3% [anova] Running Anova Method... 35.3% [anova] Running Anova Method... 37.3% [anova] Running Anova Method... 39.2% [anova] Running Anova Method... 41.2% [anova] Running Anova Method... 43.1% [anova] Running Anova Method... 45.1% [anova] Running Anova Method... 47.1% [anova] Running Anova Method... 49.0% [anova] Running Anova Method... 51.0% [anova] Running Anova Method... 52.9% [anova] Running Anova Method... 54.9% [anova] Running Anova Method... 56.9% [anova] Running Anova Method... 58.8% [anova] Running Anova Method... 60.8% [anova] Running Anova Method... 62.7% [anova] Running Anova Method... 64.7% [anova] Running Anova Method... 66.7% [anova] Running Anova Method... 68.6% [anova] Running Anova Method... 70.6% [anova] Running Anova Method... 72.5% [anova] Running Anova Method... 74.5% [anova] Running Anova Method... 76.5% [anova] Running Anova Method... 78.4% [anova] Running Anova Method... 80.4% [anova] Running Anova Method... 82.4% [anova] Running Anova Method... 84.3% [anova] Running Anova Method... 86.3% [anova] Running Anova Method... 88.2% [anova] Running Anova Method... 90.2% [anova] Running Anova Method... 92.2% [anova] Running Anova Method... 94.1% [anova] Running Anova Method... 96.1% [anova] Running Anova Method... 98.0% [anova] Running Anova Method... 100.0% /build/reproducible-path/tnseq-transit-3.3.4/tests/transit_test.py:89: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/testoutput.txt' mode='r' encoding='UTF-8'> for line in open(fname): ResourceWarning: Enable tracemalloc to get the object allocation traceback ok test_resampling (tests.test_analysis_methods.TestMethods.test_resampling) ... /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/glycerol_H37Rv_rep1.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/glycerol_H37Rv_rep2.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/glycerol_H37Rv_rep1.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/glycerol_H37Rv_rep2.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/cholesterol_H37Rv_rep1.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/cholesterol_H37Rv_rep2.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/cholesterol_H37Rv_rep3.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/cholesterol_H37Rv_rep1.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/cholesterol_H37Rv_rep2.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/cholesterol_H37Rv_rep3.wig' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:1290: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/data/test.prot_table' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:1217: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/data/test.prot_table' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:521: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/data/test.prot_table' mode='r' encoding='UTF-8'> for line in open(self.annotation): ResourceWarning: Enable tracemalloc to get the object allocation traceback [anova] Adding File: /build/reproducible-path/tnseq-transit-3.3.4/tests/testoutput.txt [anova] Finished Anova analysis [anova] Time: 0.4s Removing output file... #################### tests.test_analysis_methods.TestMethods.test_resampling #################### [resampling] site_restricted=False [resampling] Starting resampling Method [resampling] Getting Data [resampling] Preprocessing Ctrl data... [resampling] Normalizing using: TTR [resampling] Performing LOESS Correction [resampling] Preprocessing Exp data... [resampling] Normalizing using: TTR [resampling] Performing LOESS Correction [resampling] Running Resampling Method... 2.0% [resampling] Running Resampling Method... 3.9% [resampling] Running Resampling Method... 5.9% [resampling] Running Resampling Method... 7.8% [resampling] Running Resampling Method... 9.8% [resampling] Running Resampling Method... 11.8% [resampling] Running Resampling Method... 13.7% [resampling] Running Resampling Method... 15.7% [resampling] Running Resampling Method... 17.6% [resampling] Running Resampling Method... 19.6% [resampling] Running Resampling Method... 21.6% [resampling] Running Resampling Method... 23.5% [resampling] Running Resampling Method... 25.5% [resampling] Running Resampling Method... 27.5% [resampling] Running Resampling Method... 29.4% [resampling] Running Resampling Method... 31.4% [resampling] Running Resampling Method... 33.3% [resampling] Running Resampling Method... 35.3% [resampling] Running Resampling Method... 37.3% [resampling] Running Resampling Method... 39.2% [resampling] Running Resampling Method... 41.2% [resampling] Running Resampling Method... 43.1% [resampling] Running Resampling Method... 45.1% [resampling] Running Resampling Method... 47.1% [resampling] Running Resampling Method... 49.0% [resampling] Running Resampling Method... 51.0% [resampling] Running Resampling Method... 52.9% [resampling] Running Resampling Method... 54.9% [resampling] Running Resampling Method... 56.9% [resampling] Running Resampling Method... 58.8% [resampling] Running Resampling Method... 60.8% [resampling] Running Resampling Method... 62.7% [resampling] Running Resampling Method... 64.7% [resampling] Running Resampling Method... 66.7% [resampling] Running Resampling Method... 68.6% [resampling] Running Resampling Method... 70.6% [resampling] Running Resampling Method... 72.5% [resampling] Running Resampling Method... 74.5% [resampling] Running Resampling Method... 76.5% [resampling] Running Resampling Method... 78.4% [resampling] Running Resampling Method... 80.4% [resampling] Running Resampling Method... 82.4% [resampling] Running Resampling Method... 84.3% [resampling] Running Resampling Method... 86.3% [resampling] Running Resampling Method... 88.2% [resampling] Running Resampling Method... 90.2% [resampling] Running Resampling Method... 92.2% [resampling] Running Resampling Method... 94.1% [resampling] Running Resampling Method... 96.1% [resampling] Running Resampling Method... 98.0% [resampling] Running Resampling Method... 100.0% /build/reproducible-path/tnseq-transit-3.3.4/tests/transit_test.py:89: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/testoutput.txt' mode='r' encoding='UTF-8'> for line in open(fname): ResourceWarning: Enable tracemalloc to get the object allocation traceback ok test_resampling_adaptive (tests.test_analysis_methods.TestMethods.test_resampling_adaptive) ... [resampling] [resampling] Performing Benjamini-Hochberg Correction [resampling] Number of significant conditionally essential genes (Padj<0.05): 35 [resampling] Time: 14.74s [resampling] Finished resampling Method Removing output file... #################### tests.test_analysis_methods.TestMethods.test_resampling_adaptive #################### [resampling] site_restricted=False [resampling] Starting resampling Method [resampling] Getting Data [resampling] Preprocessing Ctrl data... [resampling] Normalizing using: TTR [resampling] Preprocessing Exp data... [resampling] Normalizing using: TTR [resampling] Running Resampling Method... 2.0% [resampling] Running Resampling Method... 3.9% [resampling] Running Resampling Method... 5.9% [resampling] Running Resampling Method... 7.8% [resampling] Running Resampling Method... 9.8% [resampling] Running Resampling Method... 11.8% [resampling] Running Resampling Method... 13.7% [resampling] Running Resampling Method... 15.7% [resampling] Running Resampling Method... 17.6% [resampling] Running Resampling Method... 19.6% [resampling] Running Resampling Method... 21.6% [resampling] Running Resampling Method... 23.5% [resampling] Running Resampling Method... 25.5% [resampling] Running Resampling Method... 27.5% [resampling] Running Resampling Method... 29.4% [resampling] Running Resampling Method... 31.4% [resampling] Running Resampling Method... 33.3% [resampling] Running Resampling Method... 35.3% [resampling] Running Resampling Method... 37.3% [resampling] Running Resampling Method... 39.2% [resampling] Running Resampling Method... 41.2% [resampling] Running Resampling Method... 43.1% [resampling] Running Resampling Method... 45.1% [resampling] Running Resampling Method... 47.1% [resampling] Running Resampling Method... 49.0% [resampling] Running Resampling Method... 51.0% [resampling] Running Resampling Method... 52.9% [resampling] Running Resampling Method... 54.9% [resampling] Running Resampling Method... 56.9% [resampling] Running Resampling Method... 58.8% [resampling] Running Resampling Method... 60.8% [resampling] Running Resampling Method... 62.7% [resampling] Running Resampling Method... 64.7% [resampling] Running Resampling Method... 66.7% [resampling] Running Resampling Method... 68.6% [resampling] Running Resampling Method... 70.6% [resampling] Running Resampling Method... 72.5% [resampling] Running Resampling Method... 74.5% [resampling] Running Resampling Method... 76.5% [resampling] Running Resampling Method... 78.4% [resampling] Running Resampling Method... 80.4% [resampling] Running Resampling Method... 82.4% [resampling] Running Resampling Method... 84.3% [resampling] Running Resampling Method... 86.3% [resampling] Running Resampling Method... 88.2% [resampling] Running Resampling Method... 90.2% [resampling] Running Resampling Method... 92.2% [resampling] Running Resampling Method... 94.1% [resampling] Running Resampling Method... 96.1% [resampling] Running Resampling Method... 98.0% [resampling] Running Resampling Method... 100.0% ok test_resampling_combined_wig (tests.test_analysis_methods.TestMethods.test_resampling_combined_wig) ... /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:84: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/data/samples_metadata_cg.txt' mode='r' encoding='UTF-8'> for line in open(metadata_file): ResourceWarning: Enable tracemalloc to get the object allocation traceback [resampling] [resampling] Performing Benjamini-Hochberg Correction [resampling] Number of significant conditionally essential genes (Padj<0.05): 35 [resampling] Time: 10.89s [resampling] Finished resampling Method Removing output file... #################### tests.test_analysis_methods.TestMethods.test_resampling_combined_wig #################### [resampling] site_restricted=False [resampling] Starting resampling Method [resampling] Getting Data [resampling] Preprocessing Ctrl data... [resampling] Normalizing using: TTR [resampling] Preprocessing Exp data... [resampling] Normalizing using: TTR [resampling] Running Resampling Method... 2.0% [resampling] Running Resampling Method... 3.9% [resampling] Running Resampling Method... 5.9% [resampling] Running Resampling Method... 7.8% [resampling] Running Resampling Method... 9.8% [resampling] Running Resampling Method... 11.8% [resampling] Running Resampling Method... 13.7% [resampling] Running Resampling Method... 15.7% [resampling] Running Resampling Method... 17.6% [resampling] Running Resampling Method... 19.6% [resampling] Running Resampling Method... 21.6% [resampling] Running Resampling Method... 23.5% [resampling] Running Resampling Method... 25.5% [resampling] Running Resampling Method... 27.5% [resampling] Running Resampling Method... 29.4% [resampling] Running Resampling Method... 31.4% [resampling] Running Resampling Method... 33.3% [resampling] Running Resampling Method... 35.3% [resampling] Running Resampling Method... 37.3% [resampling] Running Resampling Method... 39.2% [resampling] Running Resampling Method... 41.2% [resampling] Running Resampling Method... 43.1% [resampling] Running Resampling Method... 45.1% [resampling] Running Resampling Method... 47.1% [resampling] Running Resampling Method... 49.0% [resampling] Running Resampling Method... 51.0% [resampling] Running Resampling Method... 52.9% [resampling] Running Resampling Method... 54.9% [resampling] Running Resampling Method... 56.9% [resampling] Running Resampling Method... 58.8% [resampling] Running Resampling Method... 60.8% [resampling] Running Resampling Method... 62.7% [resampling] Running Resampling Method... 64.7% [resampling] Running Resampling Method... 66.7% [resampling] Running Resampling Method... 68.6% [resampling] Running Resampling Method... 70.6% [resampling] Running Resampling Method... 72.5% [resampling] Running Resampling Method... 74.5% [resampling] Running Resampling Method... 76.5% [resampling] Running Resampling Method... 78.4% [resampling] Running Resampling Method... 80.4% [resampling] Running Resampling Method... 82.4% [resampling] Running Resampling Method... 84.3% [resampling] Running Resampling Method... 86.3% [resampling] Running Resampling Method... 88.2% [resampling] Running Resampling Method... 90.2% [resampling] Running Resampling Method... 92.2% [resampling] Running Resampling Method... 94.1% [resampling] Running Resampling Method... 96.1% [resampling] Running Resampling Method... 98.0% [resampling] Running Resampling Method... 100.0% ok test_resampling_histogram (tests.test_analysis_methods.TestMethods.test_resampling_histogram) ... [resampling] [resampling] Performing Benjamini-Hochberg Correction [resampling] Number of significant conditionally essential genes (Padj<0.05): 35 [resampling] Time: 8.70s [resampling] Finished resampling Method 37 35 Removing output file... #################### tests.test_analysis_methods.TestMethods.test_resampling_histogram #################### [resampling] site_restricted=False [resampling] Starting resampling Method [resampling] Getting Data [resampling] Preprocessing Ctrl data... [resampling] Normalizing using: TTR [resampling] Preprocessing Exp data... [resampling] Normalizing using: TTR [resampling] Running Resampling Method... 2.0% [resampling] Running Resampling Method... 3.9% [resampling] Running Resampling Method... 5.9% [resampling] Running Resampling Method... 7.8% [resampling] Running Resampling Method... 9.8% [resampling] Running Resampling Method... 11.8% [resampling] Running Resampling Method... 13.7% [resampling] Running Resampling Method... 15.7% [resampling] Running Resampling Method... 17.6% [resampling] Running Resampling Method... 19.6% [resampling] Running Resampling Method... 21.6% [resampling] Running Resampling Method... 23.5% [resampling] Running Resampling Method... 25.5% [resampling] Running Resampling Method... 27.5% [resampling] Running Resampling Method... 29.4% [resampling] Running Resampling Method... 31.4% [resampling] Running Resampling Method... 33.3% [resampling] Running Resampling Method... 35.3% [resampling] Running Resampling Method... 37.3% [resampling] Running Resampling Method... 39.2% [resampling] Running Resampling Method... 41.2% [resampling] Running Resampling Method... 43.1% [resampling] Running Resampling Method... 45.1% [resampling] Running Resampling Method... 47.1% [resampling] Running Resampling Method... 49.0% [resampling] Running Resampling Method... 51.0% [resampling] Running Resampling Method... 52.9% [resampling] Running Resampling Method... 54.9% [resampling] Running Resampling Method... 56.9% [resampling] Running Resampling Method... 58.8% [resampling] Running Resampling Method... 60.8% [resampling] Running Resampling Method... 62.7% [resampling] Running Resampling Method... 64.7% [resampling] Running Resampling Method... 66.7% [resampling] Running Resampling Method... 68.6% [resampling] Running Resampling Method... 70.6% [resampling] Running Resampling Method... 72.5% [resampling] Running Resampling Method... 74.5% [resampling] Running Resampling Method... 76.5% [resampling] Running Resampling Method... 78.4% [resampling] Running Resampling Method... 80.4% [resampling] Running Resampling Method... 82.4% [resampling] Running Resampling Method... 84.3% [resampling] Running Resampling Method... 86.3% [resampling] Running Resampling Method... 88.2% [resampling] Running Resampling Method... 90.2% [resampling] Running Resampling Method... 92.2% [resampling] Running Resampling Method... 94.1% [resampling] Running Resampling Method... 96.1% [resampling] Running Resampling Method... 98.0% [resampling] Running Resampling Method... 100.0% ok test_resampling_multistrain (tests.test_analysis_methods.TestMethods.test_resampling_multistrain) ... [resampling] [resampling] Performing Benjamini-Hochberg Correction [resampling] Number of significant conditionally essential genes (Padj<0.05): 35 [resampling] Time: 24.96s [resampling] Finished resampling Method Removing histogram files Removing output file... #################### tests.test_analysis_methods.TestMethods.test_resampling_multistrain #################### [resampling] site_restricted=False [resampling] Starting resampling Method [resampling] Getting Data [resampling] Multiple annotation files found [resampling] Mapping ctrl data to /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test.prot_table, exp data to /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test.prot_table [resampling] Preprocessing Ctrl data... [resampling] Normalizing using: TTR [resampling] Preprocessing Exp data... [resampling] Normalizing using: TTR [resampling] Running Resampling Method... 2.0% [resampling] Running Resampling Method... 3.9% [resampling] Running Resampling Method... 5.9% [resampling] Running Resampling Method... 7.8% [resampling] Running Resampling Method... 9.8% [resampling] Running Resampling Method... 11.8% [resampling] Running Resampling Method... 13.7% [resampling] Running Resampling Method... 15.7% [resampling] Running Resampling Method... 17.6% [resampling] Running Resampling Method... 19.6% [resampling] Running Resampling Method... 21.6% [resampling] Running Resampling Method... 23.5% [resampling] Running Resampling Method... 25.5% [resampling] Running Resampling Method... 27.5% [resampling] Running Resampling Method... 29.4% [resampling] Running Resampling Method... 31.4% [resampling] Running Resampling Method... 33.3% [resampling] Running Resampling Method... 35.3% [resampling] Running Resampling Method... 37.3% [resampling] Running Resampling Method... 39.2% [resampling] Running Resampling Method... 41.2% [resampling] Running Resampling Method... 43.1% [resampling] Running Resampling Method... 45.1% [resampling] Running Resampling Method... 47.1% [resampling] Running Resampling Method... 49.0% [resampling] Running Resampling Method... 51.0% [resampling] Running Resampling Method... 52.9% [resampling] Running Resampling Method... 54.9% [resampling] Running Resampling Method... 56.9% [resampling] Running Resampling Method... 58.8% [resampling] Running Resampling Method... 60.8% [resampling] Running Resampling Method... 62.7% [resampling] Running Resampling Method... 64.7% [resampling] Running Resampling Method... 66.7% [resampling] Running Resampling Method... 68.6% [resampling] Running Resampling Method... 70.6% [resampling] Running Resampling Method... 72.5% [resampling] Running Resampling Method... 74.5% [resampling] Running Resampling Method... 76.5% [resampling] Running Resampling Method... 78.4% [resampling] Running Resampling Method... 80.4% [resampling] Running Resampling Method... 82.4% [resampling] Running Resampling Method... 84.3% [resampling] Running Resampling Method... 86.3% [resampling] Running Resampling Method... 88.2% [resampling] Running Resampling Method... 90.2% [resampling] Running Resampling Method... 92.2% [resampling] Running Resampling Method... 94.1% [resampling] Running Resampling Method... 96.1% [resampling] Running Resampling Method... 98.0% [resampling] Running Resampling Method... 100.0% ok test_utest (tests.test_analysis_methods.TestMethods.test_utest) ... [resampling] [resampling] Performing Benjamini-Hochberg Correction [resampling] Number of significant conditionally essential genes (Padj<0.05): 35 [resampling] Time: 57.13s [resampling] Finished resampling Method Removing histogram files Removing output file... #################### tests.test_analysis_methods.TestMethods.test_utest #################### [utest] Starting Mann-Whitney U-test Method [utest] Getting Data [utest] Normalizing using: TTR [utest] Running Mann-Whitney U-test Method... 2.0% [utest] Running Mann-Whitney U-test Method... 3.9% [utest] Running Mann-Whitney U-test Method... 5.9% [utest] Running Mann-Whitney U-test Method... 7.8% [utest] Running Mann-Whitney U-test Method... 9.8% [utest] Running Mann-Whitney U-test Method... 11.8% [utest] Running Mann-Whitney U-test Method... 13.7% [utest] Running Mann-Whitney U-test Method... 15.7% [utest] Running Mann-Whitney U-test Method... 17.6% [utest] Running Mann-Whitney U-test Method... 19.6% [utest] Running Mann-Whitney U-test Method... 21.6% [utest] Running Mann-Whitney U-test Method... 23.5% [utest] Running Mann-Whitney U-test Method... 25.5% [utest] Running Mann-Whitney U-test Method... 27.5% [utest] Running Mann-Whitney U-test Method... 29.4% [utest] Running Mann-Whitney U-test Method... 31.4% [utest] Running Mann-Whitney U-test Method... 33.3% [utest] Running Mann-Whitney U-test Method... 35.3% [utest] Running Mann-Whitney U-test Method... 37.3% [utest] Running Mann-Whitney U-test Method... 39.2% [utest] Running Mann-Whitney U-test Method... 41.2% [utest] Running Mann-Whitney U-test Method... 43.1% [utest] Running Mann-Whitney U-test Method... 45.1% [utest] Running Mann-Whitney U-test Method... 47.1% [utest] Running Mann-Whitney U-test Method... 49.0% [utest] Running Mann-Whitney U-test Method... 51.0% [utest] Running Mann-Whitney U-test Method... 52.9% [utest] Running Mann-Whitney U-test Method... 54.9% [utest] Running Mann-Whitney U-test Method... 56.9% [utest] Running Mann-Whitney U-test Method... 58.8% [utest] Running Mann-Whitney U-test Method... 60.8% [utest] Running Mann-Whitney U-test Method... 62.7% [utest] Running Mann-Whitney U-test Method... 64.7% [utest] Running Mann-Whitney U-test Method... 66.7% [utest] Running Mann-Whitney U-test Method... 68.6% [utest] Running Mann-Whitney U-test Method... 70.6% [utest] Running Mann-Whitney U-test Method... 72.5% [utest] Running Mann-Whitney U-test Method... 74.5% [utest] Running Mann-Whitney U-test Method... 76.5% [utest] Running Mann-Whitney U-test Method... 78.4% [utest] Running Mann-Whitney U-test Method... 80.4% [utest] Running Mann-Whitney U-test Method... 82.4% [utest] Running Mann-Whitney U-test Method... 84.3% [utest] Running Mann-Whitney U-test Method... 86.3% [utest] Running Mann-Whitney U-test Method... 88.2% [utest] Running Mann-Whitney U-test Method... 90.2% [utest] Running Mann-Whitney U-test Method... 92.2% [utest] Running Mann-Whitney U-test Method... 94.1% [utest] Running Mann-Whitney U-test Method... 96.1% [utest] Running Mann-Whitney U-test Method... 98.0% [utest] Running Mann-Whitney U-test Method... 100.0% ok test_zinb (tests.test_analysis_methods.TestMethods.test_zinb) ... skipped 'requires R, rpy2' test_zinb_covariates (tests.test_analysis_methods.TestMethods.test_zinb_covariates) ... skipped 'requires R, rpy2' test_zinb_interactions (tests.test_analysis_methods.TestMethods.test_zinb_interactions) ... skipped 'requires R, rpy2' test_TTR (tests.test_norm_methods.TestNormMethods.test_TTR) ... ok test_nonorm (tests.test_norm_methods.TestNormMethods.test_nonorm) ... ok test_resampling_NZMean (tests.test_norm_methods.TestNormMethods.test_resampling_NZMean) ... [utest] [utest] Performing Benjamini-Hochberg Correction [utest] Adding File: /build/reproducible-path/tnseq-transit-3.3.4/tests/testoutput.txt [utest] Finished Mann-Whitney U-test Method Removing output file... #################### tests.test_norm_methods.TestNormMethods.test_TTR #################### #################### tests.test_norm_methods.TestNormMethods.test_nonorm #################### #################### tests.test_norm_methods.TestNormMethods.test_resampling_NZMean #################### [resampling] site_restricted=False [resampling] Starting resampling Method [resampling] Getting Data [resampling] Preprocessing Ctrl data... [resampling] Normalizing using: nzmean [resampling] Preprocessing Exp data... [resampling] Normalizing using: nzmean [resampling] Running Resampling Method... 2.0% [resampling] Running Resampling Method... 3.9% [resampling] Running Resampling Method... 5.9% [resampling] Running Resampling Method... 7.8% [resampling] Running Resampling Method... 9.8% [resampling] Running Resampling Method... 11.8% [resampling] Running Resampling Method... 13.7% [resampling] Running Resampling Method... 15.7% [resampling] Running Resampling Method... 17.6% [resampling] Running Resampling Method... 19.6% [resampling] Running Resampling Method... 21.6% [resampling] Running Resampling Method... 23.5% [resampling] Running Resampling Method... 25.5% [resampling] Running Resampling Method... 27.5% [resampling] Running Resampling Method... 29.4% [resampling] Running Resampling Method... 31.4% [resampling] Running Resampling Method... 33.3% [resampling] Running Resampling Method... 35.3% [resampling] Running Resampling Method... 37.3% [resampling] Running Resampling Method... 39.2% [resampling] Running Resampling Method... 41.2% [resampling] Running Resampling Method... 43.1% [resampling] Running Resampling Method... 45.1% [resampling] Running Resampling Method... 47.1% [resampling] Running Resampling Method... 49.0% [resampling] Running Resampling Method... 51.0% [resampling] Running Resampling Method... 52.9% [resampling] Running Resampling Method... 54.9% [resampling] Running Resampling Method... 56.9% [resampling] Running Resampling Method... 58.8% [resampling] Running Resampling Method... 60.8% [resampling] Running Resampling Method... 62.7% [resampling] Running Resampling Method... 64.7% [resampling] Running Resampling Method... 66.7% [resampling] Running Resampling Method... 68.6% [resampling] Running Resampling Method... 70.6% [resampling] Running Resampling Method... 72.5% [resampling] Running Resampling Method... 74.5% [resampling] Running Resampling Method... 76.5% [resampling] Running Resampling Method... 78.4% [resampling] Running Resampling Method... 80.4% [resampling] Running Resampling Method... 82.4% [resampling] Running Resampling Method... 84.3% [resampling] Running Resampling Method... 86.3% [resampling] Running Resampling Method... 88.2% [resampling] Running Resampling Method... 90.2% [resampling] Running Resampling Method... 92.2% [resampling] Running Resampling Method... 94.1% [resampling] Running Resampling Method... 96.1% [resampling] Running Resampling Method... 98.0% [resampling] Running Resampling Method... 100.0% ok test_resampling_Quantile (tests.test_norm_methods.TestNormMethods.test_resampling_Quantile) ... [resampling] [resampling] Performing Benjamini-Hochberg Correction [resampling] Number of significant conditionally essential genes (Padj<0.05): 0 [resampling] Time: 4.22s [resampling] Finished resampling Method Removing output file... #################### tests.test_norm_methods.TestNormMethods.test_resampling_Quantile #################### [resampling] site_restricted=False [resampling] Starting resampling Method [resampling] Getting Data [resampling] Preprocessing Ctrl data... [resampling] Normalizing using: quantile [resampling] Preprocessing Exp data... [resampling] Normalizing using: quantile [resampling] Running Resampling Method... 2.0% [resampling] Running Resampling Method... 3.9% [resampling] Running Resampling Method... 5.9% [resampling] Running Resampling Method... 7.8% [resampling] Running Resampling Method... 9.8% [resampling] Running Resampling Method... 11.8% [resampling] Running Resampling Method... 13.7% [resampling] Running Resampling Method... 15.7% [resampling] Running Resampling Method... 17.6% [resampling] Running Resampling Method... 19.6% [resampling] Running Resampling Method... 21.6% [resampling] Running Resampling Method... 23.5% [resampling] Running Resampling Method... 25.5% [resampling] Running Resampling Method... 27.5% [resampling] Running Resampling Method... 29.4% [resampling] Running Resampling Method... 31.4% [resampling] Running Resampling Method... 33.3% [resampling] Running Resampling Method... 35.3% [resampling] Running Resampling Method... 37.3% [resampling] Running Resampling Method... 39.2% [resampling] Running Resampling Method... 41.2% [resampling] Running Resampling Method... 43.1% [resampling] Running Resampling Method... 45.1% [resampling] Running Resampling Method... 47.1% [resampling] Running Resampling Method... 49.0% [resampling] Running Resampling Method... 51.0% [resampling] Running Resampling Method... 52.9% [resampling] Running Resampling Method... 54.9% [resampling] Running Resampling Method... 56.9% [resampling] Running Resampling Method... 58.8% [resampling] Running Resampling Method... 60.8% [resampling] Running Resampling Method... 62.7% [resampling] Running Resampling Method... 64.7% [resampling] Running Resampling Method... 66.7% [resampling] Running Resampling Method... 68.6% [resampling] Running Resampling Method... 70.6% [resampling] Running Resampling Method... 72.5% [resampling] Running Resampling Method... 74.5% [resampling] Running Resampling Method... 76.5% [resampling] Running Resampling Method... 78.4% [resampling] Running Resampling Method... 80.4% [resampling] Running Resampling Method... 82.4% [resampling] Running Resampling Method... 84.3% [resampling] Running Resampling Method... 86.3% [resampling] Running Resampling Method... 88.2% [resampling] Running Resampling Method... 90.2% [resampling] Running Resampling Method... 92.2% [resampling] Running Resampling Method... 94.1% [resampling] Running Resampling Method... 96.1% [resampling] Running Resampling Method... 98.0% [resampling] Running Resampling Method... 100.0% /build/reproducible-path/tnseq-transit-3.3.4/tests/transit_test.py:75: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/testoutput.txt' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback ok test_resampling_TTR (tests.test_norm_methods.TestNormMethods.test_resampling_TTR) ... [resampling] [resampling] Performing Benjamini-Hochberg Correction [resampling] Number of significant conditionally essential genes (Padj<0.05): 0 [resampling] Time: 5.98s [resampling] Finished resampling Method Removing output file... #################### tests.test_norm_methods.TestNormMethods.test_resampling_TTR #################### [resampling] site_restricted=False [resampling] Starting resampling Method [resampling] Getting Data [resampling] Preprocessing Ctrl data... [resampling] Normalizing using: TTR [resampling] Preprocessing Exp data... [resampling] Normalizing using: TTR [resampling] Running Resampling Method... 2.0% [resampling] Running Resampling Method... 3.9% [resampling] Running Resampling Method... 5.9% [resampling] Running Resampling Method... 7.8% [resampling] Running Resampling Method... 9.8% [resampling] Running Resampling Method... 11.8% [resampling] Running Resampling Method... 13.7% [resampling] Running Resampling Method... 15.7% [resampling] Running Resampling Method... 17.6% [resampling] Running Resampling Method... 19.6% [resampling] Running Resampling Method... 21.6% [resampling] Running Resampling Method... 23.5% [resampling] Running Resampling Method... 25.5% [resampling] Running Resampling Method... 27.5% [resampling] Running Resampling Method... 29.4% [resampling] Running Resampling Method... 31.4% [resampling] Running Resampling Method... 33.3% [resampling] Running Resampling Method... 35.3% [resampling] Running Resampling Method... 37.3% [resampling] Running Resampling Method... 39.2% [resampling] Running Resampling Method... 41.2% [resampling] Running Resampling Method... 43.1% [resampling] Running Resampling Method... 45.1% [resampling] Running Resampling Method... 47.1% [resampling] Running Resampling Method... 49.0% [resampling] Running Resampling Method... 51.0% [resampling] Running Resampling Method... 52.9% [resampling] Running Resampling Method... 54.9% [resampling] Running Resampling Method... 56.9% [resampling] Running Resampling Method... 58.8% [resampling] Running Resampling Method... 60.8% [resampling] Running Resampling Method... 62.7% [resampling] Running Resampling Method... 64.7% [resampling] Running Resampling Method... 66.7% [resampling] Running Resampling Method... 68.6% [resampling] Running Resampling Method... 70.6% [resampling] Running Resampling Method... 72.5% [resampling] Running Resampling Method... 74.5% [resampling] Running Resampling Method... 76.5% [resampling] Running Resampling Method... 78.4% [resampling] Running Resampling Method... 80.4% [resampling] Running Resampling Method... 82.4% [resampling] Running Resampling Method... 84.3% [resampling] Running Resampling Method... 86.3% [resampling] Running Resampling Method... 88.2% [resampling] Running Resampling Method... 90.2% [resampling] Running Resampling Method... 92.2% [resampling] Running Resampling Method... 94.1% [resampling] Running Resampling Method... 96.1% [resampling] Running Resampling Method... 98.0% [resampling] Running Resampling Method... 100.0% ok test_resampling_TotReads (tests.test_norm_methods.TestNormMethods.test_resampling_TotReads) ... [resampling] [resampling] Performing Benjamini-Hochberg Correction [resampling] Number of significant conditionally essential genes (Padj<0.05): 0 [resampling] Time: 5.18s [resampling] Finished resampling Method Removing output file... #################### tests.test_norm_methods.TestNormMethods.test_resampling_TotReads #################### [resampling] site_restricted=False [resampling] Starting resampling Method [resampling] Getting Data [resampling] Preprocessing Ctrl data... [resampling] Normalizing using: totreads [resampling] Preprocessing Exp data... [resampling] Normalizing using: totreads [resampling] Running Resampling Method... 2.0% [resampling] Running Resampling Method... 3.9% [resampling] Running Resampling Method... 5.9% [resampling] Running Resampling Method... 7.8% [resampling] Running Resampling Method... 9.8% [resampling] Running Resampling Method... 11.8% [resampling] Running Resampling Method... 13.7% [resampling] Running Resampling Method... 15.7% [resampling] Running Resampling Method... 17.6% [resampling] Running Resampling Method... 19.6% [resampling] Running Resampling Method... 21.6% [resampling] Running Resampling Method... 23.5% [resampling] Running Resampling Method... 25.5% [resampling] Running Resampling Method... 27.5% [resampling] Running Resampling Method... 29.4% [resampling] Running Resampling Method... 31.4% [resampling] Running Resampling Method... 33.3% [resampling] Running Resampling Method... 35.3% [resampling] Running Resampling Method... 37.3% [resampling] Running Resampling Method... 39.2% [resampling] Running Resampling Method... 41.2% [resampling] Running Resampling Method... 43.1% [resampling] Running Resampling Method... 45.1% [resampling] Running Resampling Method... 47.1% [resampling] Running Resampling Method... 49.0% [resampling] Running Resampling Method... 51.0% [resampling] Running Resampling Method... 52.9% [resampling] Running Resampling Method... 54.9% [resampling] Running Resampling Method... 56.9% [resampling] Running Resampling Method... 58.8% [resampling] Running Resampling Method... 60.8% [resampling] Running Resampling Method... 62.7% [resampling] Running Resampling Method... 64.7% [resampling] Running Resampling Method... 66.7% [resampling] Running Resampling Method... 68.6% [resampling] Running Resampling Method... 70.6% [resampling] Running Resampling Method... 72.5% [resampling] Running Resampling Method... 74.5% [resampling] Running Resampling Method... 76.5% [resampling] Running Resampling Method... 78.4% [resampling] Running Resampling Method... 80.4% [resampling] Running Resampling Method... 82.4% [resampling] Running Resampling Method... 84.3% [resampling] Running Resampling Method... 86.3% [resampling] Running Resampling Method... 88.2% [resampling] Running Resampling Method... 90.2% [resampling] Running Resampling Method... 92.2% [resampling] Running Resampling Method... 94.1% [resampling] Running Resampling Method... 96.1% [resampling] Running Resampling Method... 98.0% [resampling] Running Resampling Method... 100.0% ok test_resampling_ZINFNB (tests.test_norm_methods.TestNormMethods.test_resampling_ZINFNB) ... [resampling] [resampling] Performing Benjamini-Hochberg Correction [resampling] Number of significant conditionally essential genes (Padj<0.05): 0 [resampling] Time: 3.86s [resampling] Finished resampling Method Removing output file... #################### tests.test_norm_methods.TestNormMethods.test_resampling_ZINFNB #################### [resampling] site_restricted=False [resampling] Starting resampling Method [resampling] Getting Data [resampling] Preprocessing Ctrl data... [resampling] Normalizing using: zinfnb [resampling] Preprocessing Exp data... [resampling] Normalizing using: zinfnb [resampling] Running Resampling Method... 2.0% [resampling] Running Resampling Method... 3.9% [resampling] Running Resampling Method... 5.9% [resampling] Running Resampling Method... 7.8% [resampling] Running Resampling Method... 9.8% [resampling] Running Resampling Method... 11.8% [resampling] Running Resampling Method... 13.7% [resampling] Running Resampling Method... 15.7% [resampling] Running Resampling Method... 17.6% [resampling] Running Resampling Method... 19.6% [resampling] Running Resampling Method... 21.6% [resampling] Running Resampling Method... 23.5% [resampling] Running Resampling Method... 25.5% [resampling] Running Resampling Method... 27.5% [resampling] Running Resampling Method... 29.4% [resampling] Running Resampling Method... 31.4% [resampling] Running Resampling Method... 33.3% [resampling] Running Resampling Method... 35.3% [resampling] Running Resampling Method... 37.3% [resampling] Running Resampling Method... 39.2% [resampling] Running Resampling Method... 41.2% [resampling] Running Resampling Method... 43.1% [resampling] Running Resampling Method... 45.1% [resampling] Running Resampling Method... 47.1% [resampling] Running Resampling Method... 49.0% [resampling] Running Resampling Method... 51.0% [resampling] Running Resampling Method... 52.9% [resampling] Running Resampling Method... 54.9% [resampling] Running Resampling Method... 56.9% [resampling] Running Resampling Method... 58.8% [resampling] Running Resampling Method... 60.8% [resampling] Running Resampling Method... 62.7% [resampling] Running Resampling Method... 64.7% [resampling] Running Resampling Method... 66.7% [resampling] Running Resampling Method... 68.6% [resampling] Running Resampling Method... 70.6% [resampling] Running Resampling Method... 72.5% [resampling] Running Resampling Method... 74.5% [resampling] Running Resampling Method... 76.5% [resampling] Running Resampling Method... 78.4% [resampling] Running Resampling Method... 80.4% [resampling] Running Resampling Method... 82.4% [resampling] Running Resampling Method... 84.3% [resampling] Running Resampling Method... 86.3% [resampling] Running Resampling Method... 88.2% [resampling] Running Resampling Method... 90.2% [resampling] Running Resampling Method... 92.2% [resampling] Running Resampling Method... 94.1% [resampling] Running Resampling Method... 96.1% [resampling] Running Resampling Method... 98.0% [resampling] Running Resampling Method... 100.0% ok test_resampling_nonorm (tests.test_norm_methods.TestNormMethods.test_resampling_nonorm) ... [resampling] [resampling] Performing Benjamini-Hochberg Correction [resampling] Number of significant conditionally essential genes (Padj<0.05): 0 [resampling] Time: 8.66s [resampling] Finished resampling Method Removing output file... #################### tests.test_norm_methods.TestNormMethods.test_resampling_nonorm #################### [resampling] site_restricted=False [resampling] Starting resampling Method [resampling] Getting Data [resampling] Preprocessing Ctrl data... [resampling] Preprocessing Exp data... [resampling] Running Resampling Method... 2.0% [resampling] Running Resampling Method... 3.9% [resampling] Running Resampling Method... 5.9% [resampling] Running Resampling Method... 7.8% [resampling] Running Resampling Method... 9.8% [resampling] Running Resampling Method... 11.8% [resampling] Running Resampling Method... 13.7% [resampling] Running Resampling Method... 15.7% [resampling] Running Resampling Method... 17.6% [resampling] Running Resampling Method... 19.6% [resampling] Running Resampling Method... 21.6% [resampling] Running Resampling Method... 23.5% [resampling] Running Resampling Method... 25.5% [resampling] Running Resampling Method... 27.5% [resampling] Running Resampling Method... 29.4% [resampling] Running Resampling Method... 31.4% [resampling] Running Resampling Method... 33.3% [resampling] Running Resampling Method... 35.3% [resampling] Running Resampling Method... 37.3% [resampling] Running Resampling Method... 39.2% [resampling] Running Resampling Method... 41.2% [resampling] Running Resampling Method... 43.1% [resampling] Running Resampling Method... 45.1% [resampling] Running Resampling Method... 47.1% [resampling] Running Resampling Method... 49.0% [resampling] Running Resampling Method... 51.0% [resampling] Running Resampling Method... 52.9% [resampling] Running Resampling Method... 54.9% [resampling] Running Resampling Method... 56.9% [resampling] Running Resampling Method... 58.8% [resampling] Running Resampling Method... 60.8% [resampling] Running Resampling Method... 62.7% [resampling] Running Resampling Method... 64.7% [resampling] Running Resampling Method... 66.7% [resampling] Running Resampling Method... 68.6% [resampling] Running Resampling Method... 70.6% [resampling] Running Resampling Method... 72.5% [resampling] Running Resampling Method... 74.5% [resampling] Running Resampling Method... 76.5% [resampling] Running Resampling Method... 78.4% [resampling] Running Resampling Method... 80.4% [resampling] Running Resampling Method... 82.4% [resampling] Running Resampling Method... 84.3% [resampling] Running Resampling Method... 86.3% [resampling] Running Resampling Method... 88.2% [resampling] Running Resampling Method... 90.2% [resampling] Running Resampling Method... 92.2% [resampling] Running Resampling Method... 94.1% [resampling] Running Resampling Method... 96.1% [resampling] Running Resampling Method... 98.0% [resampling] Running Resampling Method... 100.0% ok test_cleanargs_flag_arguments_w_quotes (tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_flag_arguments_w_quotes) ... ok test_cleanargs_flag_arguments_with_double_dash (tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_flag_arguments_with_double_dash) ... ok test_cleanargs_flag_without_arguments (tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_flag_without_arguments) ... ok test_cleanargs_negative_arguments (tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_negative_arguments) ... ok test_cleanargs_positional_arguments (tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_positional_arguments) ... ok test_cleanargs_positional_arguments_w_quotes (tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_positional_arguments_w_quotes) ... ok test_file_types (tests.test_pytransit_tools.TestTnSeqTools.test_file_types) ... ok test_genes_creation_fromdata (tests.test_pytransit_tools.TestTnSeqTools.test_genes_creation_fromdata) ... /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:1290: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/genomes/H37Rv.prot_table' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:1217: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/genomes/H37Rv.prot_table' mode='r' encoding='UTF-8'> for line in open(path): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/tnseq_tools.py:521: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytransit/genomes/H37Rv.prot_table' mode='r' encoding='UTF-8'> for line in open(self.annotation): ResourceWarning: Enable tracemalloc to get the object allocation traceback ok test_genes_creation_fromwig (tests.test_pytransit_tools.TestTnSeqTools.test_genes_creation_fromwig) ... ok test_normalization (tests.test_pytransit_tools.TestTnSeqTools.test_normalization) ... ok test_read_data (tests.test_pytransit_tools.TestTnSeqTools.test_read_data) ... ok test_tpp_flag_primer (tests.test_tpp.TestTPP.test_tpp_flag_primer) ... skipped 'requires local data file' test_tpp_multicontig_auto_replicon_ids (tests.test_tpp.TestTPP.test_tpp_multicontig_auto_replicon_ids) ... [tn_preprocess] running pre-processing on /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig-1.fastq and [tn_preprocess] protocol: Sassetti [tn_preprocess] transposon type: Himar1 [tn_preprocess] One reference genome specified: /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig.fna, containing 3 records. [tn_preprocess] Autogenerating replicon_ids... [tn_preprocess] extracting reads... [tn_preprocess] fastq2reads: /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig-1.fastq -> /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.reads1 /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytpp/tpp_tools.py:85: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig-1.fastq' mode='r' encoding='UTF-8'> for line in open(infile): ResourceWarning: Enable tracemalloc to get the object allocation traceback [tn_preprocess] assuming single-ended reads [tn_preprocess] creating /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.trimmed1 [tn_preprocess] prefix sequence: [tn_preprocess] Looking for start of Tn prefix within P,Q = [0,20] /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytpp/tpp_tools.py:285: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.reads1' mode='r' encoding='UTF-8'> for line in open(infile): ResourceWarning: Enable tracemalloc to get the object allocation traceback [tn_preprocess] mapping reads using BWA...(this takes a couple of minutes) [tn_preprocess] /usr/bin/bwa index /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig.fna b'[bwa_index] Pack FASTA... 0.03 sec' b'[bwa_index] Construct BWT for the packed sequence...' b'[bwa_index] 1.90 seconds elapse.' b'[bwa_index] Update BWT... 0.02 sec' b'[bwa_index] Pack forward-only FASTA... 0.02 sec' b'[bwa_index] Construct SA from BWT and Occ... 1.17 sec' b'[main] Version: 0.7.17-r1188' b'[main] CMD: /usr/bin/bwa index /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig.fna' b'[main] Real time: 9.989 sec; CPU: 3.149 sec' b'' [tn_preprocess] /usr/bin/bwa mem /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig.fna /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.trimmed1 > /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.sam b'[M::bwa_idx_load_from_disk] read 0 ALT contigs' b'[M::process] read 2500 sequences (304052 bp)...' b'[M::mem_process_seqs] Processed 2500 reads in 0.193 CPU sec, 0.531 real sec' b'[main] Version: 0.7.17-r1188' b'[main] CMD: /usr/bin/bwa mem /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig.fna /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.trimmed1' b'[main] Real time: 0.568 sec; CPU: 0.202 sec' b'' [tn_preprocess] tabulating template counts and statistics for reference genome /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig.fna /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytpp/tpp_tools.py:387: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig.fna' mode='r' encoding='UTF-8'> for line in open(filename): ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytpp/tpp_tools.py:569: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.sam' mode='r' encoding='UTF-8'> for line in open(sam): ResourceWarning: Enable tracemalloc to get the object allocation traceback [tn_preprocess] writing /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp_1.wig [tn_preprocess] writing /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp_2.wig [tn_preprocess] writing /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp_3.wig /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytpp/tpp_tools.py:1118: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.reads1' mode='r' encoding='UTF-8'> read_length = get_read_length(vars.base + ".reads1") ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytpp/tpp_tools.py:1119: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.trimmed1' mode='r' encoding='UTF-8'> mean_r1_genomic = get_genomic_portion(vars.base + ".trimmed1") ResourceWarning: Enable tracemalloc to get the object allocation traceback /build/reproducible-path/tnseq-transit-3.3.4/tests/../src/pytpp/tpp_tools.py:1197: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.trimmed1' mode='r' encoding='UTF-8'> for line in open(vars.trimmed1): ResourceWarning: Enable tracemalloc to get the object allocation traceback [tn_preprocess] writing /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.tn_stats [tn_preprocess] Done. ok test_tpp_multicontig_empty_prefix (tests.test_tpp.TestTPP.test_tpp_multicontig_empty_prefix) ... [tn_preprocess] running pre-processing on /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig-1.fastq and [tn_preprocess] protocol: Sassetti [tn_preprocess] transposon type: Himar1 [tn_preprocess] One reference genome specified: /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig.fna, containing 3 records. [tn_preprocess] extracting reads... [tn_preprocess] fastq2reads: /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig-1.fastq -> /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.reads1 [tn_preprocess] assuming single-ended reads [tn_preprocess] creating /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.trimmed1 [tn_preprocess] prefix sequence: [tn_preprocess] Looking for start of Tn prefix within P,Q = [0,20] [tn_preprocess] mapping reads using BWA...(this takes a couple of minutes) [tn_preprocess] /usr/bin/bwa mem /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig.fna /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.trimmed1 > /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.sam b'[M::bwa_idx_load_from_disk] read 0 ALT contigs' b'[M::process] read 2500 sequences (304052 bp)...' b'[M::mem_process_seqs] Processed 2500 reads in 0.202 CPU sec, 0.527 real sec' b'[main] Version: 0.7.17-r1188' b'[main] CMD: /usr/bin/bwa mem /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig.fna /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.trimmed1' b'[main] Real time: 0.564 sec; CPU: 0.211 sec' b'' [tn_preprocess] tabulating template counts and statistics for reference genome /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig.fna [tn_preprocess] writing /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp_a.wig [tn_preprocess] writing /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp_b.wig [tn_preprocess] writing /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp_c.wig [tn_preprocess] writing /build/reproducible-path/tnseq-transit-3.3.4/tests/test_tpp_temp.tn_stats [tn_preprocess] Done. ok test_tpp_noflag_primer (tests.test_tpp.TestTPP.test_tpp_noflag_primer) ... skipped 'requires local data file' test_tpp_protocol_mme1 (tests.test_tpp.TestTPP.test_tpp_protocol_mme1) ... skipped 'requires local data file' ---------------------------------------------------------------------- Ran 39 tests in 267.768s OK (skipped=6) [resampling] [resampling] Performing Benjamini-Hochberg Correction [resampling] Number of significant conditionally essential genes (Padj<0.05): 0 [resampling] Time: 1.44s [resampling] Finished resampling Method Removing output file... #################### tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_flag_arguments_w_quotes #################### #################### tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_flag_arguments_with_double_dash #################### #################### tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_flag_without_arguments #################### #################### tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_negative_arguments #################### #################### tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_positional_arguments #################### #################### tests.test_pytransit_tools.TestTnSeqTools.test_cleanargs_positional_arguments_w_quotes #################### #################### tests.test_pytransit_tools.TestTnSeqTools.test_file_types #################### #################### tests.test_pytransit_tools.TestTnSeqTools.test_genes_creation_fromdata #################### #################### tests.test_pytransit_tools.TestTnSeqTools.test_genes_creation_fromwig #################### #################### tests.test_pytransit_tools.TestTnSeqTools.test_normalization #################### #################### tests.test_pytransit_tools.TestTnSeqTools.test_read_data #################### #################### tests.test_tpp.TestTPP.test_tpp_multicontig_auto_replicon_ids #################### /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig-1.fastq # title: Tn-Seq Pre-Processor # date: 06/02/2025 11:54:46 # command: python python3.11 -m unittest -v tests/test_analysis_methods.py tests/test_norm_methods.py tests/test_pytransit_tools.py tests/test_tpp.py tests/transit_test.py # transposon type: Himar1 # protocol type: Sassetti # bwa flags: # read1: /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig-1.fastq # read2: # ref_genome: /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig.fna # replicon_ids: 1,2,3 # total_reads (or read pairs): 2500 # truncated_reads 156 (genomic inserts shorter than the read length; ADAP2 appears in read1) # trimmed_reads (reads with valid Tn prefix, and insert size>20bp): 2512 # reads1_mapped: 2116 # reads2_mapped: 0 # mapped_reads (both R1 and R2 map into genome, and R2 has a proper barcode): 2116 # read_count (TA sites only, for Himar1): # 1: 63 # 2: 0 # 3: 0 # template_count: # 1: 63 # 2: 0 # 3: 0 # template_ratio (reads per template): # 1: 1.00 # 2: 0.00 # 3: 0.00 # TA_sites: # 1: 89994 # 2: 646 # 3: 664 # TAs_hit: # 1: 63 # 2: 0 # 3: 0 # density: # 1: 0.001 # 2: 0.000 # 3: 0.000 # max_count (among templates): # 1: 1 # 2: 0 # 3: 0 # max_site (coordinate): # 1: 4977050 # 2: 57441 # 3: 38111 # NZ_mean (among templates): # 1: 1.0 # 2: 0.0 # 3: 0.0 # FR_corr (Fwd templates vs. Rev templates): # 1: -0.000 # 2: nan # 3: nan # BC_corr (reads vs. templates, summed over both strands): # 1: nan # 2: nan # 3: nan # Break-down of total reads (2500): # -12 reads (-0.5%) lack the expected Tn prefix # Break-down of trimmed reads with valid Tn prefix (2500): # primer_matches: 36 reads (1.4%) contain CTAGAGGGCCCAATTCGCCCTATAGTGAGT (Himar1) # vector_matches: 36 reads (1.4%) contain CTAGACCGTCCAGTCTGGCAGGCCGGAAAC (phiMycoMarT7) # adapter_matches: 14 reads (0.6%) contain GATCGGAAGAGCACACGTCTGAACTCCAGTCAC (Illumina/TruSeq index) # misprimed_reads: 17 reads (0.7%) contain Himar1 prefix but don't end in TGTTA # read_length: 125 bp # mean_R1_genomic_length: 121.6 bp Removing tpp test file Removing tpp test file Removing tpp test file Removing tpp test file Removing tpp test file Removing tpp test file Removing tpp test file Removing tpp test file #################### tests.test_tpp.TestTPP.test_tpp_multicontig_empty_prefix #################### /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig-1.fastq # title: Tn-Seq Pre-Processor # date: 06/02/2025 11:54:50 # command: python python3.11 -m unittest -v tests/test_analysis_methods.py tests/test_norm_methods.py tests/test_pytransit_tools.py tests/test_tpp.py tests/transit_test.py # transposon type: Himar1 # protocol type: Sassetti # bwa flags: # read1: /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig-1.fastq # read2: # ref_genome: /build/reproducible-path/tnseq-transit-3.3.4/tests/data/test-multicontig.fna # replicon_ids: a,b,c # total_reads (or read pairs): 2500 # truncated_reads 156 (genomic inserts shorter than the read length; ADAP2 appears in read1) # trimmed_reads (reads with valid Tn prefix, and insert size>20bp): 2512 # reads1_mapped: 2116 # reads2_mapped: 0 # mapped_reads (both R1 and R2 map into genome, and R2 has a proper barcode): 2116 # read_count (TA sites only, for Himar1): # a: 63 # b: 0 # c: 0 # template_count: # a: 63 # b: 0 # c: 0 # template_ratio (reads per template): # a: 1.00 # b: 0.00 # c: 0.00 # TA_sites: # a: 89994 # b: 646 # c: 664 # TAs_hit: # a: 63 # b: 0 # c: 0 # density: # a: 0.001 # b: 0.000 # c: 0.000 # max_count (among templates): # a: 1 # b: 0 # c: 0 # max_site (coordinate): # a: 4977050 # b: 57441 # c: 38111 # NZ_mean (among templates): # a: 1.0 # b: 0.0 # c: 0.0 # FR_corr (Fwd templates vs. Rev templates): # a: -0.000 # b: nan # c: nan # BC_corr (reads vs. templates, summed over both strands): # a: nan # b: nan # c: nan # Break-down of total reads (2500): # -12 reads (-0.5%) lack the expected Tn prefix # Break-down of trimmed reads with valid Tn prefix (2500): # primer_matches: 36 reads (1.4%) contain CTAGAGGGCCCAATTCGCCCTATAGTGAGT (Himar1) # vector_matches: 36 reads (1.4%) contain CTAGACCGTCCAGTCTGGCAGGCCGGAAAC (phiMycoMarT7) # adapter_matches: 14 reads (0.6%) contain GATCGGAAGAGCACACGTCTGAACTCCAGTCAC (Illumina/TruSeq index) # misprimed_reads: 17 reads (0.7%) contain Himar1 prefix but don't end in TGTTA # read_length: 125 bp # mean_R1_genomic_length: 121.6 bp Removing tpp test file Removing tpp test file Removing tpp test file Removing tpp test file Removing tpp test file Removing tpp test file Removing tpp test file Removing tpp test file make[1]: Leaving directory '/build/reproducible-path/tnseq-transit-3.3.4' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install --destdir=debian/tnseq-transit/ -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit running install /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` directly. Instead, use pypa/build, pypa/installer or other standards-based tools. See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. ******************************************************************************** !! self.initialize_options() running build running build_py running egg_info writing tnseq_transit.egg-info/PKG-INFO writing dependency_links to tnseq_transit.egg-info/dependency_links.txt writing entry points to tnseq_transit.egg-info/entry_points.txt writing requirements to tnseq_transit.egg-info/requires.txt writing top-level names to tnseq_transit.egg-info/top_level.txt reading manifest file 'tnseq_transit.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'VERSION' warning: no files found matching '*.html' under directory 'src/pytransit/doc/build/html' warning: no files found matching '*.png' under directory 'src/pytransit/doc/build/html/_images' warning: no files found matching '*' under directory 'src/pytransit/doc/build/html/_modules' warning: no files found matching '*' under directory 'src/pytransit/doc/build/html/_static' adding license file 'LICENSE.md' writing manifest file 'tnseq_transit.egg-info/SOURCES.txt' /usr/lib/python3/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'pytransit.data' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pytransit.data' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pytransit.data' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pytransit.data' to be distributed and are already explicitly excluding 'pytransit.data' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'pytransit.data.CGI' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pytransit.data.CGI' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pytransit.data.CGI' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pytransit.data.CGI' to be distributed and are already explicitly excluding 'pytransit.data.CGI' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'pytransit.genomes' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pytransit.genomes' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pytransit.genomes' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pytransit.genomes' to be distributed and are already explicitly excluding 'pytransit.genomes' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) running install_lib creating /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr creating /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib creating /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11 creating /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages creating /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytpp copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytpp/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytpp copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytpp/__main__.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytpp copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytpp/tpp_gui.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytpp copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytpp/tpp_tools.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytpp creating /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit creating /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes/mc2_155_tamu.prot_table -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes/mc2_155_tamu.fna -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes/genomes.html -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes/H37RvMA2.prot_table -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes/H37RvMA2.fna -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes/H37RvBD_mod3.prot_table -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes/H37RvBD.prot_table -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes/H37RvBD.fna -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes/H37Rv.prot_table -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes/H37Rv.fna -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes/BCG.prot_table -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/genomes/BCG.fna -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/genomes creating /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data creating /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data/CGI copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI/uninduced_ATC_counts.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data/CGI copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI/temp_frac_abund.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data/CGI copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI/temp_cdr.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data/CGI copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI/sgRNA_info.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data/CGI copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI/samples_metadata.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data/CGI copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI/RIF_D1_combined_counts.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data/CGI copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/CGI/IDs.H37Rv.CRISPRi.lib.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data/CGI copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/smeg_GO_terms.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/smeg_COG_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/sanger_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/samples_metadata_cg_interactions.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/samples_metadata_cg_covar.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/samples_metadata_cg.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/iron_samples_metadata.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/iron_combined_wig4.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/glycerol_H37Rv_rep2.wig -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/glycerol_H37Rv_rep1.wig -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/glycerol_H37Rv_merged.wig -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/gene_ontology.1_2.3-11-18.obo -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/cholesterol_glycerol_combined.dat -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/cholesterol_H37Rv_rep3.wig -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/cholesterol_H37Rv_rep2.wig -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/cholesterol_H37Rv_rep1.wig -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/cholesterol_H37Rv_merged.wig -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/README.md -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/H37Rv_sanger_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/H37Rv_GO_terms.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/H37Rv_COG_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/H37Rv.sanger_associated_RVS.csv -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/GO_terms_for_each_Rv.obo-3-11-18.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/GO_term_names.dat -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/GO_associated_Rvs.csv -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/GO_associated_Rvs-3-11-18.txt -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/data/COG_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/data creating /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/CGI.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/anova.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/base.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/binomial.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/corrplot.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/example.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/gi.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/griffin.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/gumbel.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/heatmap.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/hmm.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/norm.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/normalize.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/pathway_enrichment.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/rankproduct.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/resampling.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/tn5gaps.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/tnseq_stats.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/ttnfitness.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/utest.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/analysis/zinb.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis creating /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/convert copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/convert/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/convert copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/convert/base.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/convert copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/convert/gff_to_prot_table.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/convert creating /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/export copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/export/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/export copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/export/base.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/export copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/export/combined_wig.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/export copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/export/igv.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/export copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/export/mean_counts.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/export copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/export/prot_table.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/export copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/__main__.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/draw_trash.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/fileDisplay.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/images.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/norm_tools.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/qcDisplay.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/stat_tools.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/tnseq_tools.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/transit_gui.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/transit_tools.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/trash.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.4/.pybuild/cpython3_3.11/build/pytransit/view_trash.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytpp/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytpp/__main__.py to __main__.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytpp/tpp_gui.py to tpp_gui.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytpp/tpp_tools.py to tpp_tools.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/CGI.py to CGI.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/anova.py to anova.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/base.py to base.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/binomial.py to binomial.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/corrplot.py to corrplot.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/example.py to example.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/gi.py to gi.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/griffin.py to griffin.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/gumbel.py to gumbel.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/heatmap.py to heatmap.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/hmm.py to hmm.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/norm.py to norm.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/normalize.py to normalize.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/pathway_enrichment.py to pathway_enrichment.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/rankproduct.py to rankproduct.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/resampling.py to resampling.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/tn5gaps.py to tn5gaps.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/tnseq_stats.py to tnseq_stats.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/ttnfitness.py to ttnfitness.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/utest.py to utest.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/analysis/zinb.py to zinb.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/convert/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/convert/base.py to base.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/convert/gff_to_prot_table.py to gff_to_prot_table.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/export/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/export/base.py to base.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/export/combined_wig.py to combined_wig.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/export/igv.py to igv.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/export/mean_counts.py to mean_counts.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/export/prot_table.py to prot_table.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/__init__.py to __init__.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/__main__.py to __main__.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/draw_trash.py to draw_trash.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/fileDisplay.py to fileDisplay.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/images.py to images.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/norm_tools.py to norm_tools.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/qcDisplay.py to qcDisplay.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/stat_tools.py to stat_tools.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/tnseq_tools.py to tnseq_tools.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/transit_gui.py to transit_gui.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/transit_tools.py to transit_tools.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/trash.py to trash.cpython-311.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytransit/view_trash.py to view_trash.cpython-311.pyc running install_egg_info Copying tnseq_transit.egg-info to /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/tnseq_transit-3.3.4.egg-info Skipping SOURCES.txt running install_scripts Installing tpp script to /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/bin Installing transit script to /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/bin debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/tnseq-transit-3.3.4' dh_install mv debian/tnseq-transit/usr/bin/tpp debian/tnseq-transit/usr/bin/transit-tpp make[1]: Leaving directory '/build/reproducible-path/tnseq-transit-3.3.4' dh_installdocs -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild dh_installman -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild dh_installsystemduser -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild dh_compress -O--buildsystem=pybuild dh_fixperms -O--buildsystem=pybuild dh_missing -O--buildsystem=pybuild dh_dwz -a -O--buildsystem=pybuild dh_strip -a -O--buildsystem=pybuild dh_makeshlibs -a -O--buildsystem=pybuild dh_shlibdeps -a -O--buildsystem=pybuild dh_installdeb -O--buildsystem=pybuild dh_gencontrol -O--buildsystem=pybuild dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'tnseq-transit' in '../tnseq-transit_3.3.4-1_arm64.deb'. dpkg-genbuildinfo --build=binary -O../tnseq-transit_3.3.4-1_arm64.buildinfo dpkg-genchanges --build=binary -O../tnseq-transit_3.3.4-1_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/2221546/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/2221546/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/2221546 and its subdirectories I: Current time: Mon Jun 2 11:57:05 +14 2025 I: pbuilder-time-stamp: 1748815025