Thu Feb 6 13:47:40 UTC 2025 I: starting to build tnseq-transit/trixie/i386 on jenkins on '2025-02-06 13:47' Thu Feb 6 13:47:40 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_4/51828/console.log Thu Feb 6 13:47:40 UTC 2025 I: Downloading source for trixie/tnseq-transit=3.3.12-1 --2025-02-06 13:47:40-- http://deb.debian.org/debian/pool/main/t/tnseq-transit/tnseq-transit_3.3.12-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2264 (2.2K) [text/prs.lines.tag] Saving to: ‘tnseq-transit_3.3.12-1.dsc’ 0K .. 100% 376M=0s 2025-02-06 13:47:40 (376 MB/s) - ‘tnseq-transit_3.3.12-1.dsc’ saved [2264/2264] Thu Feb 6 13:47:40 UTC 2025 I: tnseq-transit_3.3.12-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: tnseq-transit Binary: tnseq-transit Architecture: any Version: 3.3.12-1 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Étienne Mollier Homepage: http://saclab.tamu.edu/essentiality/transit/ Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/med-team/tnseq-transit Vcs-Git: https://salsa.debian.org/med-team/tnseq-transit.git Testsuite: autopkgtest Build-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 Package-List: tnseq-transit deb science optional arch=any Checksums-Sha1: b080fa2fbfbe0999129f36c06b17600a0d04f893 39516308 tnseq-transit_3.3.12.orig.tar.gz 158271580191895ee83d2fe92bbec51a3394a586 7652 tnseq-transit_3.3.12-1.debian.tar.xz Checksums-Sha256: 26df50e08f6fca0d5081f762a9312f72b67815e82bd6ddc51a056ecda84c4bbd 39516308 tnseq-transit_3.3.12.orig.tar.gz 0bc0395f91ebcc2fd1ac6927e11099ce129e123c784602cd7027d6da876afc5c 7652 tnseq-transit_3.3.12-1.debian.tar.xz Files: 32466b71fcab11429c39606024cecb6a 39516308 tnseq-transit_3.3.12.orig.tar.gz 94d5b885ed06405875c32af95ee8d06e 7652 tnseq-transit_3.3.12-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEEj23hBDd/OxHnQXSHMfMURUShdBoFAmeg5hIRHHRjaGV0QGRl Ymlhbi5vcmcACgkQMfMURUShdBqT4Q/+K9tIt5QNWdRSA6/yFWnsLlOmH2UpqW90 2AdkhSJMq4t/o4a/l1WbyRNIRDTf/oX0NrLPMqO/EvceVJsrr29Bl+FWvypPt3jZ qASXE61eWYyw8T5jwKaIomUqahp40p6IKF89o/2PRi8Vtj6fFyyTpgfeSzuw1riz To32hlO8sV3W1vrZFwe5xh+PGHRZmsRRJKpeNf6jBK8/hWpHrn6GbumODjLnq9av +wrBSB/cmuiFiyoqbfXSBMlCfwfkfq2hxg1+s1YECH9CN19DcjwwQYZYDGvOOM9q dE5/EH2INYHpQ1ryYL5CjraYU+SeEaD2HvptjBxS720ngfBP9Jw13LMKIn/BgIAE hhNc2QkbvEljx/EDq9kJdj60VJ6brE4Ta+9aSfPtLA//Ei/bq57cUaejniODDj2M kP8Pt32sVGaaTJaAqPhS71FHB2xL0949KxKx7lNHB5edOkA/+u4/paIsU+4K6XgT lPRi1Kp4aIlOuoW2lomKRGvvzW5/8XmeOxjLKNjwfQbuypvmbxpq3tO116kzUTfF EFTMbhCPd+SZjLaZqcvtziHxNla0TMQpbmTDCnPXKkgKEyTFWzHPCg6LzB775l0J n3aRGk+UUJQCW46Dedy5QB7QYZZ5VlB3getKlJZVEzH4Q4tf070PcaK2TekZfDM7 UDPMcHqiy1Q= =yw8U -----END PGP SIGNATURE----- Thu Feb 6 13:47:40 UTC 2025 I: Checking whether the package is not for us Thu Feb 6 13:47:40 UTC 2025 I: Starting 1st build on remote node ionos16-i386.debian.net. Thu Feb 6 13:47:40 UTC 2025 I: Preparing to do remote build '1' on ionos16-i386.debian.net. Thu Feb 6 13:51:27 UTC 2025 I: Deleting $TMPDIR on ionos16-i386.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Wed Mar 11 08:10:42 -12 2026 I: pbuilder-time-stamp: 1773259842 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: using eatmydata during job I: Copying source file I: copying [tnseq-transit_3.3.12-1.dsc] I: copying [./tnseq-transit_3.3.12.orig.tar.gz] I: copying [./tnseq-transit_3.3.12-1.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./tnseq-transit_3.3.12-1.dsc: unsupported subcommand dpkg-source: info: extracting tnseq-transit in tnseq-transit-3.3.12 dpkg-source: info: unpacking tnseq-transit_3.3.12.orig.tar.gz dpkg-source: info: unpacking tnseq-transit_3.3.12-1.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 dpkg-source: info: applying remove_pkg_resources.patch dpkg-source: info: applying repair.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/31039/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='i386' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=22 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='63d5367c289741ca9336c380231eb438' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' LD_LIBRARY_PATH='/usr/lib/libeatmydata' LD_PRELOAD='libeatmydata.so' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='31039' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.bFWZQaEk/pbuilderrc_TkaX --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.bFWZQaEk/b1 --logfile b1/build.log tnseq-transit_3.3.12-1.dsc' SUDO_GID='112' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://213.165.73.152:3128' I: uname -a Linux ionos16-i386 6.1.0-30-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.124-1 (2025-01-12) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/31039/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: i386 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 ... 19829 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} libdebhelper-perl{a} libdeflate0{a} libelf1t64{a} libexpat1{a} libexpat1-dev{a} libffi8{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgcrypt20{a} libgfortran5{a} libglib2.0-0t64{a} libgpg-error0{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} libmagic1t64{a} libopenjp2-7{a} libpipeline1{a} libpng16-16t64{a} libproc2-0{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.13{a} libpython3.13-dev{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libqhull-r8.0{a} libraqm0{a} libreadline8t64{a} libsharpyuv0{a} libtcl8.6{a} libtiff6{a} libtk8.6{a} libtool{a} libuchardet0{a} libunistring5{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-attr{a} python3-autocommand{a} python3-brotli{a} python3-contourpy{a} python3-cycler{a} python3-dateutil{a} python3-decorator{a} python3-dev{a} python3-fonttools{a} python3-fs{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-joblib{a} python3-kiwisolver{a} python3-lxml{a} python3-lz4{a} python3-matplotlib{a} python3-minimal{a} python3-more-itertools{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-platformdirs{a} python3-pubsub{a} python3-pyparsing{a} python3-scipy{a} python3-setuptools{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-typeguard{a} python3-typing-extensions{a} python3-tz{a} python3-ufolib2{a} python3-unicodedata2{a} python3-zipp{a} python3.12-tk{a} python3.13{a} python3.13-dev{a} python3.13-minimal{a} python3.13-tk{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 libgpg-error-l10n libltdl-dev libmail-sendmail-perl linux-sysctl-defaults 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-pooch python3-psutil python3-pytest python3-tables shared-mime-info wget xdg-user-dirs 0 packages upgraded, 156 newly installed, 0 to remove and 0 not upgraded. Need to get 133 MB of archives. After unpacking 656 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main i386 libpython3.13-minimal i386 3.13.1-3+b1 [858 kB] Get: 2 http://deb.debian.org/debian trixie/main i386 libexpat1 i386 2.6.4-1 [107 kB] Get: 3 http://deb.debian.org/debian trixie/main i386 python3.13-minimal i386 3.13.1-3+b1 [2244 kB] Get: 4 http://deb.debian.org/debian trixie/main i386 python3-minimal i386 3.13.1-2 [27.0 kB] Get: 5 http://deb.debian.org/debian trixie/main i386 media-types all 10.1.0 [26.9 kB] Get: 6 http://deb.debian.org/debian trixie/main i386 netbase all 6.4 [12.8 kB] Get: 7 http://deb.debian.org/debian trixie/main i386 tzdata all 2024b-6 [257 kB] Get: 8 http://deb.debian.org/debian trixie/main i386 libffi8 i386 3.4.6-1 [21.2 kB] Get: 9 http://deb.debian.org/debian trixie/main i386 readline-common all 8.2-6 [69.4 kB] Get: 10 http://deb.debian.org/debian trixie/main i386 libreadline8t64 i386 8.2-6 [173 kB] Get: 11 http://deb.debian.org/debian trixie/main i386 libpython3.13-stdlib i386 3.13.1-3+b1 [1981 kB] Get: 12 http://deb.debian.org/debian trixie/main i386 python3.13 i386 3.13.1-3+b1 [740 kB] Get: 13 http://deb.debian.org/debian trixie/main i386 libpython3-stdlib i386 3.13.1-2 [9952 B] Get: 14 http://deb.debian.org/debian trixie/main i386 python3 i386 3.13.1-2 [28.0 kB] Get: 15 http://deb.debian.org/debian trixie/main i386 libproc2-0 i386 2:4.0.4-7 [66.0 kB] Get: 16 http://deb.debian.org/debian trixie/main i386 procps i386 2:4.0.4-7 [876 kB] Get: 17 http://deb.debian.org/debian trixie/main i386 sensible-utils all 0.0.24 [24.8 kB] Get: 18 http://deb.debian.org/debian trixie/main i386 libmagic-mgc i386 1:5.45-3+b1 [314 kB] Get: 19 http://deb.debian.org/debian trixie/main i386 libmagic1t64 i386 1:5.45-3+b1 [115 kB] Get: 20 http://deb.debian.org/debian trixie/main i386 file i386 1:5.45-3+b1 [43.2 kB] Get: 21 http://deb.debian.org/debian trixie/main i386 gettext-base i386 0.23.1-1 [245 kB] Get: 22 http://deb.debian.org/debian trixie/main i386 libuchardet0 i386 0.0.8-1+b2 [69.2 kB] Get: 23 http://deb.debian.org/debian trixie/main i386 groff-base i386 1.23.0-7 [1199 kB] Get: 24 http://deb.debian.org/debian trixie/main i386 bsdextrautils i386 2.40.4-2 [96.1 kB] Get: 25 http://deb.debian.org/debian trixie/main i386 libpipeline1 i386 1.5.8-1 [41.2 kB] Get: 26 http://deb.debian.org/debian trixie/main i386 man-db i386 2.13.0-1 [1428 kB] Get: 27 http://deb.debian.org/debian trixie/main i386 m4 i386 1.4.19-5 [301 kB] Get: 28 http://deb.debian.org/debian trixie/main i386 autoconf all 2.72-3 [493 kB] Get: 29 http://deb.debian.org/debian trixie/main i386 autotools-dev all 20220109.1 [51.6 kB] Get: 30 http://deb.debian.org/debian trixie/main i386 automake all 1:1.16.5-1.3 [823 kB] Get: 31 http://deb.debian.org/debian trixie/main i386 autopoint all 0.23.1-1 [770 kB] Get: 32 http://deb.debian.org/debian trixie/main i386 libtcl8.6 i386 8.6.16+dfsg-1 [1103 kB] Get: 33 http://deb.debian.org/debian trixie/main i386 libbrotli1 i386 1.1.0-2+b6 [308 kB] Get: 34 http://deb.debian.org/debian trixie/main i386 libpng16-16t64 i386 1.6.44-3 [288 kB] Get: 35 http://deb.debian.org/debian trixie/main i386 libfreetype6 i386 2.13.3+dfsg-1 [464 kB] Get: 36 http://deb.debian.org/debian trixie/main i386 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 37 http://deb.debian.org/debian trixie/main i386 fonts-dejavu-core all 2.37-8 [840 kB] Get: 38 http://deb.debian.org/debian trixie/main i386 fontconfig-config i386 2.15.0-2 [317 kB] Get: 39 http://deb.debian.org/debian trixie/main i386 libfontconfig1 i386 2.15.0-2 [402 kB] Get: 40 http://deb.debian.org/debian trixie/main i386 libxau6 i386 1:1.0.11-1 [20.7 kB] Get: 41 http://deb.debian.org/debian trixie/main i386 libxdmcp6 i386 1:1.1.5-1 [28.2 kB] Get: 42 http://deb.debian.org/debian trixie/main i386 libxcb1 i386 1.17.0-2+b1 [148 kB] Get: 43 http://deb.debian.org/debian trixie/main i386 libx11-data all 2:1.8.10-2 [337 kB] Get: 44 http://deb.debian.org/debian trixie/main i386 libx11-6 i386 2:1.8.10-2 [834 kB] Get: 45 http://deb.debian.org/debian trixie/main i386 libxrender1 i386 1:0.9.10-1.1+b4 [28.8 kB] Get: 46 http://deb.debian.org/debian trixie/main i386 libxft2 i386 2.3.6-1+b4 [55.3 kB] Get: 47 http://deb.debian.org/debian trixie/main i386 libxext6 i386 2:1.3.4-1+b3 [52.5 kB] Get: 48 http://deb.debian.org/debian trixie/main i386 x11-common all 1:7.7+24 [217 kB] Get: 49 http://deb.debian.org/debian trixie/main i386 libxss1 i386 1:1.2.3-1+b3 [17.3 kB] Get: 50 http://deb.debian.org/debian trixie/main i386 libtk8.6 i386 8.6.16-1 [834 kB] Get: 51 http://deb.debian.org/debian trixie/main i386 tk8.6-blt2.5 i386 2.5.3+dfsg-7 [616 kB] Get: 52 http://deb.debian.org/debian trixie/main i386 blt i386 2.5.3+dfsg-7 [6024 B] Get: 53 http://deb.debian.org/debian trixie/main i386 bwa i386 0.7.18-1 [237 kB] Get: 54 http://deb.debian.org/debian trixie/main i386 libdebhelper-perl all 13.24.1 [90.9 kB] Get: 55 http://deb.debian.org/debian trixie/main i386 libtool all 2.5.4-2 [539 kB] Get: 56 http://deb.debian.org/debian trixie/main i386 dh-autoreconf all 20 [17.1 kB] Get: 57 http://deb.debian.org/debian trixie/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Get: 58 http://deb.debian.org/debian trixie/main i386 libfile-stripnondeterminism-perl all 1.14.1-1 [19.6 kB] Get: 59 http://deb.debian.org/debian trixie/main i386 dh-strip-nondeterminism all 1.14.1-1 [8584 B] Get: 60 http://deb.debian.org/debian trixie/main i386 libelf1t64 i386 0.192-4 [195 kB] Get: 61 http://deb.debian.org/debian trixie/main i386 dwz i386 0.15-1+b1 [116 kB] Get: 62 http://deb.debian.org/debian trixie/main i386 libunistring5 i386 1.3-1 [458 kB] Get: 63 http://deb.debian.org/debian trixie/main i386 libicu72 i386 72.1-6 [9582 kB] Get: 64 http://deb.debian.org/debian trixie/main i386 libxml2 i386 2.12.7+dfsg+really2.9.14-0.2+b1 [734 kB] Get: 65 http://deb.debian.org/debian trixie/main i386 gettext i386 0.23.1-1 [1714 kB] Get: 66 http://deb.debian.org/debian trixie/main i386 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 67 http://deb.debian.org/debian trixie/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 68 http://deb.debian.org/debian trixie/main i386 debhelper all 13.24.1 [920 kB] Get: 69 http://deb.debian.org/debian trixie/main i386 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 70 http://deb.debian.org/debian trixie/main i386 python3-more-itertools all 10.6.0-1 [65.3 kB] Get: 71 http://deb.debian.org/debian trixie/main i386 python3-typing-extensions all 4.12.2-2 [73.0 kB] Get: 72 http://deb.debian.org/debian trixie/main i386 python3-typeguard all 4.4.1-1 [37.0 kB] Get: 73 http://deb.debian.org/debian trixie/main i386 python3-inflect all 7.3.1-2 [32.4 kB] Get: 74 http://deb.debian.org/debian trixie/main i386 python3-jaraco.context all 6.0.0-1 [7984 B] Get: 75 http://deb.debian.org/debian trixie/main i386 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 76 http://deb.debian.org/debian trixie/main i386 python3-pkg-resources all 75.6.0-1 [222 kB] Get: 77 http://deb.debian.org/debian trixie/main i386 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 78 http://deb.debian.org/debian trixie/main i386 python3-zipp all 3.21.0-1 [10.6 kB] Get: 79 http://deb.debian.org/debian trixie/main i386 python3-setuptools all 75.6.0-1 [720 kB] Get: 80 http://deb.debian.org/debian trixie/main i386 dh-python all 6.20250108 [113 kB] Get: 81 http://deb.debian.org/debian trixie/main i386 fonts-lyx all 2.4.3-1 [190 kB] Get: 82 http://deb.debian.org/debian trixie/main i386 libblas3 i386 3.12.1-2 [150 kB] Get: 83 http://deb.debian.org/debian trixie/main i386 libdeflate0 i386 1.23-1+b1 [48.4 kB] Get: 84 http://deb.debian.org/debian trixie/main i386 libexpat1-dev i386 2.6.4-1 [165 kB] Get: 85 http://deb.debian.org/debian trixie/main i386 libfribidi0 i386 1.0.16-1 [27.0 kB] Get: 86 http://deb.debian.org/debian trixie/main i386 libgpg-error0 i386 1.51-3 [87.3 kB] Get: 87 http://deb.debian.org/debian trixie/main i386 libgcrypt20 i386 1.11.0-7 [799 kB] Get: 88 http://deb.debian.org/debian trixie/main i386 libgfortran5 i386 14.2.0-12 [735 kB] Get: 89 http://deb.debian.org/debian trixie/main i386 libglib2.0-0t64 i386 2.82.4-2 [1573 kB] Get: 90 http://deb.debian.org/debian trixie/main i386 libgraphite2-3 i386 1.3.14-2+b1 [77.8 kB] Get: 91 http://deb.debian.org/debian trixie/main i386 libharfbuzz0b i386 10.2.0-1 [504 kB] Get: 92 http://deb.debian.org/debian trixie/main i386 libimagequant0 i386 2.18.0-1+b2 [36.0 kB] Get: 93 http://deb.debian.org/debian trixie/main i386 libjbig0 i386 2.1-6.1+b2 [32.2 kB] Get: 94 http://deb.debian.org/debian trixie/main i386 libjpeg62-turbo i386 1:2.1.5-3+b1 [171 kB] Get: 95 http://deb.debian.org/debian trixie/main i386 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 96 http://deb.debian.org/debian trixie/main i386 libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get: 97 http://deb.debian.org/debian trixie/main i386 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 98 http://deb.debian.org/debian trixie/main i386 libjs-sphinxdoc all 8.1.3-4 [30.4 kB] Get: 99 http://deb.debian.org/debian trixie/main i386 liblapack3 i386 3.12.1-2 [2198 kB] Get: 100 http://deb.debian.org/debian trixie/main i386 liblbfgsb0 i386 3.0+dfsg.4-1+b2 [29.5 kB] Get: 101 http://deb.debian.org/debian trixie/main i386 liblcms2-2 i386 2.16-2 [171 kB] Get: 102 http://deb.debian.org/debian trixie/main i386 liblerc4 i386 4.0.0+ds-5 [191 kB] Get: 103 http://deb.debian.org/debian trixie/main i386 libopenjp2-7 i386 2.5.0-2+b4 [210 kB] Get: 104 http://deb.debian.org/debian trixie/main i386 libpython3.13 i386 3.13.1-3+b1 [2199 kB] Get: 105 http://deb.debian.org/debian trixie/main i386 zlib1g-dev i386 1:1.3.dfsg+really1.3.1-1+b1 [916 kB] Get: 106 http://deb.debian.org/debian trixie/main i386 libpython3.13-dev i386 3.13.1-3+b1 [5183 kB] Get: 107 http://deb.debian.org/debian trixie/main i386 libpython3-dev i386 3.13.1-2 [10.2 kB] Get: 108 http://deb.debian.org/debian trixie/main i386 libqhull-r8.0 i386 2020.2-6+b2 [259 kB] Get: 109 http://deb.debian.org/debian trixie/main i386 libraqm0 i386 0.10.2-1 [14.6 kB] Get: 110 http://deb.debian.org/debian trixie/main i386 libsharpyuv0 i386 1.5.0-0.1 [115 kB] Get: 111 http://deb.debian.org/debian trixie/main i386 libwebp7 i386 1.5.0-0.1 [329 kB] Get: 112 http://deb.debian.org/debian trixie/main i386 libtiff6 i386 4.5.1+git230720-5 [339 kB] Get: 113 http://deb.debian.org/debian trixie/main i386 libwebpdemux2 i386 1.5.0-0.1 [114 kB] Get: 114 http://deb.debian.org/debian trixie/main i386 libwebpmux3 i386 1.5.0-0.1 [127 kB] Get: 115 http://deb.debian.org/debian trixie/main i386 libxslt1.1 i386 1.1.35-1.1+b1 [243 kB] Get: 116 http://deb.debian.org/debian trixie/main i386 python-matplotlib-data all 3.8.3-3 [2731 kB] Get: 117 http://deb.debian.org/debian trixie/main i386 python3-attr all 24.3.0-1 [68.8 kB] Get: 118 http://deb.debian.org/debian trixie/main i386 python3-brotli i386 1.1.0-2+b6 [319 kB] Get: 119 http://deb.debian.org/debian trixie/main i386 python3-numpy i386 1:1.26.4+ds-13 [4751 kB] Get: 120 http://deb.debian.org/debian trixie/main i386 python3-contourpy i386 1.3.1-1 [271 kB] Get: 121 http://deb.debian.org/debian trixie/main i386 python3-cycler all 0.12.1-1 [9496 B] Get: 122 http://deb.debian.org/debian trixie/main i386 python3-dateutil all 2.9.0-3 [79.3 kB] Get: 123 http://deb.debian.org/debian trixie/main i386 python3-decorator all 5.1.1-5 [15.1 kB] Get: 124 http://deb.debian.org/debian trixie/main i386 python3.13-dev i386 3.13.1-3+b1 [504 kB] Get: 125 http://deb.debian.org/debian trixie/main i386 python3-dev i386 3.13.1-2 [26.1 kB] Get: 126 http://deb.debian.org/debian trixie/main i386 python3-tz all 2024.2-1 [31.0 kB] Get: 127 http://deb.debian.org/debian trixie/main i386 python3-platformdirs all 4.3.6-1 [16.6 kB] Get: 128 http://deb.debian.org/debian trixie/main i386 python3-fs all 2.4.16-6 [95.1 kB] Get: 129 http://deb.debian.org/debian trixie/main i386 python3-lxml i386 5.3.0-1+b1 [1586 kB] Get: 130 http://deb.debian.org/debian trixie/main i386 python3-lz4 i386 4.4.0+dfsg-1 [25.5 kB] Get: 131 http://deb.debian.org/debian trixie/main i386 python3-scipy i386 1.14.1-4 [20.1 MB] Get: 132 http://deb.debian.org/debian trixie/main i386 python3-mpmath all 1.3.0-1 [419 kB] Get: 133 http://deb.debian.org/debian trixie/main i386 python3-sympy all 1.13.3-1 [4147 kB] Get: 134 http://deb.debian.org/debian trixie/main i386 python3-ufolib2 all 0.17.0+dfsg1-1 [33.0 kB] Get: 135 http://deb.debian.org/debian trixie/main i386 python3-unicodedata2 i386 15.1.0+ds-1+b3 [297 kB] Get: 136 http://deb.debian.org/debian trixie/main i386 unicode-data all 15.1.0-1 [8547 kB] Get: 137 http://deb.debian.org/debian trixie/main i386 python3-fonttools i386 4.55.3-2 [1591 kB] Get: 138 http://deb.debian.org/debian trixie/main i386 python3-joblib all 1.3.2-6 [216 kB] Get: 139 http://deb.debian.org/debian trixie/main i386 python3-kiwisolver i386 1.4.7-3 [83.3 kB] Get: 140 http://deb.debian.org/debian trixie/main i386 python3-pil i386 10.4.0-1.1 [512 kB] Get: 141 http://deb.debian.org/debian trixie/main i386 python3.12-tk i386 3.12.8-5+b1 [114 kB] Get: 142 http://deb.debian.org/debian trixie/main i386 python3.13-tk i386 3.13.1-3+b1 [104 kB] Get: 143 http://deb.debian.org/debian trixie/main i386 python3-tk i386 3.13.1-1 [9464 B] Get: 144 http://deb.debian.org/debian trixie/main i386 python3-pil.imagetk i386 10.4.0-1.1 [79.9 kB] Get: 145 http://deb.debian.org/debian trixie/main i386 python3-pyparsing all 3.1.2-1 [146 kB] Get: 146 http://deb.debian.org/debian trixie/main i386 python3-packaging all 24.2-1 [55.3 kB] Get: 147 http://deb.debian.org/debian trixie/main i386 python3-matplotlib i386 3.8.3-3+b3 [5658 kB] Get: 148 http://deb.debian.org/debian trixie/main i386 python3-pandas-lib i386 2.2.3+dfsg-7 [6848 kB] Get: 149 http://deb.debian.org/debian trixie/main i386 python3-pandas all 2.2.3+dfsg-7 [3097 kB] Get: 150 http://deb.debian.org/debian trixie/main i386 python3-patsy all 1.0.1-1 [172 kB] Get: 151 http://deb.debian.org/debian trixie/main i386 python3-pubsub all 4.0.3-7 [46.7 kB] Get: 152 http://deb.debian.org/debian trixie/main i386 python3-threadpoolctl all 3.1.0-1 [21.2 kB] Get: 153 http://deb.debian.org/debian trixie/main i386 python3-sklearn-lib i386 1.4.2+dfsg-7+b1 [5794 kB] Get: 154 http://deb.debian.org/debian trixie/main i386 python3-sklearn all 1.4.2+dfsg-7 [2248 kB] Get: 155 http://deb.debian.org/debian trixie/main i386 python3-statsmodels-lib i386 0.14.4+dfsg-1+b2 [2191 kB] Get: 156 http://deb.debian.org/debian trixie/main i386 python3-statsmodels all 0.14.4+dfsg-1 [4825 kB] Fetched 133 MB in 1s (89.0 MB/s) Preconfiguring packages ... Selecting previously unselected package libpython3.13-minimal:i386. (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 ... 19829 files and directories currently installed.) Preparing to unpack .../libpython3.13-minimal_3.13.1-3+b1_i386.deb ... Unpacking libpython3.13-minimal:i386 (3.13.1-3+b1) ... Selecting previously unselected package libexpat1:i386. Preparing to unpack .../libexpat1_2.6.4-1_i386.deb ... Unpacking libexpat1:i386 (2.6.4-1) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../python3.13-minimal_3.13.1-3+b1_i386.deb ... Unpacking python3.13-minimal (3.13.1-3+b1) ... Setting up libpython3.13-minimal:i386 (3.13.1-3+b1) ... Setting up libexpat1:i386 (2.6.4-1) ... Setting up python3.13-minimal (3.13.1-3+b1) ... 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 ... 20165 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.13.1-2_i386.deb ... Unpacking python3-minimal (3.13.1-2) ... 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_2024b-6_all.deb ... Unpacking tzdata (2024b-6) ... Selecting previously unselected package libffi8:i386. Preparing to unpack .../4-libffi8_3.4.6-1_i386.deb ... Unpacking libffi8:i386 (3.4.6-1) ... Selecting previously unselected package readline-common. Preparing to unpack .../5-readline-common_8.2-6_all.deb ... Unpacking readline-common (8.2-6) ... Selecting previously unselected package libreadline8t64:i386. Preparing to unpack .../6-libreadline8t64_8.2-6_i386.deb ... Adding 'diversion of /lib/i386-linux-gnu/libhistory.so.8 to /lib/i386-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/i386-linux-gnu/libhistory.so.8.2 to /lib/i386-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/i386-linux-gnu/libreadline.so.8 to /lib/i386-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/i386-linux-gnu/libreadline.so.8.2 to /lib/i386-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:i386 (8.2-6) ... Selecting previously unselected package libpython3.13-stdlib:i386. Preparing to unpack .../7-libpython3.13-stdlib_3.13.1-3+b1_i386.deb ... Unpacking libpython3.13-stdlib:i386 (3.13.1-3+b1) ... Selecting previously unselected package python3.13. Preparing to unpack .../8-python3.13_3.13.1-3+b1_i386.deb ... Unpacking python3.13 (3.13.1-3+b1) ... Selecting previously unselected package libpython3-stdlib:i386. Preparing to unpack .../9-libpython3-stdlib_3.13.1-2_i386.deb ... Unpacking libpython3-stdlib:i386 (3.13.1-2) ... Setting up python3-minimal (3.13.1-2) ... 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 ... 21176 files and directories currently installed.) Preparing to unpack .../000-python3_3.13.1-2_i386.deb ... Unpacking python3 (3.13.1-2) ... Selecting previously unselected package libproc2-0:i386. Preparing to unpack .../001-libproc2-0_2%3a4.0.4-7_i386.deb ... Unpacking libproc2-0:i386 (2:4.0.4-7) ... Selecting previously unselected package procps. Preparing to unpack .../002-procps_2%3a4.0.4-7_i386.deb ... Unpacking procps (2:4.0.4-7) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../003-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../004-libmagic-mgc_1%3a5.45-3+b1_i386.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:i386. Preparing to unpack .../005-libmagic1t64_1%3a5.45-3+b1_i386.deb ... Unpacking libmagic1t64:i386 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../006-file_1%3a5.45-3+b1_i386.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../007-gettext-base_0.23.1-1_i386.deb ... Unpacking gettext-base (0.23.1-1) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../008-libuchardet0_0.0.8-1+b2_i386.deb ... Unpacking libuchardet0:i386 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../009-groff-base_1.23.0-7_i386.deb ... Unpacking groff-base (1.23.0-7) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../010-bsdextrautils_2.40.4-2_i386.deb ... Unpacking bsdextrautils (2.40.4-2) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../011-libpipeline1_1.5.8-1_i386.deb ... Unpacking libpipeline1:i386 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../012-man-db_2.13.0-1_i386.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../013-m4_1.4.19-5_i386.deb ... Unpacking m4 (1.4.19-5) ... Selecting previously unselected package autoconf. 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Preparing to unpack .../020-libpng16-16t64_1.6.44-3_i386.deb ... Unpacking libpng16-16t64:i386 (1.6.44-3) ... Selecting previously unselected package libfreetype6:i386. Preparing to unpack .../021-libfreetype6_2.13.3+dfsg-1_i386.deb ... Unpacking libfreetype6:i386 (2.13.3+dfsg-1) ... Selecting previously unselected package fonts-dejavu-mono. Preparing to unpack .../022-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 .../023-fonts-dejavu-core_2.37-8_all.deb ... Unpacking fonts-dejavu-core (2.37-8) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../024-fontconfig-config_2.15.0-2_i386.deb ... Unpacking fontconfig-config (2.15.0-2) ... Selecting previously unselected package libfontconfig1:i386. Preparing to unpack .../025-libfontconfig1_2.15.0-2_i386.deb ... Unpacking libfontconfig1:i386 (2.15.0-2) ... 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Setting up m4 (1.4.19-5) ... Setting up libgcrypt20:i386 (1.11.0-7) ... Setting up libqhull-r8.0:i386 (2020.2-6+b2) ... Setting up file (1:5.45-3+b1) ... Setting up libjbig0:i386 (2.1-6.1+b2) ... Setting up libelf1t64:i386 (0.192-4) ... Setting up tzdata (2024b-6) ... Current default time zone: 'Etc/UTC' Local time is now: Wed Mar 11 20:11:13 UTC 2026. Universal Time is now: Wed Mar 11 20:11:13 UTC 2026. 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:i386 (3.12.1-2) ... update-alternatives: using /usr/lib/i386-linux-gnu/blas/libblas.so.3 to provide /usr/lib/i386-linux-gnu/libblas.so.3 (libblas.so.3-i386-linux-gnu) in auto mode Setting up libexpat1-dev:i386 (2.6.4-1) ... Setting up libjpeg62-turbo:i386 (1:2.1.5-3+b1) ... Setting up libx11-data (2:1.8.10-2) ... Setting up libfribidi0:i386 (1.0.16-1) ... Setting up libimagequant0:i386 (2.18.0-1+b2) ... 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Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/tnseq-transit-3.3.12/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../tnseq-transit_3.3.12-1_source.changes dpkg-buildpackage: info: source package tnseq-transit dpkg-buildpackage: info: source version 3.3.12-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Alexandre Detiste dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 debian/rules clean dh clean --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild I: pybuild base:311: python3.13 setup.py clean running clean removing '/build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build' (and everything under it) 'build/bdist.linux-i686' does not exist -- can't clean it 'build/scripts-3.13' does not exist -- can't clean it debian/rules execute_after_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/tnseq-transit-3.3.12' rm -rf tests_invalid_data rm -rf tnseq_transit.egg-info make[1]: Leaving directory '/build/reproducible-path/tnseq-transit-3.3.12' 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-3.3.12' 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: python3.13 setup.py config running config make[1]: Leaving directory '/build/reproducible-path/tnseq-transit-3.3.12' 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-3.3.12/.pybuild/cpython3_3.13/build/pytransit/generic_tools copying src/pytransit/generic_tools/file_system_py.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/generic_tools copying src/pytransit/generic_tools/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/generic_tools creating /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytpp copying src/pytpp/__main__.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytpp copying src/pytpp/tpp_tools.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytpp copying src/pytpp/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytpp copying src/pytpp/tpp_gui.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytpp copying src/pytransit/stat_tools.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit copying src/pytransit/view_trash.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit copying src/pytransit/__main__.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit copying src/pytransit/transit_gui.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit copying src/pytransit/tnseq_tools.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit copying src/pytransit/trash.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit copying src/pytransit/fileDisplay.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit copying src/pytransit/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit copying src/pytransit/norm_tools.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit copying src/pytransit/images.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit copying src/pytransit/qcDisplay.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit copying src/pytransit/draw_trash.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit copying src/pytransit/transit_tools.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit creating /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis copying src/pytransit/analysis/gi.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis copying src/pytransit/analysis/normalize.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis copying src/pytransit/analysis/tn5gaps.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis copying src/pytransit/analysis/utest.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis copying src/pytransit/analysis/binomial.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis copying src/pytransit/analysis/corrplot.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis copying src/pytransit/analysis/gumbel.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis copying src/pytransit/analysis/ttnfitness.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis copying src/pytransit/analysis/zinb.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis copying src/pytransit/analysis/anova.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis copying src/pytransit/analysis/example.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis copying src/pytransit/analysis/griffin.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis copying src/pytransit/analysis/tnseq_stats.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis copying src/pytransit/analysis/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis copying src/pytransit/analysis/norm.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis copying src/pytransit/analysis/resampling.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis copying src/pytransit/analysis/pathway_enrichment.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis copying src/pytransit/analysis/heatmap.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis copying src/pytransit/analysis/rankproduct.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis copying src/pytransit/analysis/CGI.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis copying src/pytransit/analysis/hmm.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis copying src/pytransit/analysis/base.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis creating /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/export copying src/pytransit/export/igv.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/export copying src/pytransit/export/combined_wig.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/export copying src/pytransit/export/mean_counts.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/export copying src/pytransit/export/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/export copying src/pytransit/export/prot_table.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/export copying src/pytransit/export/base.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/export creating /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/convert copying src/pytransit/convert/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/convert copying src/pytransit/convert/gff_to_prot_table.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/convert copying src/pytransit/convert/base.py -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/convert running egg_info creating transit1.egg-info writing transit1.egg-info/PKG-INFO writing dependency_links to transit1.egg-info/dependency_links.txt writing entry points to transit1.egg-info/entry_points.txt writing requirements to transit1.egg-info/requires.txt writing top-level names to transit1.egg-info/top_level.txt writing manifest file 'transit1.egg-info/SOURCES.txt' reading manifest file 'transit1.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 'transit1.egg-info/SOURCES.txt' /usr/lib/python3/dist-packages/setuptools/command/build_py.py:212: _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:212: _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:212: _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) copying src/pytransit/DejaVuSans.ttf -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit creating /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data copying src/pytransit/data/COG_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data copying src/pytransit/data/GO_associated_Rvs-3-11-18.txt -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data copying src/pytransit/data/GO_associated_Rvs.csv -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data copying src/pytransit/data/GO_term_names.dat -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data copying src/pytransit/data/GO_terms_for_each_Rv.obo-3-11-18.txt -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data copying src/pytransit/data/H37Rv.sanger_associated_RVS.csv -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data copying src/pytransit/data/H37Rv_COG_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data copying src/pytransit/data/H37Rv_GO_terms.txt -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data copying src/pytransit/data/H37Rv_sanger_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data copying src/pytransit/data/README.md -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data copying src/pytransit/data/cholesterol_H37Rv_merged.wig -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data copying src/pytransit/data/cholesterol_H37Rv_rep1.wig -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data copying src/pytransit/data/cholesterol_H37Rv_rep2.wig -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data copying src/pytransit/data/cholesterol_H37Rv_rep3.wig -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data copying src/pytransit/data/cholesterol_glycerol_combined.dat -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data copying src/pytransit/data/glycerol_H37Rv_merged.wig -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data copying src/pytransit/data/glycerol_H37Rv_rep1.wig -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data copying src/pytransit/data/glycerol_H37Rv_rep2.wig -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data copying src/pytransit/data/iron_combined_wig4.txt -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data copying src/pytransit/data/iron_samples_metadata.txt -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data copying src/pytransit/data/samples_metadata_cg.txt -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data copying src/pytransit/data/samples_metadata_cg_covar.txt -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data copying src/pytransit/data/samples_metadata_cg_interactions.txt -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data copying src/pytransit/data/sanger_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data copying src/pytransit/data/smeg_COG_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data copying src/pytransit/data/smeg_GO_terms.txt -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data creating /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/CGI copying src/pytransit/data/CGI/IDs.H37Rv.CRISPRi.lib.txt -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/CGI copying src/pytransit/data/CGI/RIF_D1_combined_counts.txt -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/CGI copying src/pytransit/data/CGI/samples_metadata.txt -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/CGI copying src/pytransit/data/CGI/sgRNA_info.txt -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/CGI copying src/pytransit/data/CGI/uninduced_ATC_counts.txt -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/CGI creating /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/genomes copying src/pytransit/genomes/BCG.fna -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/genomes copying src/pytransit/genomes/BCG.prot_table -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/genomes copying src/pytransit/genomes/H37Rv.fna -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/genomes copying src/pytransit/genomes/H37Rv.prot_table -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/genomes copying src/pytransit/genomes/H37RvBD.fna -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/genomes copying src/pytransit/genomes/H37RvBD.prot_table -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/genomes copying src/pytransit/genomes/H37RvBD_mod3.prot_table -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/genomes copying src/pytransit/genomes/H37RvMA2.fna -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/genomes copying src/pytransit/genomes/H37RvMA2.prot_table -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/genomes copying src/pytransit/genomes/genomes.html -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/genomes copying src/pytransit/genomes/mc2_155_tamu.fna -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/genomes copying src/pytransit/genomes/mc2_155_tamu.prot_table -> /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/genomes debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/tnseq-transit-3.3.12' dh_auto_test -- --system=custom --test-args="PYTHONPATH=tests {interpreter} -m unittest -v tests/*.py" I: pybuild base:311: PYTHONPATH=tests python3.13 -m unittest -v tests/*.py test_Binomial (tests.test_analysis_methods.TestMethods.test_Binomial) ... /build/reproducible-path/tnseq-transit-3.3.12/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:1290: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:1217: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:521: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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... 1.0% [binomial] Running Binomial Method... 1.1% [binomial] Running Binomial Method... 1.2% [binomial] Running Binomial Method... 1.3% [binomial] Running Binomial Method... 1.4% [binomial] Running Binomial Method... 1.5% [binomial] Running Binomial Method... 1.5% [binomial] Running Binomial Method... 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Running Binomial Method... 36.9% [binomial] Running Binomial Method... 37.0% [binomial] Running Binomial Method... 37.1% [binomial] Running Binomial Method... 37.2% [binomial] Running Binomial Method... 37.3% [binomial] Running Binomial Method... 37.4% [binomial] Running Binomial Method... 37.5% [binomial] Running Binomial Method... 37.5% [binomial] Running Binomial Method... 37.6% [binomial] Running Binomial Method... 37.7% [binomial] Running Binomial Method... 37.8% [binomial] Running Binomial Method... 37.9% [binomial] Running Binomial Method... 38.0% [binomial] Running Binomial Method... 38.1% [binomial] Running Binomial Method... 38.2% [binomial] Running Binomial Method... 38.3% [binomial] Running Binomial Method... 38.4% [binomial] Running Binomial Method... 38.5% [binomial] Running Binomial Method... 38.5% [binomial] Running Binomial Method... 38.6% [binomial] Running Binomial Method... 38.7% [binomial] Running Binomial Method... 38.8% [binomial] Running Binomial Method... 38.9% 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Method... 47.2% [binomial] Running Binomial Method... 47.3% [binomial] Running Binomial Method... 47.4% [binomial] Running Binomial Method... 47.5% [binomial] Running Binomial Method... 47.5% [binomial] Running Binomial Method... 47.6% [binomial] Running Binomial Method... 47.7% [binomial] Running Binomial Method... 47.8% [binomial] Running Binomial Method... 47.9% [binomial] Running Binomial Method... 48.0% [binomial] Running Binomial Method... 48.1% [binomial] Running Binomial Method... 48.2% [binomial] Running Binomial Method... 48.3% [binomial] Running Binomial Method... 48.4% [binomial] Running Binomial Method... 48.5% [binomial] Running Binomial Method... 48.5% [binomial] Running Binomial Method... 48.6% [binomial] Running Binomial Method... 48.7% [binomial] Running Binomial Method... 48.8% [binomial] Running Binomial Method... 48.9% [binomial] Running Binomial Method... 49.0% [binomial] Running Binomial Method... 49.1% [binomial] Running Binomial Method... 49.2% [binomial] 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Running Binomial Method... 55.5% [binomial] Running Binomial Method... 55.5% [binomial] Running Binomial Method... 55.6% [binomial] Running Binomial Method... 55.7% [binomial] Running Binomial Method... 55.8% [binomial] Running Binomial Method... 55.9% [binomial] Running Binomial Method... 56.0% [binomial] Running Binomial Method... 56.1% [binomial] Running Binomial Method... 56.2% [binomial] Running Binomial Method... 56.3% [binomial] Running Binomial Method... 56.4% [binomial] Running Binomial Method... 56.5% [binomial] Running Binomial Method... 56.5% [binomial] Running Binomial Method... 56.6% [binomial] Running Binomial Method... 56.7% [binomial] Running Binomial Method... 56.8% [binomial] Running Binomial Method... 56.9% [binomial] Running Binomial Method... 57.0% [binomial] Running Binomial Method... 57.1% [binomial] Running Binomial Method... 57.2% [binomial] Running Binomial Method... 57.3% [binomial] Running Binomial Method... 57.4% [binomial] Running Binomial Method... 57.5% 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Method... 65.7% [binomial] Running Binomial Method... 65.8% [binomial] Running Binomial Method... 65.9% [binomial] Running Binomial Method... 66.0% [binomial] Running Binomial Method... 66.1% [binomial] Running Binomial Method... 66.2% [binomial] Running Binomial Method... 66.3% [binomial] Running Binomial Method... 66.4% [binomial] Running Binomial Method... 66.5% [binomial] Running Binomial Method... 66.5% [binomial] Running Binomial Method... 66.6% [binomial] Running Binomial Method... 66.7% [binomial] Running Binomial Method... 66.8% [binomial] Running Binomial Method... 66.9% [binomial] Running Binomial Method... 67.0% [binomial] Running Binomial Method... 67.1% [binomial] Running Binomial Method... 67.2% [binomial] Running Binomial Method... 67.3% [binomial] Running Binomial Method... 67.4% [binomial] Running Binomial Method... 67.5% [binomial] Running Binomial Method... 67.5% [binomial] Running Binomial Method... 67.6% [binomial] Running Binomial Method... 67.7% [binomial] Running Binomial Method... 67.8% [binomial] Running Binomial Method... 67.9% [binomial] Running Binomial Method... 68.0% [binomial] Running Binomial Method... 68.1% [binomial] Running Binomial Method... 68.2% [binomial] Running Binomial Method... 68.3% [binomial] Running Binomial Method... 68.4% [binomial] Running Binomial Method... 68.5% [binomial] Running Binomial Method... 68.5% [binomial] Running Binomial Method... 68.6% [binomial] Running Binomial Method... 68.7% [binomial] Running Binomial Method... 68.8% [binomial] Running Binomial Method... 68.9% [binomial] Running Binomial Method... 69.0% [binomial] Running Binomial Method... 69.1% [binomial] Running Binomial Method... 69.2% [binomial] Running Binomial Method... 69.3% [binomial] Running Binomial Method... 69.4% [binomial] Running Binomial Method... 69.5% [binomial] Running Binomial Method... 69.5% [binomial] Running Binomial Method... 69.6% [binomial] Running Binomial Method... 69.7% [binomial] Running Binomial Method... 69.8% [binomial] Running Binomial Method... 69.9% [binomial] Running Binomial Method... 70.0% [binomial] Running Binomial Method... 70.1% [binomial] Running Binomial Method... 70.2% [binomial] Running Binomial Method... 70.3% [binomial] Running Binomial Method... 70.4% [binomial] Running Binomial Method... 70.5% [binomial] Running Binomial Method... 70.5% [binomial] Running Binomial Method... 70.6% [binomial] Running Binomial Method... 70.7% [binomial] Running Binomial Method... 70.8% [binomial] Running Binomial Method... 70.9% [binomial] Running Binomial Method... 71.0% [binomial] Running Binomial Method... 71.1% [binomial] Running Binomial Method... 71.2% [binomial] Running Binomial Method... 71.3% [binomial] Running Binomial Method... 71.4% [binomial] Running Binomial Method... 71.5% [binomial] Running Binomial Method... 71.5% [binomial] Running Binomial Method... 71.6% [binomial] Running Binomial Method... 71.7% [binomial] Running Binomial Method... 71.8% [binomial] Running Binomial 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Running Binomial Method... 74.0% [binomial] Running Binomial Method... 74.1% [binomial] Running Binomial Method... 74.2% [binomial] Running Binomial Method... 74.3% [binomial] Running Binomial Method... 74.4% [binomial] Running Binomial Method... 74.5% [binomial] Running Binomial Method... 74.5% [binomial] Running Binomial Method... 74.6% [binomial] Running Binomial Method... 74.7% [binomial] Running Binomial Method... 74.8% [binomial] Running Binomial Method... 74.9% [binomial] Running Binomial Method... 75.0% [binomial] Running Binomial Method... 75.1% [binomial] Running Binomial Method... 75.2% [binomial] Running Binomial Method... 75.3% [binomial] Running Binomial Method... 75.4% [binomial] Running Binomial Method... 75.5% [binomial] Running Binomial Method... 75.5% [binomial] Running Binomial Method... 75.6% [binomial] Running Binomial Method... 75.7% [binomial] Running Binomial Method... 75.8% [binomial] Running Binomial Method... 75.9% [binomial] Running Binomial Method... 76.0% 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Running Binomial Method... 80.2% [binomial] Running Binomial Method... 80.3% [binomial] Running Binomial Method... 80.4% [binomial] Running Binomial Method... 80.5% [binomial] Running Binomial Method... 80.5% [binomial] Running Binomial Method... 80.6% [binomial] Running Binomial Method... 80.7% [binomial] Running Binomial Method... 80.8% [binomial] Running Binomial Method... 80.9% [binomial] Running Binomial Method... 81.0% [binomial] Running Binomial Method... 81.1% [binomial] Running Binomial Method... 81.2% [binomial] Running Binomial Method... 81.3% [binomial] Running Binomial Method... 81.4% [binomial] Running Binomial Method... 81.5% [binomial] Running Binomial Method... 81.5% [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% 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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% 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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-3.3.12/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/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/python3.13/unittest/case.py:606: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/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-3.3.12/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 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[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 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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] 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Binomial Essentiality Calls... 25.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 26.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 27.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 27.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 27.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 27.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 27.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 27.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 27.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 27.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 27.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 27.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 27.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 28.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 28.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 28.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 28.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 28.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 28.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 28.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 28.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 28.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 28.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 28.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 29.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 29.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 29.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 29.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 29.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 29.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 29.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 29.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 29.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 29.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 29.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 30.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 30.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 30.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 30.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 30.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 30.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 30.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 30.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 30.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 30.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 30.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 31.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 32.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 33.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 34.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 35.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 36.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 37.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 38.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 39.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 40.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 41.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 42.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 43.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 44.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 45.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 46.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 47.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 48.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 49.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 50.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 51.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 52.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 53.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 54.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 55.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 56.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 57.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 58.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 59.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 60.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 61.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 62.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 63.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 64.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 65.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 66.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 67.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 68.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 69.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 70.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 71.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 72.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 73.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 74.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 75.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 76.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 77.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 78.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 79.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 80.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 81.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 82.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 83.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 84.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 85.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 86.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 87.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 88.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 89.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 90.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 91.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 92.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 93.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 94.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 95.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 96.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 97.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 98.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.0% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.1% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.2% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.3% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.4% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.5% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.6% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.7% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.8% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 99.9% [gumbel] Running Gumbel Method with Binomial Essentiality Calls... 100.0% ok test_HMM (tests.test_analysis_methods.TestMethods.test_HMM) ... /build/reproducible-path/tnseq-transit-3.3.12/tests/../src/pytransit/analysis/hmm.py:194: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:84: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:124: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/testoutput.txt.sites.txt [hmm] Creating HMM Genes Level Output [hmm] Adding File: /build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/transit_test.py:89: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:913: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:930: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:1290: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:1217: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:521: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/testoutput.txt [anova] Finished Anova analysis [anova] Time: 0.4s Removing output file... #################### tests.test_analysis_methods.TestMethods.test_resampling #################### [resampling] site_restricted=False [resampling] Starting resampling Method [resampling] Getting Data [resampling] Preprocessing Ctrl data... [resampling] Normalizing using: TTR [resampling] Performing LOESS Correction [resampling] Preprocessing Exp data... [resampling] Normalizing using: TTR [resampling] Performing LOESS Correction [resampling] Running Resampling Method... 2.0% [resampling] Running Resampling Method... 3.9% [resampling] Running Resampling Method... 5.9% [resampling] Running Resampling Method... 7.8% [resampling] Running Resampling Method... 9.8% [resampling] Running Resampling Method... 11.8% [resampling] Running Resampling Method... 13.7% [resampling] Running Resampling Method... 15.7% [resampling] Running Resampling Method... 17.6% [resampling] Running Resampling Method... 19.6% [resampling] Running Resampling Method... 21.6% [resampling] Running Resampling Method... 23.5% [resampling] Running Resampling Method... 25.5% [resampling] Running Resampling Method... 27.5% [resampling] Running Resampling Method... 29.4% [resampling] Running Resampling Method... 31.4% [resampling] Running Resampling Method... 33.3% [resampling] Running Resampling Method... 35.3% [resampling] Running Resampling Method... 37.3% [resampling] Running Resampling Method... 39.2% [resampling] Running Resampling Method... 41.2% [resampling] Running Resampling Method... 43.1% [resampling] Running Resampling Method... 45.1% [resampling] Running Resampling Method... 47.1% [resampling] Running Resampling Method... 49.0% [resampling] Running Resampling Method... 51.0% [resampling] Running Resampling Method... 52.9% [resampling] Running Resampling Method... 54.9% [resampling] Running Resampling Method... 56.9% [resampling] Running Resampling Method... 58.8% [resampling] Running Resampling Method... 60.8% [resampling] Running Resampling Method... 62.7% [resampling] Running Resampling Method... 64.7% [resampling] Running Resampling Method... 66.7% [resampling] Running Resampling Method... 68.6% [resampling] Running Resampling Method... 70.6% [resampling] Running Resampling Method... 72.5% [resampling] Running Resampling Method... 74.5% [resampling] Running Resampling Method... 76.5% [resampling] Running Resampling Method... 78.4% [resampling] Running Resampling Method... 80.4% [resampling] Running Resampling Method... 82.4% [resampling] Running Resampling Method... 84.3% [resampling] Running Resampling Method... 86.3% [resampling] Running Resampling Method... 88.2% [resampling] Running Resampling Method... 90.2% [resampling] Running Resampling Method... 92.2% [resampling] Running Resampling Method... 94.1% [resampling] Running Resampling Method... 96.1% [resampling] Running Resampling Method... 98.0% [resampling] Running Resampling Method... 100.0% /build/reproducible-path/tnseq-transit-3.3.12/tests/transit_test.py:89: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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: 10.61s [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-3.3.12/tests/../src/pytransit/tnseq_tools.py:84: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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: 6.62s [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): 36 [resampling] Time: 6.57s [resampling] Finished resampling Method 38 36 Removing output file... #################### tests.test_analysis_methods.TestMethods.test_resampling_histogram #################### [resampling] site_restricted=False [resampling] Starting resampling Method [resampling] Getting Data [resampling] Preprocessing Ctrl data... [resampling] Normalizing using: TTR [resampling] Preprocessing Exp data... [resampling] Normalizing using: TTR [resampling] Running Resampling Method... 2.0% [resampling] Running Resampling Method... 3.9% [resampling] Running Resampling Method... 5.9% [resampling] Running Resampling Method... 7.8% [resampling] Running Resampling Method... 9.8% [resampling] Running Resampling Method... 11.8% [resampling] Running Resampling Method... 13.7% [resampling] Running Resampling Method... 15.7% [resampling] Running Resampling Method... 17.6% [resampling] Running Resampling Method... 19.6% [resampling] Running Resampling Method... 21.6% [resampling] Running Resampling Method... 23.5% [resampling] Running Resampling Method... 25.5% [resampling] Running Resampling Method... 27.5% [resampling] Running Resampling Method... 29.4% [resampling] Running Resampling Method... 31.4% [resampling] Running Resampling Method... 33.3% [resampling] Running Resampling Method... 35.3% [resampling] Running Resampling Method... 37.3% [resampling] Running Resampling Method... 39.2% [resampling] Running Resampling Method... 41.2% [resampling] Running Resampling Method... 43.1% [resampling] Running Resampling Method... 45.1% [resampling] Running Resampling Method... 47.1% [resampling] Running Resampling Method... 49.0% [resampling] Running Resampling Method... 51.0% [resampling] Running Resampling Method... 52.9% [resampling] Running Resampling Method... 54.9% [resampling] Running Resampling Method... 56.9% [resampling] Running Resampling Method... 58.8% [resampling] Running Resampling Method... 60.8% [resampling] Running Resampling Method... 62.7% [resampling] Running Resampling Method... 64.7% [resampling] Running Resampling Method... 66.7% [resampling] Running Resampling Method... 68.6% [resampling] Running Resampling Method... 70.6% [resampling] Running Resampling Method... 72.5% [resampling] Running Resampling Method... 74.5% [resampling] Running Resampling Method... 76.5% [resampling] Running Resampling Method... 78.4% [resampling] Running Resampling Method... 80.4% [resampling] Running Resampling Method... 82.4% [resampling] Running Resampling Method... 84.3% [resampling] Running Resampling Method... 86.3% [resampling] Running Resampling Method... 88.2% [resampling] Running Resampling Method... 90.2% [resampling] Running Resampling Method... 92.2% [resampling] Running Resampling Method... 94.1% [resampling] Running Resampling Method... 96.1% [resampling] Running Resampling Method... 98.0% [resampling] Running Resampling Method... 100.0% ok test_resampling_multistrain (tests.test_analysis_methods.TestMethods.test_resampling_multistrain) ... [resampling] [resampling] Performing Benjamini-Hochberg Correction [resampling] Number of significant conditionally essential genes (Padj<0.05): 35 [resampling] Time: 12.35s [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-3.3.12/tests/data/test.prot_table, exp data to /build/reproducible-path/tnseq-transit-3.3.12/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: 22.25s [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-3.3.12/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: 1.18s [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-3.3.12/tests/transit_test.py:75: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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: 1.38s [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: 1.15s [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: 1.27s [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): 1 [resampling] Time: 14.08s [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-3.3.12/tests/../src/pytransit/tnseq_tools.py:1290: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:1217: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytransit/tnseq_tools.py:521: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/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-3.3.12/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-3.3.12/tests/data/test-multicontig-1.fastq -> /build/reproducible-path/tnseq-transit-3.3.12/tests/test_tpp_temp.reads1 /build/reproducible-path/tnseq-transit-3.3.12/tests/../src/pytpp/tpp_tools.py:85: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/test_tpp_temp.trimmed1 [tn_preprocess] prefix sequence: [tn_preprocess] Looking for start of Tn prefix within positions [0,20] /build/reproducible-path/tnseq-transit-3.3.12/tests/../src/pytpp/tpp_tools.py:284: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/data/test-multicontig.fna b'[bwa_index] Pack FASTA... 0.07 sec' b'[bwa_index] Construct BWT for the packed sequence...' b'[bwa_index] 1.40 seconds elapse.' b'[bwa_index] Update BWT... 0.06 sec' b'[bwa_index] Pack forward-only FASTA... 0.04 sec' b'[bwa_index] Construct SA from BWT and Occ... 0.64 sec' b'[main] Version: 0.7.18-r1243-dirty' b'[main] CMD: /usr/bin/bwa index /build/reproducible-path/tnseq-transit-3.3.12/tests/data/test-multicontig.fna' b'[main] Real time: 2.266 sec; CPU: 2.204 sec' b'' [tn_preprocess] /usr/bin/bwa mem /build/reproducible-path/tnseq-transit-3.3.12/tests/data/test-multicontig.fna /build/reproducible-path/tnseq-transit-3.3.12/tests/test_tpp_temp.trimmed1 > /build/reproducible-path/tnseq-transit-3.3.12/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 0.222 CPU sec, 0.221 real sec' b'[main] Version: 0.7.18-r1243-dirty' b'[main] CMD: /usr/bin/bwa mem /build/reproducible-path/tnseq-transit-3.3.12/tests/data/test-multicontig.fna /build/reproducible-path/tnseq-transit-3.3.12/tests/test_tpp_temp.trimmed1' b'[main] Real time: 0.235 sec; CPU: 0.232 sec' b'' [tn_preprocess] tabulating template counts and statistics for reference genome /build/reproducible-path/tnseq-transit-3.3.12/tests/data/test-multicontig.fna /build/reproducible-path/tnseq-transit-3.3.12/tests/../src/pytpp/tpp_tools.py:385: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytpp/tpp_tools.py:567: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/test_tpp_temp_1.wig [tn_preprocess] writing /build/reproducible-path/tnseq-transit-3.3.12/tests/test_tpp_temp_2.wig [tn_preprocess] writing /build/reproducible-path/tnseq-transit-3.3.12/tests/test_tpp_temp_3.wig /build/reproducible-path/tnseq-transit-3.3.12/tests/../src/pytpp/tpp_tools.py:1116: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytpp/tpp_tools.py:1117: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/../src/pytpp/tpp_tools.py:1195: ResourceWarning: unclosed file <_io.TextIOWrapper name='/build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/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-3.3.12/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-3.3.12/tests/data/test-multicontig.fna, containing 3 records. [tn_preprocess] extracting reads... [tn_preprocess] fastq2reads: /build/reproducible-path/tnseq-transit-3.3.12/tests/data/test-multicontig-1.fastq -> /build/reproducible-path/tnseq-transit-3.3.12/tests/test_tpp_temp.reads1 [tn_preprocess] assuming single-ended reads [tn_preprocess] creating /build/reproducible-path/tnseq-transit-3.3.12/tests/test_tpp_temp.trimmed1 [tn_preprocess] prefix sequence: [tn_preprocess] Looking for start of Tn prefix within positions [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-3.3.12/tests/data/test-multicontig.fna /build/reproducible-path/tnseq-transit-3.3.12/tests/test_tpp_temp.trimmed1 > /build/reproducible-path/tnseq-transit-3.3.12/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 0.220 CPU sec, 0.220 real sec' b'[main] Version: 0.7.18-r1243-dirty' b'[main] CMD: /usr/bin/bwa mem /build/reproducible-path/tnseq-transit-3.3.12/tests/data/test-multicontig.fna /build/reproducible-path/tnseq-transit-3.3.12/tests/test_tpp_temp.trimmed1' b'[main] Real time: 0.233 sec; CPU: 0.231 sec' b'' [tn_preprocess] tabulating template counts and statistics for reference genome /build/reproducible-path/tnseq-transit-3.3.12/tests/data/test-multicontig.fna [tn_preprocess] writing /build/reproducible-path/tnseq-transit-3.3.12/tests/test_tpp_temp_a.wig [tn_preprocess] writing /build/reproducible-path/tnseq-transit-3.3.12/tests/test_tpp_temp_b.wig [tn_preprocess] writing /build/reproducible-path/tnseq-transit-3.3.12/tests/test_tpp_temp_c.wig [tn_preprocess] writing /build/reproducible-path/tnseq-transit-3.3.12/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 119.417s OK (skipped=6) [resampling] [resampling] Performing Benjamini-Hochberg Correction [resampling] Number of significant conditionally essential genes (Padj<0.05): 0 [resampling] Time: 1.08s [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-3.3.12/tests/data/test-multicontig-1.fastq # title: Tn-Seq Pre-Processor # date: 03/11/2026 08:13:50 # command: python python3.13 -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-3.3.12/tests/data/test-multicontig-1.fastq # read2: # ref_genome: /build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12/tests/data/test-multicontig-1.fastq # title: Tn-Seq Pre-Processor # date: 03/11/2026 08:13:51 # command: python python3.13 -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-3.3.12/tests/data/test-multicontig-1.fastq # read2: # ref_genome: /build/reproducible-path/tnseq-transit-3.3.12/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-3.3.12' 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-3.3.12/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 transit1.egg-info/PKG-INFO writing dependency_links to transit1.egg-info/dependency_links.txt writing entry points to transit1.egg-info/entry_points.txt writing requirements to transit1.egg-info/requires.txt writing top-level names to transit1.egg-info/top_level.txt reading manifest file 'transit1.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 'transit1.egg-info/SOURCES.txt' /usr/lib/python3/dist-packages/setuptools/command/build_py.py:212: _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:212: _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:212: _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-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages creating /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/stat_tools.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/view_trash.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/DejaVuSans.ttf -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/__main__.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit creating /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/convert copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/convert/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/convert copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/convert/gff_to_prot_table.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/convert copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/convert/base.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/convert creating /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/genomes/H37Rv.fna -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/genomes/mc2_155_tamu.prot_table -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/genomes/H37RvBD_mod3.prot_table -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/genomes/H37RvBD.prot_table -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/genomes/genomes.html -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/genomes/H37Rv.prot_table -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/genomes/mc2_155_tamu.fna -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/genomes/H37RvBD.fna -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/genomes/BCG.prot_table -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/genomes/BCG.fna -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/genomes/H37RvMA2.fna -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/genomes/H37RvMA2.prot_table -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/genomes copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/transit_gui.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/tnseq_tools.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/trash.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/fileDisplay.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit creating /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/export copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/export/igv.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/export copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/export/combined_wig.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/export copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/export/mean_counts.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/export copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/export/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/export copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/export/prot_table.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/export copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/export/base.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/export creating /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis/gi.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis/normalize.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis/tn5gaps.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis/utest.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis/binomial.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis/corrplot.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis/gumbel.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis/ttnfitness.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis/zinb.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis/anova.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis/example.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis/griffin.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis/tnseq_stats.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis/norm.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis/resampling.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis/pathway_enrichment.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis/heatmap.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis/rankproduct.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis/CGI.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis/hmm.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/analysis/base.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/norm_tools.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/images.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit creating /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/generic_tools copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/generic_tools/file_system_py.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/generic_tools copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/generic_tools/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/generic_tools creating /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/GO_associated_Rvs-3-11-18.txt -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/iron_samples_metadata.txt -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/H37Rv.sanger_associated_RVS.csv -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/cholesterol_H37Rv_merged.wig -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data creating /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data/CGI copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/CGI/RIF_D1_combined_counts.txt -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data/CGI copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/CGI/samples_metadata.txt -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data/CGI copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/CGI/uninduced_ATC_counts.txt -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data/CGI copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/CGI/IDs.H37Rv.CRISPRi.lib.txt -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data/CGI copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/CGI/sgRNA_info.txt -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data/CGI copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/GO_associated_Rvs.csv -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/cholesterol_H37Rv_rep3.wig -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/GO_term_names.dat -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/sanger_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/samples_metadata_cg_interactions.txt -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/samples_metadata_cg.txt -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/cholesterol_H37Rv_rep1.wig -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/glycerol_H37Rv_merged.wig -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/H37Rv_COG_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/COG_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/cholesterol_glycerol_combined.dat -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/samples_metadata_cg_covar.txt -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/glycerol_H37Rv_rep1.wig -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/smeg_COG_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/H37Rv_sanger_roles.dat -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/iron_combined_wig4.txt -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/README.md -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/glycerol_H37Rv_rep2.wig -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/cholesterol_H37Rv_rep2.wig -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/GO_terms_for_each_Rv.obo-3-11-18.txt -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/smeg_GO_terms.txt -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/data/H37Rv_GO_terms.txt -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/data copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/qcDisplay.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/draw_trash.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytransit/transit_tools.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit creating /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytpp copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytpp/__main__.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytpp copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytpp/tpp_tools.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytpp copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytpp/__init__.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytpp copying /build/reproducible-path/tnseq-transit-3.3.12/.pybuild/cpython3_3.13/build/pytpp/tpp_gui.py -> /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytpp byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/stat_tools.py to stat_tools.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/view_trash.py to view_trash.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/__main__.py to __main__.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/convert/__init__.py to __init__.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/convert/gff_to_prot_table.py to gff_to_prot_table.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/convert/base.py to base.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/transit_gui.py to transit_gui.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/tnseq_tools.py to tnseq_tools.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/trash.py to trash.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/fileDisplay.py to fileDisplay.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/__init__.py to __init__.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/export/igv.py to igv.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/export/combined_wig.py to combined_wig.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/export/mean_counts.py to mean_counts.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/export/__init__.py to __init__.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/export/prot_table.py to prot_table.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/export/base.py to base.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis/gi.py to gi.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis/normalize.py to normalize.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis/tn5gaps.py to tn5gaps.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis/utest.py to utest.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis/binomial.py to binomial.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis/corrplot.py to corrplot.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis/gumbel.py to gumbel.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis/ttnfitness.py to ttnfitness.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis/zinb.py to zinb.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis/anova.py to anova.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis/example.py to example.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis/griffin.py to griffin.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis/tnseq_stats.py to tnseq_stats.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis/__init__.py to __init__.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis/norm.py to norm.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis/resampling.py to resampling.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis/pathway_enrichment.py to pathway_enrichment.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis/heatmap.py to heatmap.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis/rankproduct.py to rankproduct.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis/CGI.py to CGI.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis/hmm.py to hmm.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/analysis/base.py to base.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/norm_tools.py to norm_tools.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/images.py to images.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/generic_tools/file_system_py.py to file_system_py.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/generic_tools/__init__.py to __init__.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/qcDisplay.py to qcDisplay.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/draw_trash.py to draw_trash.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytransit/transit_tools.py to transit_tools.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytpp/__main__.py to __main__.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytpp/tpp_tools.py to tpp_tools.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytpp/__init__.py to __init__.cpython-313.pyc byte-compiling /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/pytpp/tpp_gui.py to tpp_gui.cpython-313.pyc running install_egg_info Copying transit1.egg-info to /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/lib/python3.13/dist-packages/transit1-3.3.12.egg-info Skipping SOURCES.txt running install_scripts Installing tpp script to /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/bin Installing transit script to /build/reproducible-path/tnseq-transit-3.3.12/debian/tnseq-transit/usr/bin debian/rules execute_after_dh_install make[1]: Entering directory '/build/reproducible-path/tnseq-transit-3.3.12' mv debian/tnseq-transit/usr/bin/tpp debian/tnseq-transit/usr/bin/transit-tpp make[1]: Leaving directory '/build/reproducible-path/tnseq-transit-3.3.12' 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_3.3.12-1_i386.deb'. dpkg-genbuildinfo --build=binary -O../tnseq-transit_3.3.12-1_i386.buildinfo dpkg-genchanges --build=binary -O../tnseq-transit_3.3.12-1_i386.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: 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/31039 and its subdirectories I: Current time: Wed Mar 11 08:14:25 -12 2026 I: pbuilder-time-stamp: 1773260065 Thu Feb 6 13:51:28 UTC 2025 I: 1st build successful. Starting 2nd build on remote node ionos2-i386.debian.net. Thu Feb 6 13:51:28 UTC 2025 I: Preparing to do remote build '2' on ionos2-i386.debian.net. Thu Feb 6 14:04:57 UTC 2025 I: Deleting $TMPDIR on ionos2-i386.debian.net. Thu Feb 6 14:04:57 UTC 2025 I: tnseq-transit_3.3.12-1_i386.changes: Format: 1.8 Date: Mon, 03 Feb 2025 15:06:19 +0100 Source: tnseq-transit Binary: tnseq-transit Architecture: i386 Version: 3.3.12-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Alexandre Detiste Description: tnseq-transit - statistical calculations of essentiality of genes or genomic regi Closes: 1083799 Changes: tnseq-transit (3.3.12-1) unstable; urgency=medium . * Team Upload * New upstream version 3.3.12 * Patch-out generation of python3-pkg-resources dep (Closes: #1083799) . [ Andreas Tille ] * New upstream version 3.3.10 * Standards-Version: 4.7.0 (routine-update) * Refresh patches Checksums-Sha1: 12f132a56eb1411b6bd1c84232879a962ae77fa8 8708 tnseq-transit_3.3.12-1_i386.buildinfo 18a110a962e20e81f1ec62b57cf9e40762b920ad 17574040 tnseq-transit_3.3.12-1_i386.deb Checksums-Sha256: 424d73c62ef201c1ae9ba4921d9232fe04e0a5f1738998f44e97a31131fa8403 8708 tnseq-transit_3.3.12-1_i386.buildinfo 453e2cc55c13693d229cffa886867440506e777b09fe2255f7cbdb737f5859e4 17574040 tnseq-transit_3.3.12-1_i386.deb Files: 97d6408dfd7d6f22b824fb0a5e19997b 8708 science optional tnseq-transit_3.3.12-1_i386.buildinfo 9090d8e042192fc9ab51c2289a80ce66 17574040 science optional tnseq-transit_3.3.12-1_i386.deb Thu Feb 6 14:04:58 UTC 2025 I: diffoscope 287 will be used to compare the two builds: Running as unit: rb-diffoscope-i386_4-51828.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.bFWZQaEk/tnseq-transit_3.3.12-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.bFWZQaEk/tnseq-transit_3.3.12-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.bFWZQaEk/tnseq-transit_3.3.12-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.bFWZQaEk/b1/tnseq-transit_3.3.12-1_i386.changes /srv/reproducible-results/rbuild-debian/r-b-build.bFWZQaEk/b2/tnseq-transit_3.3.12-1_i386.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call diffoscope.comparators.binary.FilesystemFile ## main (total time: 0.003s) 0.003s 2 calls outputs 0.000s 1 call cleanup Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 219ms CPU time consumed: 220ms Thu Feb 6 14:04:59 UTC 2025 I: diffoscope 287 found no differences in the changes files, and a .buildinfo file also exists. Thu Feb 6 14:04:59 UTC 2025 I: tnseq-transit from trixie built successfully and reproducibly on i386. Thu Feb 6 14:05:00 UTC 2025 I: Submitting .buildinfo files to external archives: Thu Feb 6 14:05:00 UTC 2025 I: Submitting 12K b1/tnseq-transit_3.3.12-1_i386.buildinfo.asc Thu Feb 6 14:05:01 UTC 2025 I: Submitting 12K b2/tnseq-transit_3.3.12-1_i386.buildinfo.asc Thu Feb 6 14:05:02 UTC 2025 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Thu Feb 6 14:05:02 UTC 2025 I: Done submitting .buildinfo files. Thu Feb 6 14:05:02 UTC 2025 I: Removing signed tnseq-transit_3.3.12-1_i386.buildinfo.asc files: removed './b1/tnseq-transit_3.3.12-1_i386.buildinfo.asc' removed './b2/tnseq-transit_3.3.12-1_i386.buildinfo.asc'