I: pbuilder: network access will be disabled during build I: Current time: Fri Apr 26 10:06:09 +14 2024 I: pbuilder-time-stamp: 1714075569 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/19195/tmp/hooks/D01_modify_environment starting debug: Running on virt64z. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash '/bin/sh' -> '/bin/bash' lrwxrwxrwx 1 root root 9 Apr 25 20:06 /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/19195/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/19195/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]="arm-unknown-linux-gnueabihf") 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=armhf DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=4 ' DIRSTACK=() DISTRIBUTION=trixie EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=arm HOST_ARCH=armhf IFS=' ' INVOCATION_ID=cd4a003863424b25afebc627767478f8 LANG=C LANGUAGE=it_CH:it LC_ALL=C MACHTYPE=arm-unknown-linux-gnueabihf MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnueabihf PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=19195 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.XbkzEjZB/pbuilderrc_SZCB --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.XbkzEjZB/b2 --logfile b2/build.log tnseq-transit_3.3.4-1.dsc' SUDO_GID=110 SUDO_UID=103 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://10.0.0.15:3142/ I: uname -a Linux i-capture-the-hostname 6.1.0-20-arm64 #1 SMP Debian 6.1.85-1 (2024-04-11) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Apr 23 11:25 /bin -> usr/bin I: user script /srv/workspace/pbuilder/19195/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: armhf Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), 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 ... 19638 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} 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} libblas3{a} libbrotli1{a} libbsd0{a} libdebhelper-perl{a} libdeflate0{a} libelf1{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgfortran5{a} libglib2.0-0{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} libpng16-16{a} libproc2-0{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.11{a} libpython3.11-dev{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libqhull-r8.0{a} libraqm0{a} libreadline8{a} libsharpyuv0{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-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-unicodedata2{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 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, 150 newly installed, 0 to remove and 0 not upgraded. Need to get 129 MB of archives. After unpacking 528 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main armhf libpython3.11-minimal armhf 3.11.8-1 [802 kB] Get: 2 http://deb.debian.org/debian trixie/main armhf libexpat1 armhf 2.6.2-1 [83.5 kB] Get: 3 http://deb.debian.org/debian trixie/main armhf python3.11-minimal armhf 3.11.8-1 [1707 kB] Get: 4 http://deb.debian.org/debian trixie/main armhf python3-minimal armhf 3.11.6-1 [26.2 kB] Get: 5 http://deb.debian.org/debian trixie/main armhf media-types all 10.1.0 [26.9 kB] Get: 6 http://deb.debian.org/debian trixie/main armhf netbase all 6.4 [12.8 kB] Get: 7 http://deb.debian.org/debian trixie/main armhf tzdata all 2024a-1 [255 kB] Get: 8 http://deb.debian.org/debian trixie/main armhf readline-common all 8.2-4 [69.3 kB] Get: 9 http://deb.debian.org/debian trixie/main armhf libreadline8 armhf 8.2-3+b1 [144 kB] Get: 10 http://deb.debian.org/debian trixie/main armhf libpython3.11-stdlib armhf 3.11.8-1 [1709 kB] Get: 11 http://deb.debian.org/debian trixie/main armhf python3.11 armhf 3.11.8-1 [597 kB] Get: 12 http://deb.debian.org/debian trixie/main armhf libpython3-stdlib armhf 3.11.6-1 [9224 B] Get: 13 http://deb.debian.org/debian trixie/main armhf python3 armhf 3.11.6-1 [26.2 kB] Get: 14 http://deb.debian.org/debian trixie/main armhf libpython3.12-minimal armhf 3.12.2-1 [793 kB] Get: 15 http://deb.debian.org/debian trixie/main armhf python3.12-minimal armhf 3.12.2-1 [1845 kB] Get: 16 http://deb.debian.org/debian trixie/main armhf libproc2-0 armhf 2:4.0.4-4 [55.7 kB] Get: 17 http://deb.debian.org/debian trixie/main armhf procps armhf 2:4.0.4-4 [864 kB] Get: 18 http://deb.debian.org/debian trixie/main armhf sensible-utils all 0.0.22 [22.4 kB] Get: 19 http://deb.debian.org/debian trixie/main armhf libmagic-mgc armhf 1:5.45-2+b1 [314 kB] Get: 20 http://deb.debian.org/debian trixie/main armhf libmagic1 armhf 1:5.45-2+b1 [97.9 kB] Get: 21 http://deb.debian.org/debian trixie/main armhf file armhf 1:5.45-2+b1 [42.2 kB] Get: 22 http://deb.debian.org/debian trixie/main armhf gettext-base armhf 0.21-14+b1 [157 kB] Get: 23 http://deb.debian.org/debian trixie/main armhf libuchardet0 armhf 0.0.8-1+b1 [65.7 kB] Get: 24 http://deb.debian.org/debian trixie/main armhf groff-base armhf 1.23.0-3 [1088 kB] Get: 25 http://deb.debian.org/debian trixie/main armhf bsdextrautils armhf 2.39.3-6 [81.2 kB] Get: 26 http://deb.debian.org/debian trixie/main armhf libpipeline1 armhf 1.5.7-2 [33.3 kB] Get: 27 http://deb.debian.org/debian trixie/main armhf man-db armhf 2.12.0-3 [1367 kB] Get: 28 http://deb.debian.org/debian trixie/main armhf m4 armhf 1.4.19-4 [264 kB] Get: 29 http://deb.debian.org/debian trixie/main armhf autoconf all 2.71-3 [332 kB] Get: 30 http://deb.debian.org/debian trixie/main armhf autotools-dev all 20220109.1 [51.6 kB] Get: 31 http://deb.debian.org/debian trixie/main armhf automake all 1:1.16.5-1.3 [823 kB] Get: 32 http://deb.debian.org/debian trixie/main armhf autopoint all 0.21-14 [496 kB] Get: 33 http://deb.debian.org/debian trixie/main armhf libtcl8.6 armhf 8.6.14+dfsg-1 [928 kB] Get: 34 http://deb.debian.org/debian trixie/main armhf libbrotli1 armhf 1.1.0-2+b3 [284 kB] Get: 35 http://deb.debian.org/debian trixie/main armhf libpng16-16 armhf 1.6.43-1 [262 kB] Get: 36 http://deb.debian.org/debian trixie/main armhf libfreetype6 armhf 2.13.2+dfsg-1+b1 [371 kB] Get: 37 http://deb.debian.org/debian trixie/main armhf fonts-dejavu-mono all 2.37-8 [489 kB] Get: 38 http://deb.debian.org/debian trixie/main armhf fonts-dejavu-core all 2.37-8 [840 kB] Get: 39 http://deb.debian.org/debian trixie/main armhf fontconfig-config armhf 2.15.0-1.1 [317 kB] Get: 40 http://deb.debian.org/debian trixie/main armhf libfontconfig1 armhf 2.15.0-1.1 [370 kB] Get: 41 http://deb.debian.org/debian trixie/main armhf libxau6 armhf 1:1.0.9-1 [19.0 kB] Get: 42 http://deb.debian.org/debian trixie/main armhf libbsd0 armhf 0.12.2-1 [127 kB] Get: 43 http://deb.debian.org/debian trixie/main armhf libxdmcp6 armhf 1:1.1.2-3 [24.9 kB] Get: 44 http://deb.debian.org/debian trixie/main armhf libxcb1 armhf 1.15-1 [140 kB] Get: 45 http://deb.debian.org/debian trixie/main armhf libx11-data all 2:1.8.7-1 [328 kB] Get: 46 http://deb.debian.org/debian trixie/main armhf libx11-6 armhf 2:1.8.7-1 [735 kB] Get: 47 http://deb.debian.org/debian trixie/main armhf libxrender1 armhf 1:0.9.10-1.1 [30.1 kB] Get: 48 http://deb.debian.org/debian trixie/main armhf libxft2 armhf 2.3.6-1+b1 [46.4 kB] Get: 49 http://deb.debian.org/debian trixie/main armhf libxext6 armhf 2:1.3.4-1+b1 [47.8 kB] Get: 50 http://deb.debian.org/debian trixie/main armhf x11-common all 1:7.7+23 [252 kB] Get: 51 http://deb.debian.org/debian trixie/main armhf libxss1 armhf 1:1.2.3-1 [17.2 kB] Get: 52 http://deb.debian.org/debian trixie/main armhf libtk8.6 armhf 8.6.14-1 [693 kB] Get: 53 http://deb.debian.org/debian trixie/main armhf tk8.6-blt2.5 armhf 2.5.3+dfsg-7 [481 kB] Get: 54 http://deb.debian.org/debian trixie/main armhf blt armhf 2.5.3+dfsg-7 [6024 B] Get: 55 http://deb.debian.org/debian trixie/main armhf bwa armhf 0.7.17-7+b3 [195 kB] Get: 56 http://deb.debian.org/debian trixie/main armhf libdebhelper-perl all 13.15.3 [88.0 kB] Get: 57 http://deb.debian.org/debian trixie/main armhf libtool all 2.4.7-7 [517 kB] Get: 58 http://deb.debian.org/debian trixie/main armhf dh-autoreconf all 20 [17.1 kB] Get: 59 http://deb.debian.org/debian trixie/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 60 http://deb.debian.org/debian trixie/main armhf libsub-override-perl all 0.10-1 [10.6 kB] Get: 61 http://deb.debian.org/debian trixie/main armhf libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 62 http://deb.debian.org/debian trixie/main armhf dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 63 http://deb.debian.org/debian trixie/main armhf libelf1 armhf 0.190-1+b1 [171 kB] Get: 64 http://deb.debian.org/debian trixie/main armhf dwz armhf 0.15-1 [101 kB] Get: 65 http://deb.debian.org/debian trixie/main armhf libicu72 armhf 72.1-4+b1 [9070 kB] Get: 66 http://deb.debian.org/debian trixie/main armhf libxml2 armhf 2.9.14+dfsg-1.3+b2 [599 kB] Get: 67 http://deb.debian.org/debian trixie/main armhf gettext armhf 0.21-14+b1 [1230 kB] Get: 68 http://deb.debian.org/debian trixie/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 69 http://deb.debian.org/debian trixie/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 70 http://deb.debian.org/debian trixie/main armhf debhelper all 13.15.3 [901 kB] Get: 71 http://deb.debian.org/debian trixie/main armhf python3-pkg-resources all 68.1.2-2 [241 kB] Get: 72 http://deb.debian.org/debian trixie/main armhf python3-lib2to3 all 3.11.5-1 [77.5 kB] Get: 73 http://deb.debian.org/debian trixie/main armhf python3-distutils all 3.11.5-1 [131 kB] Get: 74 http://deb.debian.org/debian trixie/main armhf python3-setuptools all 68.1.2-2 [468 kB] Get: 75 http://deb.debian.org/debian trixie/main armhf dh-python all 6.20240422 [107 kB] Get: 76 http://deb.debian.org/debian trixie/main armhf fonts-lyx all 2.4.0~RC3-1 [189 kB] Get: 77 http://deb.debian.org/debian trixie/main armhf libblas3 armhf 3.12.0-3 [108 kB] Get: 78 http://deb.debian.org/debian trixie/main armhf libdeflate0 armhf 1.20-1 [35.9 kB] Get: 79 http://deb.debian.org/debian trixie/main armhf libexpat1-dev armhf 2.6.2-1 [140 kB] Get: 80 http://deb.debian.org/debian trixie/main armhf libfribidi0 armhf 1.0.13-3+b1 [69.4 kB] Get: 81 http://deb.debian.org/debian trixie/main armhf libgfortran5 armhf 14-20240330-1 [264 kB] Get: 82 http://deb.debian.org/debian trixie/main armhf libglib2.0-0 armhf 2.78.4-1 [1281 kB] Get: 83 http://deb.debian.org/debian trixie/main armhf libgraphite2-3 armhf 1.3.14-2 [63.2 kB] Get: 84 http://deb.debian.org/debian trixie/main armhf libharfbuzz0b armhf 8.3.0-2 [2155 kB] Get: 85 http://deb.debian.org/debian trixie/main armhf libimagequant0 armhf 2.18.0-1 [30.4 kB] Get: 86 http://deb.debian.org/debian trixie/main armhf libjbig0 armhf 2.1-6.1+b1 [27.3 kB] Get: 87 http://deb.debian.org/debian trixie/main armhf libjpeg62-turbo armhf 1:2.1.5-2+b2 [143 kB] Get: 88 http://deb.debian.org/debian trixie/main armhf libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 89 http://deb.debian.org/debian trixie/main armhf libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get: 90 http://deb.debian.org/debian trixie/main armhf libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 91 http://deb.debian.org/debian trixie/main armhf libjs-sphinxdoc all 7.2.6-6 [150 kB] Get: 92 http://deb.debian.org/debian trixie/main armhf liblapack3 armhf 3.12.0-3 [1803 kB] Get: 93 http://deb.debian.org/debian trixie/main armhf liblbfgsb0 armhf 3.0+dfsg.4-1+b1 [25.5 kB] Get: 94 http://deb.debian.org/debian trixie/main armhf liblcms2-2 armhf 2.14-2+b1 [126 kB] Get: 95 http://deb.debian.org/debian trixie/main armhf liblerc4 armhf 4.0.0+ds-4+b1 [137 kB] Get: 96 http://deb.debian.org/debian trixie/main armhf libopenjp2-7 armhf 2.5.0-2+b3 [170 kB] Get: 97 http://deb.debian.org/debian trixie/main armhf libpython3.11 armhf 3.11.8-1 [1710 kB] Get: 98 http://deb.debian.org/debian trixie/main armhf zlib1g-dev armhf 1:1.3.dfsg-3+b1 [904 kB] Get: 99 http://deb.debian.org/debian trixie/main armhf libpython3.11-dev armhf 3.11.8-1 [3420 kB] Get: 100 http://deb.debian.org/debian trixie/main armhf libpython3-dev armhf 3.11.6-1 [9456 B] Get: 101 http://deb.debian.org/debian trixie/main armhf libpython3.12-stdlib armhf 3.12.2-1 [1800 kB] Get: 102 http://deb.debian.org/debian trixie/main armhf libqhull-r8.0 armhf 2020.2-6+b1 [219 kB] Get: 103 http://deb.debian.org/debian trixie/main armhf libraqm0 armhf 0.10.1-1+b1 [11.8 kB] Get: 104 http://deb.debian.org/debian trixie/main armhf libsharpyuv0 armhf 1.3.2-0.4+b1 [106 kB] Get: 105 http://deb.debian.org/debian trixie/main armhf libwebp7 armhf 1.3.2-0.4+b1 [262 kB] Get: 106 http://deb.debian.org/debian trixie/main armhf libtiff6 armhf 4.5.1+git230720-4 [301 kB] Get: 107 http://deb.debian.org/debian trixie/main armhf libwebpdemux2 armhf 1.3.2-0.4+b1 [107 kB] Get: 108 http://deb.debian.org/debian trixie/main armhf libwebpmux3 armhf 1.3.2-0.4+b1 [116 kB] Get: 109 http://deb.debian.org/debian trixie/main armhf libxslt1.1 armhf 1.1.35-1 [223 kB] Get: 110 http://deb.debian.org/debian trixie/main armhf python-matplotlib-data all 3.6.3-1 [2744 kB] Get: 111 http://deb.debian.org/debian trixie/main armhf python3-appdirs all 1.4.4-4 [12.5 kB] Get: 112 http://deb.debian.org/debian trixie/main armhf python3-attr all 23.2.0-2 [65.5 kB] Get: 113 http://deb.debian.org/debian trixie/main armhf python3-brotli armhf 1.1.0-2+b3 [304 kB] Get: 114 http://deb.debian.org/debian trixie/main armhf python3.12 armhf 3.12.2-1 [653 kB] Get: 115 http://deb.debian.org/debian trixie/main armhf python3-numpy armhf 1:1.24.2-2 [4016 kB] Get: 116 http://deb.debian.org/debian trixie/main armhf python3-contourpy armhf 1.0.7-3 [231 kB] Get: 117 http://deb.debian.org/debian trixie/main armhf python3-cycler all 0.12.1-1 [9496 B] Get: 118 http://deb.debian.org/debian trixie/main armhf python3-six all 1.16.0-6 [16.3 kB] Get: 119 http://deb.debian.org/debian trixie/main armhf python3-dateutil all 2.9.0-2 [79.4 kB] Get: 120 http://deb.debian.org/debian trixie/main armhf python3-decorator all 5.1.1-5 [15.1 kB] Get: 121 http://deb.debian.org/debian trixie/main armhf python3.11-dev armhf 3.11.8-1 [509 kB] Get: 122 http://deb.debian.org/debian trixie/main armhf python3-dev armhf 3.11.6-1 [26.1 kB] Get: 123 http://deb.debian.org/debian trixie/main armhf python3-scipy armhf 1.11.4-6 [16.9 MB] Get: 124 http://deb.debian.org/debian trixie/main armhf python3-ufolib2 all 0.16.0+dfsg1-1 [32.9 kB] Get: 125 http://deb.debian.org/debian trixie/main armhf python3-mpmath all 1.3.0-1 [419 kB] Get: 126 http://deb.debian.org/debian trixie/main armhf python3-sympy all 1.12-7 [3869 kB] Get: 127 http://deb.debian.org/debian trixie/main armhf python3-tz all 2024.1-2 [30.9 kB] Get: 128 http://deb.debian.org/debian trixie/main armhf python3-fs all 2.4.16-4 [95.4 kB] Get: 129 http://deb.debian.org/debian trixie/main armhf python3-lxml armhf 5.1.0-1 [1878 kB] Get: 130 http://deb.debian.org/debian trixie/main armhf python3-lz4 armhf 4.0.2+dfsg-1+b3 [24.4 kB] Get: 131 http://deb.debian.org/debian trixie/main armhf python3-unicodedata2 armhf 15.1.0+ds-1+b1 [297 kB] Get: 132 http://deb.debian.org/debian trixie/main armhf unicode-data all 15.1.0-1 [8547 kB] Get: 133 http://deb.debian.org/debian trixie/main armhf python3-fonttools armhf 4.46.0-1 [1536 kB] Get: 134 http://deb.debian.org/debian trixie/main armhf python3-joblib all 1.3.2-2 [218 kB] Get: 135 http://deb.debian.org/debian trixie/main armhf python3-kiwisolver armhf 1.4.4-3 [68.5 kB] Get: 136 http://deb.debian.org/debian trixie/main armhf python3-pil armhf 10.3.0-2 [521 kB] Get: 137 http://deb.debian.org/debian trixie/main armhf python3-tk armhf 3.11.5-1 [104 kB] Get: 138 http://deb.debian.org/debian trixie/main armhf python3-pil.imagetk armhf 10.3.0-2 [79.1 kB] Get: 139 http://deb.debian.org/debian trixie/main armhf python3-pyparsing all 3.1.2-1 [146 kB] Get: 140 http://deb.debian.org/debian trixie/main armhf python3-packaging all 24.0-1 [45.5 kB] Get: 141 http://deb.debian.org/debian trixie/main armhf python3-matplotlib armhf 3.6.3-1+b2 [7935 kB] Get: 142 http://deb.debian.org/debian trixie/main armhf python3-pandas-lib armhf 2.1.4+dfsg-5 [7000 kB] Get: 143 http://deb.debian.org/debian trixie/main armhf python3-pandas all 2.1.4+dfsg-5 [3015 kB] Get: 144 http://deb.debian.org/debian trixie/main armhf python3-patsy all 0.5.6-1 [173 kB] Get: 145 http://deb.debian.org/debian trixie/main armhf python3-pubsub all 4.0.3-7 [46.7 kB] Get: 146 http://deb.debian.org/debian trixie/main armhf python3-threadpoolctl all 3.1.0-1 [21.2 kB] Get: 147 http://deb.debian.org/debian trixie/main armhf python3-sklearn-lib armhf 1.4.1.post1+dfsg-1 [5564 kB] Get: 148 http://deb.debian.org/debian trixie/main armhf python3-sklearn all 1.4.1.post1+dfsg-1 [2246 kB] Get: 149 http://deb.debian.org/debian trixie/main armhf python3-statsmodels-lib armhf 0.14.1+dfsg-2 [2131 kB] Get: 150 http://deb.debian.org/debian trixie/main armhf python3-statsmodels all 0.14.1+dfsg-2 [4826 kB] Fetched 129 MB in 2s (67.1 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.11-minimal:armhf. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19638 files and directories currently installed.) Preparing to unpack .../libpython3.11-minimal_3.11.8-1_armhf.deb ... Unpacking libpython3.11-minimal:armhf (3.11.8-1) ... Selecting previously unselected package libexpat1:armhf. Preparing to unpack .../libexpat1_2.6.2-1_armhf.deb ... Unpacking libexpat1:armhf (2.6.2-1) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../python3.11-minimal_3.11.8-1_armhf.deb ... Unpacking python3.11-minimal (3.11.8-1) ... Setting up libpython3.11-minimal:armhf (3.11.8-1) ... Setting up libexpat1:armhf (2.6.2-1) ... Setting up python3.11-minimal (3.11.8-1) ... 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 ... 19954 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.11.6-1_armhf.deb ... Unpacking python3-minimal (3.11.6-1) ... 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-1_all.deb ... Unpacking tzdata (2024a-1) ... 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 libreadline8:armhf. Preparing to unpack .../5-libreadline8_8.2-3+b1_armhf.deb ... Unpacking libreadline8:armhf (8.2-3+b1) ... Selecting previously unselected package libpython3.11-stdlib:armhf. Preparing to unpack .../6-libpython3.11-stdlib_3.11.8-1_armhf.deb ... Unpacking libpython3.11-stdlib:armhf (3.11.8-1) ... Selecting previously unselected package python3.11. Preparing to unpack .../7-python3.11_3.11.8-1_armhf.deb ... Unpacking python3.11 (3.11.8-1) ... Selecting previously unselected package libpython3-stdlib:armhf. Preparing to unpack .../8-libpython3-stdlib_3.11.6-1_armhf.deb ... Unpacking libpython3-stdlib:armhf (3.11.6-1) ... Setting up python3-minimal (3.11.6-1) ... Selecting previously unselected package python3. (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 ... 20942 files and directories currently installed.) Preparing to unpack .../000-python3_3.11.6-1_armhf.deb ... Unpacking python3 (3.11.6-1) ... Selecting previously unselected package libpython3.12-minimal:armhf. Preparing to unpack .../001-libpython3.12-minimal_3.12.2-1_armhf.deb ... Unpacking libpython3.12-minimal:armhf (3.12.2-1) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../002-python3.12-minimal_3.12.2-1_armhf.deb ... Unpacking python3.12-minimal (3.12.2-1) ... Selecting previously unselected package libproc2-0:armhf. Preparing to unpack .../003-libproc2-0_2%3a4.0.4-4_armhf.deb ... Unpacking libproc2-0:armhf (2:4.0.4-4) ... Selecting previously unselected package procps. Preparing to unpack .../004-procps_2%3a4.0.4-4_armhf.deb ... Unpacking procps (2:4.0.4-4) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../005-sensible-utils_0.0.22_all.deb ... Unpacking sensible-utils (0.0.22) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../006-libmagic-mgc_1%3a5.45-2+b1_armhf.deb ... Unpacking libmagic-mgc (1:5.45-2+b1) ... Selecting previously unselected package libmagic1:armhf. Preparing to unpack .../007-libmagic1_1%3a5.45-2+b1_armhf.deb ... Unpacking libmagic1:armhf (1:5.45-2+b1) ... Selecting previously unselected package file. Preparing to unpack .../008-file_1%3a5.45-2+b1_armhf.deb ... Unpacking file (1:5.45-2+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../009-gettext-base_0.21-14+b1_armhf.deb ... Unpacking gettext-base (0.21-14+b1) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../010-libuchardet0_0.0.8-1+b1_armhf.deb ... Unpacking libuchardet0:armhf (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../011-groff-base_1.23.0-3_armhf.deb ... Unpacking groff-base (1.23.0-3) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../012-bsdextrautils_2.39.3-6_armhf.deb ... Unpacking bsdextrautils (2.39.3-6) ... Selecting previously unselected package libpipeline1:armhf. Preparing to unpack .../013-libpipeline1_1.5.7-2_armhf.deb ... Unpacking libpipeline1:armhf (1.5.7-2) ... Selecting previously unselected package man-db. 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Selecting previously unselected package libbrotli1:armhf. Preparing to unpack .../021-libbrotli1_1.1.0-2+b3_armhf.deb ... Unpacking libbrotli1:armhf (1.1.0-2+b3) ... Selecting previously unselected package libpng16-16:armhf. Preparing to unpack .../022-libpng16-16_1.6.43-1_armhf.deb ... Unpacking libpng16-16:armhf (1.6.43-1) ... Selecting previously unselected package libfreetype6:armhf. Preparing to unpack .../023-libfreetype6_2.13.2+dfsg-1+b1_armhf.deb ... Unpacking libfreetype6:armhf (2.13.2+dfsg-1+b1) ... Selecting previously unselected package fonts-dejavu-mono. Preparing to unpack .../024-fonts-dejavu-mono_2.37-8_all.deb ... Unpacking fonts-dejavu-mono (2.37-8) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../025-fonts-dejavu-core_2.37-8_all.deb ... Unpacking fonts-dejavu-core (2.37-8) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../026-fontconfig-config_2.15.0-1.1_armhf.deb ... Unpacking fontconfig-config (2.15.0-1.1) ... Selecting previously unselected package libfontconfig1:armhf. Preparing to unpack .../027-libfontconfig1_2.15.0-1.1_armhf.deb ... Unpacking libfontconfig1:armhf (2.15.0-1.1) ... Selecting previously unselected package libxau6:armhf. Preparing to unpack .../028-libxau6_1%3a1.0.9-1_armhf.deb ... Unpacking libxau6:armhf (1:1.0.9-1) ... Selecting previously unselected package libbsd0:armhf. Preparing to unpack .../029-libbsd0_0.12.2-1_armhf.deb ... Unpacking libbsd0:armhf (0.12.2-1) ... Selecting previously unselected package libxdmcp6:armhf. Preparing to unpack .../030-libxdmcp6_1%3a1.1.2-3_armhf.deb ... Unpacking libxdmcp6:armhf (1:1.1.2-3) ... Selecting previously unselected package libxcb1:armhf. Preparing to unpack .../031-libxcb1_1.15-1_armhf.deb ... Unpacking libxcb1:armhf (1.15-1) ... Selecting previously unselected package libx11-data. Preparing to unpack .../032-libx11-data_2%3a1.8.7-1_all.deb ... Unpacking libx11-data (2:1.8.7-1) ... Selecting previously unselected package libx11-6:armhf. Preparing to unpack .../033-libx11-6_2%3a1.8.7-1_armhf.deb ... Unpacking libx11-6:armhf (2:1.8.7-1) ... Selecting previously unselected package libxrender1:armhf. Preparing to unpack .../034-libxrender1_1%3a0.9.10-1.1_armhf.deb ... Unpacking libxrender1:armhf (1:0.9.10-1.1) ... Selecting previously unselected package libxft2:armhf. Preparing to unpack .../035-libxft2_2.3.6-1+b1_armhf.deb ... Unpacking libxft2:armhf (2.3.6-1+b1) ... Selecting previously unselected package libxext6:armhf. Preparing to unpack .../036-libxext6_2%3a1.3.4-1+b1_armhf.deb ... Unpacking libxext6:armhf (2:1.3.4-1+b1) ... Selecting previously unselected package x11-common. Preparing to unpack .../037-x11-common_1%3a7.7+23_all.deb ... Unpacking x11-common (1:7.7+23) ... Selecting previously unselected package libxss1:armhf. Preparing to unpack .../038-libxss1_1%3a1.2.3-1_armhf.deb ... Unpacking libxss1:armhf (1:1.2.3-1) ... Selecting previously unselected package libtk8.6:armhf. Preparing to unpack .../039-libtk8.6_8.6.14-1_armhf.deb ... Unpacking libtk8.6:armhf (8.6.14-1) ... Selecting previously unselected package tk8.6-blt2.5. Preparing to unpack .../040-tk8.6-blt2.5_2.5.3+dfsg-7_armhf.deb ... Unpacking tk8.6-blt2.5 (2.5.3+dfsg-7) ... Selecting previously unselected package blt. Preparing to unpack .../041-blt_2.5.3+dfsg-7_armhf.deb ... Unpacking blt (2.5.3+dfsg-7) ... Selecting previously unselected package bwa. Preparing to unpack .../042-bwa_0.7.17-7+b3_armhf.deb ... Unpacking bwa (0.7.17-7+b3) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../043-libdebhelper-perl_13.15.3_all.deb ... Unpacking libdebhelper-perl (13.15.3) ... Selecting previously unselected package libtool. Preparing to unpack .../044-libtool_2.4.7-7_all.deb ... Unpacking libtool (2.4.7-7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../045-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../046-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../047-libsub-override-perl_0.10-1_all.deb ... Unpacking libsub-override-perl (0.10-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../048-libfile-stripnondeterminism-perl_1.13.1-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.13.1-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../049-dh-strip-nondeterminism_1.13.1-1_all.deb ... Unpacking dh-strip-nondeterminism (1.13.1-1) ... Selecting previously unselected package libelf1:armhf. Preparing to unpack .../050-libelf1_0.190-1+b1_armhf.deb ... Unpacking libelf1:armhf (0.190-1+b1) ... 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Setting up media-types (10.1.0) ... Setting up libpipeline1:armhf (1.5.7-2) ... Setting up libgraphite2-3:armhf (1.3.14-2) ... Setting up liblcms2-2:armhf (2.14-2+b1) ... Setting up libsharpyuv0:armhf (1.3.2-0.4+b1) ... Setting up libxau6:armhf (1:1.0.9-1) ... Setting up libicu72:armhf (72.1-4+b1) ... Setting up liblerc4:armhf (4.0.0+ds-4+b1) ... Setting up bsdextrautils (2.39.3-6) ... Setting up libmagic-mgc (1:5.45-2+b1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglib2.0-0:armhf (2.78.4-1) ... No schema files found: doing nothing. Setting up bwa (0.7.17-7+b3) ... Setting up fonts-lyx (2.4.0~RC3-1) ... Setting up libdebhelper-perl (13.15.3) ... Setting up libbrotli1:armhf (1.1.0-2+b3) ... Setting up libpython3.12-minimal:armhf (3.12.2-1) ... 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:armhf (1:5.45-2+b1) ... Setting up libdeflate0:armhf (1.20-1) ... Setting up gettext-base (0.21-14+b1) ... Setting up m4 (1.4.19-4) ... Setting up libqhull-r8.0:armhf (2020.2-6+b1) ... Setting up file (1:5.45-2+b1) ... Setting up libjbig0:armhf (2.1-6.1+b1) ... Setting up tzdata (2024a-1) ... Current default time zone: 'Etc/UTC' Local time is now: Thu Apr 25 20:08:11 UTC 2024. Universal Time is now: Thu Apr 25 20:08:11 UTC 2024. 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 libblas3:armhf (3.12.0-3) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode Setting up libexpat1-dev:armhf (2.6.2-1) ... Setting up libjpeg62-turbo:armhf (1:2.1.5-2+b2) ... Setting up libx11-data (2:1.8.7-1) ... Setting up libfribidi0:armhf (1.0.13-3+b1) ... Setting up libimagequant0:armhf (2.18.0-1) ... Setting up libproc2-0:armhf (2:4.0.4-4) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libpng16-16:armhf (1.6.43-1) ... Setting up libtcl8.6:armhf (8.6.14+dfsg-1) ... Setting up autopoint (0.21-14) ... Setting up fonts-dejavu-core (2.37-8) ... Setting up libgfortran5:armhf (14-20240330-1) ... Setting up autoconf (2.71-3) ... Setting up libwebp7:armhf (1.3.2-0.4+b1) ... Setting up zlib1g-dev:armhf (1:1.3.dfsg-3+b1) ... Setting up sensible-utils (0.0.22) ... Setting up libtiff6:armhf (4.5.1+git230720-4) ... Setting up libuchardet0:armhf (0.0.8-1+b1) ... Setting up procps (2:4.0.4-4) ... Setting up libopenjp2-7:armhf (2.5.0-2+b3) ... Setting up libsub-override-perl (0.10-1) ... Setting up netbase (6.4) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up python-matplotlib-data (3.6.3-1) ... Setting up libwebpmux3:armhf (1.3.2-0.4+b1) ... Setting up libbsd0:armhf (0.12.2-1) ... Setting up libelf1:armhf (0.190-1+b1) ... Setting up readline-common (8.2-4) ... Setting up libxml2:armhf (2.9.14+dfsg-1.3+b2) ... Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up python3.12-minimal (3.12.2-1) ... Setting up libxdmcp6:armhf (1:1.1.2-3) ... Setting up liblapack3:armhf (3.12.0-3) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode Setting up libxcb1:armhf (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:armhf (1.3.2-0.4+b1) ... Setting up libreadline8:armhf (8.2-3+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:armhf (2.13.2+dfsg-1+b1) ... Setting up libjs-sphinxdoc (7.2.6-6) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up dwz (0.15-1) ... Setting up groff-base (1.23.0-3) ... Setting up libxslt1.1:armhf (1.1.35-1) ... Setting up libx11-6:armhf (2:1.8.7-1) ... Setting up libharfbuzz0b:armhf (8.3.0-2) ... Setting up libfontconfig1:armhf (2.15.0-1.1) ... Setting up liblbfgsb0:armhf (3.0+dfsg.4-1+b1) ... Setting up libpython3.12-stdlib:armhf (3.12.2-1) ... Setting up libxrender1:armhf (1:0.9.10-1.1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpython3.11-stdlib:armhf (3.11.8-1) ... Setting up python3.12 (3.12.2-1) ... Setting up libxext6:armhf (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 libraqm0:armhf (0.10.1-1+b1) ... Setting up libxss1:armhf (1:1.2.3-1) ... Setting up libpython3-stdlib:armhf (3.11.6-1) ... Setting up python3.11 (3.11.8-1) ... Setting up libxft2:armhf (2.3.6-1+b1) ... Setting up libpython3.11:armhf (3.11.8-1) ... Setting up libtk8.6:armhf (8.6.14-1) ... Setting up debhelper (13.15.3) ... Setting up python3 (3.11.6-1) ... Setting up python3-tz (2024.1-2) ... Setting up python3-six (1.16.0-6) ... Setting up python3-pil:armhf (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 libpython3.11-dev:armhf (3.11.8-1) ... Setting up python3-brotli (1.1.0-2+b3) ... Setting up python3-cycler (0.12.1-1) ... Setting up python3-kiwisolver (1.4.4-3) ... Setting up python3-pubsub (4.0.3-7) ... Setting up python3-lxml:armhf (5.1.0-1) ... Setting up python3-dateutil (2.9.0-2) ... Setting up python3-mpmath (1.3.0-1) ... Setting up python3-lib2to3 (3.11.5-1) ... Setting up python3-appdirs (1.4.4-4) ... Setting up python3-pkg-resources (68.1.2-2) ... Setting up python3-distutils (3.11.5-1) ... 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 libpython3-dev:armhf (3.11.6-1) ... 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 python3.11-dev (3.11.8-1) ... Setting up python3-unicodedata2 (15.1.0+ds-1+b1) ... Setting up blt (2.5.3+dfsg-7) ... Setting up python3-threadpoolctl (3.1.0-1) ... Setting up python3-tk:armhf (3.11.5-1) ... Setting up python3-fs (2.4.16-4) ... Setting up python3-pil.imagetk:armhf (10.3.0-2) ... Setting up python3-dev (3.11.6-1) ... Setting up python3-numpy (1:1.24.2-2) ... Setting up python3-contourpy (1.0.7-3) ... Setting up python3-statsmodels-lib:armhf (0.14.1+dfsg-2) ... Setting up dh-python (6.20240422) ... Setting up python3-scipy (1.11.4-6) ... Setting up python3-pandas-lib:armhf (2.1.4+dfsg-5) ... Setting up python3-sklearn-lib:armhf (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/19195/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for trixie I: user script /srv/workspace/pbuilder/19195/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 armhf 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-armv7l' 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/trash.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/transit_gui.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/__init__.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/stat_tools.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/transit_tools.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/__main__.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/view_trash.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/__init__.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/tpp_tools.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/combined_wig.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/__init__.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/prot_table.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 creating /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/corrplot.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/heatmap.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/binomial.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/zinb.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/hmm.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/gumbel.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/utest.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/tn5gaps.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/gi.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 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/tnseq_stats.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 creating /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 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 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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[binomial] Running Binomial Method... 81.6% [binomial] Running Binomial Method... 81.7% [binomial] Running Binomial Method... 81.8% [binomial] Running Binomial Method... 81.9% [binomial] Running Binomial Method... 82.0% [binomial] Running Binomial Method... 82.1% [binomial] Running Binomial Method... 82.2% [binomial] Running Binomial Method... 82.3% [binomial] Running Binomial Method... 82.4% [binomial] Running Binomial Method... 82.5% [binomial] Running Binomial Method... 82.5% [binomial] Running Binomial Method... 82.6% [binomial] Running Binomial Method... 82.7% [binomial] Running Binomial Method... 82.8% [binomial] Running Binomial Method... 82.9% [binomial] Running Binomial Method... 83.0% [binomial] Running Binomial Method... 83.1% [binomial] Running Binomial Method... 83.2% [binomial] Running Binomial Method... 83.3% [binomial] Running Binomial Method... 83.4% [binomial] Running Binomial Method... 83.5% [binomial] Running Binomial Method... 83.5% [binomial] Running Binomial Method... 83.6% [binomial] Running Binomial Method... 83.7% [binomial] Running Binomial Method... 83.8% [binomial] Running Binomial Method... 83.9% [binomial] Running Binomial Method... 84.0% [binomial] Running Binomial Method... 84.1% [binomial] Running Binomial Method... 84.2% [binomial] Running Binomial Method... 84.3% [binomial] Running Binomial Method... 84.4% [binomial] Running Binomial Method... 84.5% [binomial] Running Binomial Method... 84.5% [binomial] Running Binomial Method... 84.6% [binomial] Running Binomial Method... 84.7% [binomial] Running Binomial Method... 84.8% [binomial] Running Binomial Method... 84.9% [binomial] Running Binomial Method... 85.0% [binomial] Running Binomial Method... 85.1% [binomial] Running Binomial Method... 85.2% [binomial] Running Binomial Method... 85.3% [binomial] Running Binomial Method... 85.4% [binomial] Running Binomial Method... 85.5% [binomial] Running Binomial Method... 85.5% [binomial] Running Binomial Method... 85.6% [binomial] 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% [binomial] Running Binomial Method... 87.8% [binomial] Running Binomial Method... 87.9% [binomial] Running Binomial Method... 88.0% [binomial] Running Binomial Method... 88.1% [binomial] Running Binomial Method... 88.2% [binomial] Running Binomial Method... 88.3% [binomial] Running Binomial Method... 88.4% [binomial] Running Binomial Method... 88.5% [binomial] Running Binomial Method... 88.5% [binomial] Running Binomial Method... 88.6% [binomial] Running Binomial Method... 88.7% [binomial] Running Binomial Method... 88.8% [binomial] Running Binomial Method... 88.9% [binomial] Running Binomial Method... 89.0% [binomial] Running Binomial Method... 89.1% [binomial] Running Binomial Method... 89.2% [binomial] Running Binomial Method... 89.3% [binomial] Running Binomial Method... 89.4% [binomial] Running Binomial Method... 89.5% [binomial] Running Binomial Method... 89.5% [binomial] Running Binomial Method... 89.6% [binomial] Running Binomial Method... 89.7% [binomial] Running Binomial Method... 89.8% [binomial] Running Binomial Method... 89.9% [binomial] Running Binomial Method... 90.0% [binomial] Running Binomial Method... 90.1% [binomial] Running Binomial Method... 90.2% [binomial] Running Binomial Method... 90.3% [binomial] Running Binomial Method... 90.4% [binomial] Running Binomial Method... 90.5% [binomial] Running Binomial Method... 90.5% [binomial] Running Binomial Method... 90.6% [binomial] Running Binomial Method... 90.7% [binomial] Running Binomial Method... 90.8% [binomial] Running Binomial Method... 90.9% [binomial] Running Binomial Method... 91.0% [binomial] Running Binomial Method... 91.1% [binomial] Running Binomial Method... 91.2% [binomial] Running Binomial Method... 91.3% [binomial] Running Binomial Method... 91.4% [binomial] Running Binomial Method... 91.5% [binomial] Running Binomial Method... 91.5% [binomial] Running Binomial Method... 91.6% [binomial] Running Binomial Method... 91.7% [binomial] Running Binomial Method... 91.8% [binomial] 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 (38.0% done) [gi] Running GI Method... 41% [gi] analyzing Rvnr01 (40.0% done) [gi] Running GI Method... 43% [gi] analyzing Rv3924c (42.0% done) [gi] Running GI Method... 45% [gi] analyzing Rv3923c (44.0% done) [gi] Running GI Method... 47% [gi] analyzing Rv3922c (46.0% done) [gi] Running GI Method... 49% [gi] analyzing Rv3921c (48.0% done) [gi] Running GI Method... 51% [gi] analyzing Rv3920c (50.0% done) [gi] Running GI Method... 53% [gi] analyzing Rv3918c (52.0% done) [gi] Running GI Method... 55% [gi] analyzing Rv3917c (54.0% done) [gi] Running GI Method... 57% [gi] analyzing Rv3916c (56.0% done) [gi] Running GI Method... 59% [gi] analyzing Rv3915 (58.0% done) [gi] Running GI Method... 61% [gi] analyzing Rv1132 (60.0% done) [gi] Running GI Method... 63% [gi] analyzing Rv0499 (62.0% done) [gi] Running GI Method... 65% [gi] analyzing Rv2190c (64.0% done) [gi] Running GI Method... 67% [gi] analyzing Rv2207 (66.0% done) [gi] Running GI Method... 69% [gi] analyzing Rv2347c (68.0% done) [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... 0.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 1.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 1.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 1.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 1.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 1.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 1.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 1.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 1.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 1.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 1.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 1.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 2.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 2.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 2.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 2.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 2.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 2.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 2.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 2.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 2.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 2.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 2.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 3.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 3.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 3.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 3.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 3.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 3.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 3.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 3.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 3.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 3.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 3.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 4.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 4.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 4.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 4.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 4.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 4.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 4.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 4.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 4.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 4.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 4.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 5.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 5.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 5.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 5.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 5.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 5.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 5.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 5.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 5.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 5.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 5.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 6.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 6.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 6.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 6.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 6.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 6.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 6.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 6.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 6.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 6.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 6.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 7.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 7.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 7.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 7.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 7.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 7.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 7.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 7.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 7.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 7.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 7.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 8.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 8.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 8.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 8.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 8.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 8.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 8.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 8.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 8.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 8.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 8.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 9.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 9.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 9.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 9.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 9.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 9.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 9.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 9.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 9.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 9.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 9.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 10.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 10.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 10.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 10.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 10.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 10.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 10.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 10.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 10.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 10.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 10.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 11.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 11.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 11.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 11.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 11.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 11.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 11.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 11.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 11.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 11.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 11.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 12.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 12.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 12.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 12.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 12.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 12.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 12.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 12.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 12.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 12.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 12.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 13.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 13.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 13.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 13.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 13.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 13.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 13.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 13.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 13.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 13.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 13.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 14.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 14.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 14.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 14.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 14.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 14.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 14.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 14.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 14.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 14.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 14.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 15.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 15.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 15.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 15.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 15.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 15.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 15.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 15.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 15.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 15.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 15.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 16.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 16.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 16.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 16.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 16.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 16.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 16.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 16.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 16.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 16.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 16.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 17.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 17.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 17.2% [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 Essentiality Calls... 18.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 18.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 18.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 18.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 18.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 18.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 19.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 19.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 19.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 19.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 19.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 19.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 19.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 19.6% [gumbel] Running Gumbel 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[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% 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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: 1.4s 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): 34 [resampling] Time: 79.45s [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: 39.90s [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: 26.05s [resampling] Finished resampling Method 35 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): 36 [resampling] Time: 46.71s [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: 93.40s [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: 5.01s [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: 6.26s [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: 4.25s [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: 4.10s [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: 12.18s [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... 0.14 sec' b'[bwa_index] Construct BWT for the packed sequence...' b'[bwa_index] 6.10 seconds elapse.' b'[bwa_index] Update BWT... 0.09 sec' b'[bwa_index] Pack forward-only FASTA... 0.11 sec' b'[bwa_index] Construct SA from BWT and Occ... 4.78 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: 12.841 sec; CPU: 11.218 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 0.460 CPU sec, 0.607 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: 0.635 sec; CPU: 0.480 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 0.441 CPU sec, 0.441 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: 0.513 sec; CPU: 0.461 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 493.548s OK (skipped=6) [resampling] [resampling] Performing Benjamini-Hochberg Correction [resampling] Number of significant conditionally essential genes (Padj<0.05): 0 [resampling] Time: 4.10s [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: 04/26/2024 10:19:10 # 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: 04/26/2024 10:19:13 # 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/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/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/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/fileDisplay.py -> /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/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/__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/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/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/__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/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/stat_tools.py -> /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/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.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/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/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/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/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/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/BCG.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/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/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/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/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/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/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/__main__.py -> /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/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/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/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/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/__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/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/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/zinb.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/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/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/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/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/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/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/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/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/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/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/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/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/base.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/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/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/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/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/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/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/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/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/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/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/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/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/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/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 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/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/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/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/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/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/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/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/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/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/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/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/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/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.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/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/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/glycerol_H37Rv_rep2.wig -> /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/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/gff_to_prot_table.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/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/view_trash.py -> /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/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/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/__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_tools.py -> /build/reproducible-path/tnseq-transit-3.3.4/debian/tnseq-transit/usr/lib/python3.11/dist-packages/pytpp 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/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/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/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/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/__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/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/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/__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/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/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/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/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/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/__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/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/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/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/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/__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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/__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/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/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/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/view_trash.py to view_trash.cpython-311.pyc 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/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/__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_tools.py to tpp_tools.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_armhf.deb'. dpkg-genbuildinfo --build=binary -O../tnseq-transit_3.3.4-1_armhf.buildinfo dpkg-genchanges --build=binary -O../tnseq-transit_3.3.4-1_armhf.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/19195/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/19195/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/19195 and its subdirectories I: Current time: Fri Apr 26 10:21:41 +14 2024 I: pbuilder-time-stamp: 1714076501