https://launchpad.net/ubuntu/+source/bcbio/1.2.4-2/+build/20255721 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux lgw01-amd64-036 4.15.0-123-generic #126-Ubuntu SMP Wed Oct 21 09:40:11 UTC 2020 x86_64 Buildd toolchain package versions: launchpad-buildd_193~468~ubuntu18.04.1 python3-lpbuildd_193~468~ubuntu18.04.1 sbuild_0.75.0-1ubuntu1 bzr-builder_0.7.3+bzr174~ppa13~ubuntu16.04.1 bzr_2.7.0+bzr6622-10 git-build-recipe_0.3.6~git201906051340.ff11471~ubuntu18.04.1 git_1:2.17.1-1ubuntu0.7 dpkg-dev_1.19.0.5ubuntu2.3 python-debian_0.1.32 python3-debian_0.1.32. Syncing the system clock with the buildd NTP service... 16 Nov 10:50:32 ntpdate[1699]: adjust time server 10.211.37.1 offset -0.002989 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=hirsute --arch=amd64 PACKAGEBUILD-20255721 --image-type chroot /home/buildd/filecache-default/720a8366e1260e086c1691fe6381a3f2b1c21d81 Creating target for build PACKAGEBUILD-20255721 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=hirsute --arch=amd64 PACKAGEBUILD-20255721 Starting target for build PACKAGEBUILD-20255721 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=hirsute --arch=amd64 PACKAGEBUILD-20255721 'deb http://ftpmaster.internal/ubuntu hirsute main universe' 'deb http://ftpmaster.internal/ubuntu hirsute-security main universe' 'deb http://ftpmaster.internal/ubuntu hirsute-updates main universe' 'deb http://ftpmaster.internal/ubuntu hirsute-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-20255721 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=hirsute --arch=amd64 PACKAGEBUILD-20255721 Updating target for build PACKAGEBUILD-20255721 Get:1 http://ftpmaster.internal/ubuntu hirsute InRelease [267 kB] Get:2 http://ftpmaster.internal/ubuntu hirsute-security InRelease [88.4 kB] Get:3 http://ftpmaster.internal/ubuntu hirsute-updates InRelease [88.4 kB] Get:4 http://ftpmaster.internal/ubuntu hirsute-proposed InRelease [118 kB] Get:5 http://ftpmaster.internal/ubuntu hirsute/main amd64 Packages [1385 kB] Get:6 http://ftpmaster.internal/ubuntu hirsute/main Translation-en [509 kB] Get:7 http://ftpmaster.internal/ubuntu hirsute/universe amd64 Packages [12.7 MB] Get:8 http://ftpmaster.internal/ubuntu hirsute/universe Translation-en [5330 kB] Get:9 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 Packages [193 kB] Get:10 http://ftpmaster.internal/ubuntu hirsute-proposed/main Translation-en [76.1 kB] Get:11 http://ftpmaster.internal/ubuntu hirsute-proposed/universe amd64 Packages [1783 kB] Get:12 http://ftpmaster.internal/ubuntu hirsute-proposed/universe Translation-en [599 kB] Fetched 23.2 MB in 3s (7047 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: libperl5.30 perl-modules-5.30 Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: libperl5.32 perl-modules-5.32 The following packages will be upgraded: apt base-files base-passwd bash binutils binutils-common binutils-x86-64-linux-gnu coreutils cpp-10 dash dpkg dpkg-dev fakeroot g++-10 gcc-10 gcc-10-base grep libapparmor1 libapt-pkg6.0 libasan6 libatomic1 libaudit-common libaudit1 libbinutils libc-bin libc-dev-bin libc6 libc6-dev libcap2 libcc1-0 libcrypt-dev libcrypt1 libcryptsetup12 libctf-nobfd0 libctf0 libdebconfclient0 libdpkg-perl libfakeroot libgcc-10-dev libgcc-s1 libgcrypt20 libgomp1 libidn2-0 libip4tc2 libitm1 liblsan0 libmpc3 libncurses6 libncursesw6 libnpth0 libquadmath0 libreadline8 libseccomp2 libselinux1 libsemanage-common libsemanage1 libstdc++-10-dev libstdc++6 libsystemd0 libtinfo6 libtirpc-common libtirpc-dev libtirpc3 libtsan0 libubsan1 libudev1 linux-libc-dev ncurses-base ncurses-bin perl perl-base readline-common systemd systemd-sysv systemd-timesyncd sysvinit-utils tzdata 77 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 243 MB of archives. After this operation, 928 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu hirsute/main amd64 libcrypt-dev amd64 1:4.4.17-1ubuntu1 [105 kB] Get:2 http://ftpmaster.internal/ubuntu hirsute/main amd64 libcrypt1 amd64 1:4.4.17-1ubuntu1 [78.8 kB] Get:3 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libc6-dev amd64 2.32-0ubuntu5 [2128 kB] Get:4 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libc-dev-bin amd64 2.32-0ubuntu5 [30.9 kB] Get:5 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 linux-libc-dev amd64 5.8.0-26.27 [1165 kB] Get:6 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libtirpc-common all 1.2.6-3 [7444 B] Get:7 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libtirpc-dev amd64 1.2.6-3 [184 kB] Get:8 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libtirpc3 amd64 1.2.6-3 [77.2 kB] Get:9 http://ftpmaster.internal/ubuntu hirsute/main amd64 libcc1-0 amd64 10.2.0-17ubuntu1 [41.1 kB] Get:10 http://ftpmaster.internal/ubuntu hirsute/main amd64 gcc-10-base amd64 10.2.0-17ubuntu1 [19.5 kB] Get:11 http://ftpmaster.internal/ubuntu hirsute/main amd64 libgcc-s1 amd64 10.2.0-17ubuntu1 [41.7 kB] Get:12 http://ftpmaster.internal/ubuntu hirsute/main amd64 libgomp1 amd64 10.2.0-17ubuntu1 [102 kB] Get:13 http://ftpmaster.internal/ubuntu hirsute/main amd64 libitm1 amd64 10.2.0-17ubuntu1 [26.3 kB] Get:14 http://ftpmaster.internal/ubuntu hirsute/main amd64 libatomic1 amd64 10.2.0-17ubuntu1 [9284 B] Get:15 http://ftpmaster.internal/ubuntu hirsute/main amd64 libasan6 amd64 10.2.0-17ubuntu1 [344 kB] Get:16 http://ftpmaster.internal/ubuntu hirsute/main amd64 liblsan0 amd64 10.2.0-17ubuntu1 [144 kB] Get:17 http://ftpmaster.internal/ubuntu hirsute/main amd64 libtsan0 amd64 10.2.0-17ubuntu1 [319 kB] Get:18 http://ftpmaster.internal/ubuntu hirsute/main amd64 libubsan1 amd64 10.2.0-17ubuntu1 [136 kB] Get:19 http://ftpmaster.internal/ubuntu hirsute/main amd64 libquadmath0 amd64 10.2.0-17ubuntu1 [146 kB] Get:20 http://ftpmaster.internal/ubuntu hirsute/main amd64 g++-10 amd64 10.2.0-17ubuntu1 [70.1 MB] Get:21 http://ftpmaster.internal/ubuntu hirsute/main amd64 libstdc++-10-dev amd64 10.2.0-17ubuntu1 [1750 kB] Get:22 http://ftpmaster.internal/ubuntu hirsute/main amd64 libgcc-10-dev amd64 10.2.0-17ubuntu1 [2345 kB] Get:23 http://ftpmaster.internal/ubuntu hirsute/main amd64 gcc-10 amd64 10.2.0-17ubuntu1 [72.0 MB] Get:24 http://ftpmaster.internal/ubuntu hirsute/main amd64 cpp-10 amd64 10.2.0-17ubuntu1 [63.4 MB] Get:25 http://ftpmaster.internal/ubuntu hirsute/main amd64 libstdc++6 amd64 10.2.0-17ubuntu1 [502 kB] Get:26 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libmpc3 amd64 1.2.0-1 [44.3 kB] Get:27 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libctf-nobfd0 amd64 2.35.1-2ubuntu1 [48.2 kB] Get:28 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libctf0 amd64 2.35.1-2ubuntu1 [47.6 kB] Get:29 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libbinutils amd64 2.35.1-2ubuntu1 [481 kB] Get:30 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 binutils-common amd64 2.35.1-2ubuntu1 [212 kB] Get:31 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 binutils amd64 2.35.1-2ubuntu1 [3376 B] Get:32 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 binutils-x86-64-linux-gnu amd64 2.35.1-2ubuntu1 [1646 kB] Get:33 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libc6 amd64 2.32-0ubuntu5 [2684 kB] Get:34 http://ftpmaster.internal/ubuntu hirsute/main amd64 base-files amd64 11ubuntu16 [60.5 kB] Get:35 http://ftpmaster.internal/ubuntu hirsute/main amd64 bash amd64 5.1~rc2-1ubuntu1 [680 kB] Get:36 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 coreutils amd64 8.32-4ubuntu1 [1352 kB] Get:37 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 dpkg amd64 1.20.5ubuntu3 [1172 kB] Get:38 http://ftpmaster.internal/ubuntu hirsute/main amd64 dash amd64 0.5.11+git20200708+dd9ef66-2 [86.8 kB] Get:39 http://ftpmaster.internal/ubuntu hirsute/main amd64 grep amd64 3.6-1 [155 kB] Get:40 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libncursesw6 amd64 6.2+20200918-1 [132 kB] Get:41 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libncurses6 amd64 6.2+20200918-1 [102 kB] Get:42 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libtinfo6 amd64 6.2+20200918-1 [87.3 kB] Get:43 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 ncurses-bin amd64 6.2+20200918-1 [173 kB] Get:44 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 perl-modules-5.32 all 5.32.0-5 [2754 kB] Get:45 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libperl5.32 amd64 5.32.0-5 [4044 kB] Get:46 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 perl amd64 5.32.0-5 [225 kB] Get:47 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 perl-base amd64 5.32.0-5 [1562 kB] Get:48 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libdebconfclient0 amd64 0.255ubuntu1 [6184 B] Get:49 http://ftpmaster.internal/ubuntu hirsute/main amd64 base-passwd amd64 3.5.48 [47.5 kB] Get:50 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libc-bin amd64 2.32-0ubuntu5 [622 kB] Get:51 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 ncurses-base all 6.2+20200918-1 [18.7 kB] Get:52 http://ftpmaster.internal/ubuntu hirsute/main amd64 sysvinit-utils amd64 2.96-5ubuntu1 [20.8 kB] Get:53 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libgcrypt20 amd64 1.8.7-2ubuntu1 [424 kB] Get:54 http://ftpmaster.internal/ubuntu hirsute/main amd64 systemd-sysv amd64 246.6-2ubuntu1 [10.3 kB] Get:55 http://ftpmaster.internal/ubuntu hirsute/main amd64 systemd-timesyncd amd64 246.6-2ubuntu1 [28.2 kB] Get:56 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libapparmor1 amd64 3.0.0-0ubuntu4 [35.9 kB] Get:57 http://ftpmaster.internal/ubuntu hirsute/main amd64 libaudit-common all 1:2.8.5-3ubuntu2 [4092 B] Get:58 http://ftpmaster.internal/ubuntu hirsute/main amd64 libaudit1 amd64 1:2.8.5-3ubuntu2 [39.5 kB] Get:59 http://ftpmaster.internal/ubuntu hirsute/main amd64 libcap2 amd64 1:2.44-1 [17.2 kB] Get:60 http://ftpmaster.internal/ubuntu hirsute/main amd64 libcryptsetup12 amd64 2:2.3.4-1ubuntu1 [195 kB] Get:61 http://ftpmaster.internal/ubuntu hirsute/main amd64 libidn2-0 amd64 2.3.0-3 [52.4 kB] Get:62 http://ftpmaster.internal/ubuntu hirsute/main amd64 libip4tc2 amd64 1.8.5-3ubuntu3 [18.7 kB] Get:63 http://ftpmaster.internal/ubuntu hirsute/main amd64 libseccomp2 amd64 2.4.3-1ubuntu5 [42.0 kB] Get:64 http://ftpmaster.internal/ubuntu hirsute/main amd64 systemd amd64 246.6-2ubuntu1 [4165 kB] Get:65 http://ftpmaster.internal/ubuntu hirsute/main amd64 libsystemd0 amd64 246.6-2ubuntu1 [273 kB] Get:66 http://ftpmaster.internal/ubuntu hirsute/main amd64 libudev1 amd64 246.6-2ubuntu1 [67.6 kB] Get:67 http://ftpmaster.internal/ubuntu hirsute/main amd64 libapt-pkg6.0 amd64 2.1.11 [848 kB] Get:68 http://ftpmaster.internal/ubuntu hirsute/main amd64 apt amd64 2.1.11 [1305 kB] Get:69 http://ftpmaster.internal/ubuntu hirsute/main amd64 libselinux1 amd64 3.1-2build1 [69.4 kB] Get:70 http://ftpmaster.internal/ubuntu hirsute/main amd64 libsemanage-common all 3.1-1build1 [10.1 kB] Get:71 http://ftpmaster.internal/ubuntu hirsute/main amd64 libsemanage1 amd64 3.1-1build1 [87.2 kB] Get:72 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 readline-common all 8.1~rc2-2 [54.1 kB] Get:73 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libreadline8 amd64 8.1~rc2-2 [137 kB] Get:74 http://ftpmaster.internal/ubuntu hirsute/main amd64 tzdata all 2020d-1ubuntu1 [293 kB] Get:75 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 dpkg-dev all 1.20.5ubuntu3 [758 kB] Get:76 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libdpkg-perl all 1.20.5ubuntu3 [232 kB] Get:77 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libfakeroot amd64 1.25.3-1 [26.6 kB] Get:78 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 fakeroot amd64 1.25.3-1 [62.9 kB] Get:79 http://ftpmaster.internal/ubuntu hirsute/main amd64 libnpth0 amd64 1.6-3 [8220 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 243 MB in 6s (42.5 MB/s) (Reading database ... 12980 files and directories currently installed.) 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Setting up libtirpc-dev:amd64 (1.2.6-3) ... Setting up libdpkg-perl (1.20.5ubuntu3) ... Setting up libc6-dev:amd64 (2.32-0ubuntu5) ... Setting up binutils-x86-64-linux-gnu (2.35.1-2ubuntu1) ... Setting up libstdc++-10-dev:amd64 (10.2.0-17ubuntu1) ... Setting up binutils (2.35.1-2ubuntu1) ... Setting up dpkg-dev (1.20.5ubuntu3) ... Setting up gcc-10 (10.2.0-17ubuntu1) ... Setting up g++-10 (10.2.0-17ubuntu1) ... Setting up systemd (246.6-2ubuntu1) ... Initializing machine ID from random generator. Setting up systemd-timesyncd (246.6-2ubuntu1) ... Setting up systemd-sysv (246.6-2ubuntu1) ... Processing triggers for libc-bin (2.32-0ubuntu5) ... RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-20255721 amd64 hirsute-proposed -c chroot:build-PACKAGEBUILD-20255721 --arch=amd64 --dist=hirsute-proposed --nolog -A bcbio_1.2.4-2.dsc Initiating build PACKAGEBUILD-20255721 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.15.0-123-generic #126-Ubuntu SMP Wed Oct 21 09:40:11 UTC 2020 x86_64 sbuild (Debian sbuild) 0.75.0 (21 Mar 2018) on lgw01-amd64-036.buildd +==============================================================================+ | bcbio 1.2.4-2 (amd64) Mon, 16 Nov 2020 10:51:23 +0000 | +==============================================================================+ Package: bcbio Version: 1.2.4-2 Source Version: 1.2.4-2 Distribution: hirsute-proposed Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: binary I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-20255721/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- bcbio_1.2.4-2.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/bcbio-vSPhwE/bcbio-1.2.4' with '<>' I: NOTICE: Log filtering will replace 'build/bcbio-vSPhwE' with '<>' +------------------------------------------------------------------------------+ | Install build-essential | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<>/resolver-NqnQ2K/apt_archive/sbuild-build-depends-core-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-core-dummy dpkg-scanpackages: info: Wrote 1 entries to output Packages file. Ign:1 copy:/<>/resolver-NqnQ2K/apt_archive ./ InRelease Get:2 copy:/<>/resolver-NqnQ2K/apt_archive ./ Release [957 B] Ign:3 copy:/<>/resolver-NqnQ2K/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-NqnQ2K/apt_archive ./ Sources [349 B] Get:5 copy:/<>/resolver-NqnQ2K/apt_archive ./ Packages [432 B] Fetched 1738 B in 0s (139 kB/s) Reading package lists... Reading package lists... Install core build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libperl5.30 perl-modules-5.30 Use 'apt autoremove' to remove them. The following NEW packages will be installed: sbuild-build-depends-core-dummy 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 852 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-NqnQ2K/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [852 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 852 B in 0s (0 B/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 14901 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_amd64.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in all) +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), dh-python, python3-all, python3-setuptools, python3-gffutils, python3-mock, python3-pandas, python3-pybedtools, python3-pysam, python3-pyvcf, python3-toolz, python3-tornado, python3-yaml, python3-scipy, python3-psutil, python3-joblib, atropos, bedtools, biobambam2, gffread, grabix, hisat2, mosdepth, multiqc, perl, libpicard-java, python3-biopython, python3-cyvcf2, python3-geneimpacts, python3-logbook, python3-nose, python3-requests, python3-pytest, python3-pytest-mock, bcftools, rna-star, salmon, samblaster, samtools, seqtk, tabix, tophat-recondition, wham-align, xonsh, python3-sphinx Filtered Build-Depends: debhelper-compat (= 13), dh-python, python3-all, python3-setuptools, python3-gffutils, python3-mock, python3-pandas, python3-pybedtools, python3-pysam, python3-pyvcf, python3-toolz, python3-tornado, python3-yaml, python3-scipy, python3-psutil, python3-joblib, atropos, bedtools, biobambam2, gffread, grabix, hisat2, mosdepth, multiqc, perl, libpicard-java, python3-biopython, python3-cyvcf2, python3-geneimpacts, python3-logbook, python3-nose, python3-requests, python3-pytest, python3-pytest-mock, bcftools, rna-star, salmon, samblaster, samtools, seqtk, tabix, tophat-recondition, wham-align, xonsh, python3-sphinx dpkg-deb: building package 'sbuild-build-depends-bcbio-dummy' in '/<>/resolver-NqnQ2K/apt_archive/sbuild-build-depends-bcbio-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-bcbio-dummy sbuild-build-depends-core-dummy dpkg-scanpackages: info: Wrote 2 entries to output Packages file. Ign:1 copy:/<>/resolver-NqnQ2K/apt_archive ./ InRelease Get:2 copy:/<>/resolver-NqnQ2K/apt_archive ./ Release [963 B] Ign:3 copy:/<>/resolver-NqnQ2K/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-NqnQ2K/apt_archive ./ Sources [774 B] Get:5 copy:/<>/resolver-NqnQ2K/apt_archive ./ Packages [824 B] Fetched 2561 B in 0s (183 kB/s) Reading package lists... Reading package lists... Install bcbio build dependencies (apt-based resolver) ----------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libperl5.30 perl-modules-5.30 Use 'apt autoremove' to remove them. The following additional packages will be installed: ant ant-optional atropos autoconf automake autopoint autotools-dev bcftools bedtools biobambam2 bsdextrautils ca-certificates-java cython3 debhelper default-jre-headless dh-autoreconf dh-python dh-strip-nondeterminism docutils-common dwz file fontconfig-config fonts-font-awesome fonts-lato fonts-lyx gettext gettext-base gffread grabix groff-base hisat2 intltool-debian java-common libactivation-java libaopalliance-java libapache-pom-java libarchive-zip-perl libargs4j-java libasn1-8-heimdal libasound2 libasound2-data libatinject-jsr330-api-java libavahi-client3 libavahi-common-data libavahi-common3 libbarclay-java libblas3 libboost-filesystem1.71.0 libboost-iostreams1.71.0 libboost-program-options1.71.0 libbrotli1 libbsd0 libcdi-api-java libcodemodel-java libcommons-cli-java libcommons-codec-java libcommons-compress-java libcommons-io-java libcommons-jexl2-java libcommons-lang3-java libcommons-logging-java libcommons-math3-java libcommons-parent-java libcroco3 libcups2 libcurl3-gnutls libdbus-1-3 libdebhelper-perl libdeflate0 libdom4j-java libdtd-parser-java libelf1 libexpat1 libfastinfoset-java libfile-stripnondeterminism-perl libfontconfig1 libfreemarker-java libfreetype6 libgatk-native-bindings-java libgclib2 libgeronimo-annotation-1.3-spec-java libgeronimo-interceptor-3.0-spec-java libgfortran5 libgkl-java libgkl-jni libglib2.0-0 libgoogle-gson-java libgssapi3-heimdal libguava-java libguice-java libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhts3 libhtscodecs2 libhtsjdk-java libhttpclient-java libhttpcore-java libhx509-5-heimdal libicu67 libimagequant0 libistack-commons-java libjaxb-api-java libjaxb-java libjaxen-java libjbig0 libjemalloc2 libjoptsimple-java libjpeg-turbo8 libjpeg8 libjs-jquery libjs-jquery-ui libjs-sphinxdoc libjs-underscore libjsoup-java libjsr305-java libkrb5-26-heimdal liblapack3 liblbfgsb0 liblcms2-2 libldap-2.4-2 liblightcouch-java liblog4j2-java libmagic-mgc libmagic1 libmaus2-2 libmaven-file-management-java libmaven-parent-java libmaven-resolver-java libmaven-shared-io-java libmaven-shared-utils-java libmaven3-core-java libmongodb-java libnghttp2-14 libngs-java libngs-sdk-dev libngs-sdk2 libnspr4 libnss3 libpcsclite1 libpicard-java libpipeline1 libplexus-archiver-java libplexus-cipher-java libplexus-classworlds-java libplexus-component-annotations-java libplexus-interpolation-java libplexus-io-java libplexus-sec-dispatcher-java libplexus-utils2-java libpsl5 libpython3-stdlib libpython3.8-minimal libpython3.8-stdlib libpython3.9-minimal libpython3.9-stdlib librelaxng-datatype-java librngom-java libroken18-heimdal librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libsisu-guice-java libsisu-inject-java libsisu-ioc-java libsisu-plexus-java libslf4j-java libsnappy-java libsnappy-jni libsnappy1v5 libssh-4 libstaden-read14 libstax-ex-java libstreambuffer-java libsub-override-perl libtbb2 libtiff5 libtool libtxw2-java libuchardet0 libwagon-http-java libwagon-provider-api-java libwebp6 libwebpdemux2 libwebpmux3 libwind0-heimdal libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxext6 libxi6 libxml-commons-resolver1.1-java libxml2 libxrender1 libxsom-java libxtst6 libxz-java libyaml-0-2 m4 man-db mime-support mosdepth multiqc node-jquery openjdk-11-jre-headless po-debconf python-babel-localedata python-matplotlib-data python3 python3-alabaster python3-all python3-argcomplete python3-argh python3-atomicwrites python3-attr python3-babel python3-biopython python3-certifi python3-chardet python3-click python3-colorama python3-coloredlogs python3-colormath python3-cycler python3-cyvcf2 python3-dateutil python3-decorator python3-distutils python3-docutils python3-future python3-geneimpacts python3-gffutils python3-humanfriendly python3-idna python3-imagesize python3-importlib-metadata python3-jinja2 python3-joblib python3-kiwisolver python3-lib2to3 python3-logbook python3-lzstring python3-markdown python3-markupsafe python3-matplotlib python3-minimal python3-mock python3-more-itertools python3-networkx python3-nose python3-numpy python3-packaging python3-pandas python3-pandas-lib python3-pbr python3-pil python3-pkg-resources python3-pluggy python3-ply python3-psutil python3-py python3-pybedtools python3-pyfaidx python3-pygments python3-pyparsing python3-pysam python3-pytest python3-pytest-mock python3-reportlab python3-reportlab-accel python3-requests python3-roman python3-scipy python3-setuptools python3-simplejson python3-six python3-snowballstemmer python3-spectra python3-sphinx python3-toolz python3-tornado python3-tz python3-urllib3 python3-vcf python3-wcwidth python3-yaml python3-zipp python3.8 python3.8-minimal python3.9 python3.9-minimal rna-star salmon samblaster samtools seqtk sgml-base sphinx-common sphinx-rtd-theme-common tabix tophat-recondition ttf-bitstream-vera ucf wham-align x11-common xml-core xonsh zlib1g-dev Suggested packages: ant-doc default-jdk | java-compiler | java-sdk antlr javacc junit junit4 jython libbcel-java libbsf-java libcommons-net-java libmail-java libjaxp1.3-java libjdepend-java libjsch-java liblog4j1.2-java liboro-java libregexp-java libxalan2-java autoconf-archive gnu-standards autoconf-doc texlive-latex-recommended cython-doc dh-make default-jre gettext-doc libasprintf-dev libgettextpo-dev groff libaopalliance-java-doc libasound2-plugins alsa-utils libatinject-jsr330-api-java-doc libservlet3.1-java libcommons-io-java-doc libcommons-jexl2-java-doc libcommons-lang3-java-doc libavalon-framework-java libcommons-logging-java-doc libexcalibur-logkit-java cups-common libdom4j-java-doc libmsv-java libxpp2-java libxpp3-java libdtd-parser-java-doc libjdom1-java librhino-java libgoogle-gson-java-doc libasm-java libcglib-java picard-tools libxom-java libjoptsimple-java-doc libjs-jquery-ui-docs libjsoup-java-doc libjsr305-java-doc liblcms2-utils liblog4j2-java-doc libmaven-file-management-java-doc libmaven-shared-io-java-doc libmaven-shared-utils-java-doc liblogback-java pcscd libplexus-cipher-java-doc libplexus-classworlds-java-doc libplexus-sec-dispatcher-java-doc libplexus-utils2-java-doc testng libosgi-compendium-java libosgi-core-java libtool-doc gfortran | fortran95-compiler gcj-jdk libxml-commons-resolver1.1-java-doc m4-doc apparmor less www-browser libnss-mdns fonts-dejavu-extra fonts-ipafont-gothic fonts-ipafont-mincho fonts-wqy-microhei | fonts-wqy-zenhei fonts-indic libmail-box-perl python3-doc python3-tk python3-venv python-attr-doc bwa clustalo clustalw dialign dssp emboss fasttree mafft muscle phylip phyml prank probcons python3-mysqldb python3-mmtf python3-rdflib python3-renderpm python3-psycopg2 raxml t-coffee wise w3-dtd-mathml python-cycler-doc docutils-doc fonts-linuxlibertine | ttf-linux-libertine texlive-lang-french texlive-latex-base python-future-doc python-jinja2-doc python-logbook-doc python-markdown-doc dvipng ffmpeg ghostscript gir1.2-gtk-3.0 inkscape ipython3 librsvg2-common python-matplotlib-doc python3-cairocffi python3-gi python3-gi-cairo python3-gobject python3-pyqt5 python3-sip texlive-extra-utils texlive-latex-extra ttf-staypuft python-mock-doc python-networkx-doc python3-gdal python3-pydot python3-pygraphviz python-nose-doc gfortran python-numpy-doc python3-dev python3-numpy-dbg python-pandas-doc python3-statsmodels python-pil-doc python3-pil-dbg python-ply-doc python-psutil-doc subversion python-pybedtools-doc python-pygments-doc python-pyparsing-doc pdf-viewer python3-egenix-mxtexttools python-reportlab-doc python3-cryptography python3-openssl python3-socks python-requests-doc python-scipy-doc python-setuptools-doc python3-stemmer fonts-freefont-otf imagemagick-6.q16 latexmk libjs-mathjax python3-sphinx-rtd-theme sphinx-doc texlive-fonts-recommended texlive-plain-generic python-toolz-doc python3-pycurl python-tornado-doc python3-twisted python3.8-venv python3.8-doc binfmt-support python3.9-venv python3.9-doc cwltool sgml-base-doc tophat2 xonsh-doc Recommended packages: python3-dev curl | wget | lynx python3-hisat2 alsa-ucm-conf alsa-topology-conf dbus libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs javascript-common libldap-common libjansi-java r-base-core publicsuffix libsasl2-modules libasm-java libcglib-java libltdl-dev fonts-glyphicons-halflings libjs-bootstrap libjs-jquery-tablesorter node-clipboard libjs-filesaver libmail-sendmail-perl python-biopython-doc ncbi-blast+ libpaper-utils snpeff python3-tk python3-bottleneck python3-numexpr python3-odf python3-openpyxl python3-xlrd python3-xlwt python3-bs4 python3-html5lib python3-lxml python3-tables python3-numba python3-olefile python3-renderpm python3-prompt-toolkit python3-setproctitle The following NEW packages will be installed: ant ant-optional atropos autoconf automake autopoint autotools-dev bcftools bedtools biobambam2 bsdextrautils ca-certificates-java cython3 debhelper default-jre-headless dh-autoreconf dh-python dh-strip-nondeterminism docutils-common dwz file fontconfig-config fonts-font-awesome fonts-lato fonts-lyx gettext gettext-base gffread grabix groff-base hisat2 intltool-debian java-common libactivation-java libaopalliance-java libapache-pom-java libarchive-zip-perl libargs4j-java libasn1-8-heimdal libasound2 libasound2-data libatinject-jsr330-api-java libavahi-client3 libavahi-common-data libavahi-common3 libbarclay-java libblas3 libboost-filesystem1.71.0 libboost-iostreams1.71.0 libboost-program-options1.71.0 libbrotli1 libbsd0 libcdi-api-java libcodemodel-java libcommons-cli-java libcommons-codec-java libcommons-compress-java libcommons-io-java libcommons-jexl2-java libcommons-lang3-java libcommons-logging-java libcommons-math3-java libcommons-parent-java libcroco3 libcups2 libcurl3-gnutls libdbus-1-3 libdebhelper-perl libdeflate0 libdom4j-java libdtd-parser-java libelf1 libexpat1 libfastinfoset-java libfile-stripnondeterminism-perl libfontconfig1 libfreemarker-java libfreetype6 libgatk-native-bindings-java libgclib2 libgeronimo-annotation-1.3-spec-java libgeronimo-interceptor-3.0-spec-java libgfortran5 libgkl-java libgkl-jni libglib2.0-0 libgoogle-gson-java libgssapi3-heimdal libguava-java libguice-java libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhts3 libhtscodecs2 libhtsjdk-java libhttpclient-java libhttpcore-java libhx509-5-heimdal libicu67 libimagequant0 libistack-commons-java libjaxb-api-java libjaxb-java libjaxen-java libjbig0 libjemalloc2 libjoptsimple-java libjpeg-turbo8 libjpeg8 libjs-jquery libjs-jquery-ui libjs-sphinxdoc libjs-underscore libjsoup-java libjsr305-java libkrb5-26-heimdal liblapack3 liblbfgsb0 liblcms2-2 libldap-2.4-2 liblightcouch-java liblog4j2-java libmagic-mgc libmagic1 libmaus2-2 libmaven-file-management-java libmaven-parent-java libmaven-resolver-java libmaven-shared-io-java libmaven-shared-utils-java libmaven3-core-java libmongodb-java libnghttp2-14 libngs-java libngs-sdk-dev libngs-sdk2 libnspr4 libnss3 libpcsclite1 libpicard-java libpipeline1 libplexus-archiver-java libplexus-cipher-java libplexus-classworlds-java libplexus-component-annotations-java libplexus-interpolation-java libplexus-io-java libplexus-sec-dispatcher-java libplexus-utils2-java libpsl5 libpython3-stdlib libpython3.8-minimal libpython3.8-stdlib libpython3.9-minimal libpython3.9-stdlib librelaxng-datatype-java librngom-java libroken18-heimdal librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libsisu-guice-java libsisu-inject-java libsisu-ioc-java libsisu-plexus-java libslf4j-java libsnappy-java libsnappy-jni libsnappy1v5 libssh-4 libstaden-read14 libstax-ex-java libstreambuffer-java libsub-override-perl libtbb2 libtiff5 libtool libtxw2-java libuchardet0 libwagon-http-java libwagon-provider-api-java libwebp6 libwebpdemux2 libwebpmux3 libwind0-heimdal libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxext6 libxi6 libxml-commons-resolver1.1-java libxml2 libxrender1 libxsom-java libxtst6 libxz-java libyaml-0-2 m4 man-db mime-support mosdepth multiqc node-jquery openjdk-11-jre-headless po-debconf python-babel-localedata python-matplotlib-data python3 python3-alabaster python3-all python3-argcomplete python3-argh python3-atomicwrites python3-attr python3-babel python3-biopython python3-certifi python3-chardet python3-click python3-colorama python3-coloredlogs python3-colormath python3-cycler python3-cyvcf2 python3-dateutil python3-decorator python3-distutils python3-docutils python3-future python3-geneimpacts python3-gffutils python3-humanfriendly python3-idna python3-imagesize python3-importlib-metadata python3-jinja2 python3-joblib python3-kiwisolver python3-lib2to3 python3-logbook python3-lzstring python3-markdown python3-markupsafe python3-matplotlib python3-minimal python3-mock python3-more-itertools python3-networkx python3-nose python3-numpy python3-packaging python3-pandas python3-pandas-lib python3-pbr python3-pil python3-pkg-resources python3-pluggy python3-ply python3-psutil python3-py python3-pybedtools python3-pyfaidx python3-pygments python3-pyparsing python3-pysam python3-pytest python3-pytest-mock python3-reportlab python3-reportlab-accel python3-requests python3-roman python3-scipy python3-setuptools python3-simplejson python3-six python3-snowballstemmer python3-spectra python3-sphinx python3-toolz python3-tornado python3-tz python3-urllib3 python3-vcf python3-wcwidth python3-yaml python3-zipp python3.8 python3.8-minimal python3.9 python3.9-minimal rna-star salmon samblaster samtools sbuild-build-depends-bcbio-dummy seqtk sgml-base sphinx-common sphinx-rtd-theme-common tabix tophat-recondition ttf-bitstream-vera ucf wham-align x11-common xml-core xonsh zlib1g-dev 0 upgraded, 312 newly installed, 0 to remove and 0 not upgraded. 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2.1.27+dfsg-2ubuntu1 [49.3 kB] Get:80 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libldap-2.4-2 amd64 2.4.53+dfsg-1ubuntu4 [157 kB] Get:81 http://ftpmaster.internal/ubuntu hirsute/main amd64 libnghttp2-14 amd64 1.41.0-3 [67.9 kB] Get:82 http://ftpmaster.internal/ubuntu hirsute/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2build2 [55.0 kB] Get:83 http://ftpmaster.internal/ubuntu hirsute/main amd64 libssh-4 amd64 0.9.4-1ubuntu3 [171 kB] Get:84 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libcurl3-gnutls amd64 7.72.0-1ubuntu1 [236 kB] Get:85 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libdeflate0 amd64 1.6-1 [54.8 kB] Get:86 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libhts3 amd64 1.11-2 [347 kB] Get:87 http://ftpmaster.internal/ubuntu hirsute/universe amd64 python3-pysam amd64 0.15.4+ds-3build1 [2331 kB] Get:88 http://ftpmaster.internal/ubuntu hirsute/universe amd64 atropos amd64 1.1.24+dfsg-1build1 [220 kB] Get:89 http://ftpmaster.internal/ubuntu hirsute/main amd64 libsigsegv2 amd64 2.12-2build1 [13.9 kB] Get:90 http://ftpmaster.internal/ubuntu hirsute/main amd64 m4 amd64 1.4.18-4 [199 kB] Get:91 http://ftpmaster.internal/ubuntu hirsute/main amd64 autoconf all 2.69-11.1 [321 kB] Get:92 http://ftpmaster.internal/ubuntu hirsute/main amd64 autotools-dev all 20180224.1 [39.6 kB] Get:93 http://ftpmaster.internal/ubuntu hirsute/main amd64 automake all 1:1.16.2-4ubuntu1 [548 kB] Get:94 http://ftpmaster.internal/ubuntu hirsute/main amd64 autopoint all 0.19.8.1-10build1 [412 kB] Get:95 http://ftpmaster.internal/ubuntu hirsute/universe amd64 bcftools amd64 1.11-1 [618 kB] Get:96 http://ftpmaster.internal/ubuntu hirsute/universe amd64 bedtools amd64 2.29.2+dfsg-3build2 [704 kB] Get:97 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libmaus2-2 amd64 2.0.743+dfsg-1 [1362 kB] Get:98 http://ftpmaster.internal/ubuntu hirsute/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-2ubuntu4 [156 kB] Get:99 http://ftpmaster.internal/ubuntu hirsute/universe amd64 biobambam2 amd64 2.0.173+ds-1 [8747 kB] Get:100 http://ftpmaster.internal/ubuntu hirsute/main amd64 libtool all 2.4.6-14 [161 kB] Get:101 http://ftpmaster.internal/ubuntu hirsute/main amd64 dh-autoreconf all 19 [16.1 kB] Get:102 http://ftpmaster.internal/ubuntu hirsute/main amd64 libdebhelper-perl all 13.2.1ubuntu1 [63.6 kB] Get:103 http://ftpmaster.internal/ubuntu hirsute/main amd64 libarchive-zip-perl all 1.68-1 [90.2 kB] Get:104 http://ftpmaster.internal/ubuntu hirsute/main amd64 libsub-override-perl all 0.09-2 [9532 B] Get:105 http://ftpmaster.internal/ubuntu hirsute/main amd64 libfile-stripnondeterminism-perl all 1.9.0-1 [17.2 kB] Get:106 http://ftpmaster.internal/ubuntu hirsute/main amd64 dh-strip-nondeterminism all 1.9.0-1 [5192 B] Get:107 http://ftpmaster.internal/ubuntu hirsute/main amd64 dwz amd64 0.13-5 [151 kB] Get:108 http://ftpmaster.internal/ubuntu hirsute/main amd64 libcroco3 amd64 0.6.13-1 [82.5 kB] Get:109 http://ftpmaster.internal/ubuntu hirsute/main amd64 gettext amd64 0.19.8.1-10build1 [895 kB] Get:110 http://ftpmaster.internal/ubuntu hirsute/main amd64 intltool-debian all 0.35.0+20060710.5 [24.9 kB] Get:111 http://ftpmaster.internal/ubuntu hirsute/main amd64 po-debconf all 1.0.21 [233 kB] Get:112 http://ftpmaster.internal/ubuntu hirsute/main amd64 debhelper all 13.2.1ubuntu1 [879 kB] Get:113 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 python3-lib2to3 all 3.9.0-1 [76.3 kB] Get:114 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 python3-distutils all 3.9.0-1 [142 kB] Get:115 http://ftpmaster.internal/ubuntu hirsute/universe amd64 dh-python all 4.20201102 [93.1 kB] Get:116 http://ftpmaster.internal/ubuntu hirsute/main amd64 xml-core all 0.18+nmu1 [21.6 kB] Get:117 http://ftpmaster.internal/ubuntu hirsute/main amd64 docutils-common all 0.16+dfsg-3 [116 kB] Get:118 http://ftpmaster.internal/ubuntu hirsute/main amd64 fonts-font-awesome all 5.0.10+really4.7.0~dfsg-2 [514 kB] Get:119 http://ftpmaster.internal/ubuntu hirsute/universe amd64 fonts-lyx all 2.3.5.2-1 [154 kB] Get:120 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libgclib2 amd64 0.11.10+ds-2 [145 kB] Get:121 http://ftpmaster.internal/ubuntu hirsute/universe amd64 gffread amd64 0.12.1-1 [46.3 kB] Get:122 http://ftpmaster.internal/ubuntu hirsute/universe amd64 tabix amd64 1.11-2 [316 kB] Get:123 http://ftpmaster.internal/ubuntu hirsute/universe amd64 grabix amd64 0.1.7-2build1 [14.9 kB] Get:124 http://ftpmaster.internal/ubuntu hirsute/universe amd64 hisat2 amd64 2.2.1-1 [3654 kB] Get:125 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libactivation-java all 1.2.0-2 [84.7 kB] Get:126 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libapache-pom-java all 18-1 [4720 B] Get:127 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libargs4j-java all 2.33-1 [138 kB] Get:128 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libatinject-jsr330-api-java all 1.0+ds1-5 [5348 B] Get:129 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libfreemarker-java all 2.3.23-9 [1225 kB] Get:130 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libjoptsimple-java all 5.0.4-4 [73.1 kB] Get:131 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libcommons-parent-java all 43-1 [10.8 kB] Get:132 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libcommons-logging-java all 1.2-2 [60.3 kB] Get:133 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libgoogle-gson-java all 2.8.6-1 [218 kB] Get:134 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libcommons-codec-java all 1.14-1 [285 kB] Get:135 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libhttpcore-java all 4.4.13-1 [610 kB] Get:136 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libhttpclient-java all 4.5.13-1 [1225 kB] Get:137 http://ftpmaster.internal/ubuntu hirsute/universe amd64 liblightcouch-java all 0.0.6-1 [63.7 kB] Get:138 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libmongodb-java all 3.6.3-2 [1899 kB] Get:139 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libslf4j-java all 1.7.25-3 [141 kB] Get:140 http://ftpmaster.internal/ubuntu hirsute/universe amd64 liblog4j2-java all 2.11.2-1 [1752 kB] Get:141 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libbarclay-java all 2.1.0-3 [116 kB] Get:142 http://ftpmaster.internal/ubuntu hirsute/main amd64 libblas3 amd64 3.9.0-3ubuntu1 [142 kB] Get:143 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libboost-filesystem1.71.0 amd64 1.71.0-6ubuntu10 [242 kB] Get:144 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libboost-iostreams1.71.0 amd64 1.71.0-6ubuntu10 [234 kB] Get:145 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libboost-program-options1.71.0 amd64 1.71.0-6ubuntu10 [335 kB] Get:146 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libgeronimo-interceptor-3.0-spec-java all 1.0.1-4fakesync [8616 B] Get:147 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libcdi-api-java all 1.2-2 [54.5 kB] Get:148 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libjaxen-java all 1.1.6-4 [214 kB] Get:149 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libdom4j-java all 2.1.3-1 [309 kB] Get:150 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libcommons-io-java all 2.8.0-1 [261 kB] Get:151 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libmaven-shared-utils-java all 3.3.0-1 [149 kB] Get:152 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libcommons-cli-java all 1.4-2 [55.8 kB] Get:153 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libcommons-lang3-java all 3.11-1 [526 kB] Get:154 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libgeronimo-annotation-1.3-spec-java all 1.0-1 [10.7 kB] Get:155 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libaopalliance-java all 20070526-6 [9084 B] Get:156 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libjsr305-java all 0.1~+svn49-11 [27.0 kB] Get:157 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libguava-java all 29.0-6 [2418 kB] Get:158 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libguice-java all 4.2.3-1 [978 kB] Get:159 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libmaven-parent-java all 31-2 [5140 B] Get:160 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libplexus-utils2-java all 3.3.0-1 [250 kB] Get:161 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libwagon-provider-api-java all 3.3.4-1 [48.5 kB] Get:162 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libmaven-resolver-java all 1.4.2-1 [555 kB] Get:163 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libplexus-cipher-java all 1.7-3 [15.1 kB] Get:164 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libplexus-classworlds-java all 2.6.0-1 [49.4 kB] Get:165 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libplexus-component-annotations-java all 2.1.0-1 [6564 B] Get:166 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libplexus-interpolation-java all 1.26-1 [76.8 kB] Get:167 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libplexus-sec-dispatcher-java all 1.4-4 [28.1 kB] Get:168 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libsisu-inject-java all 0.3.3-1 [347 kB] Get:169 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libsisu-plexus-java all 0.3.3-3 [182 kB] Get:170 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libmaven3-core-java all 3.6.3-1 [1535 kB] Get:171 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libmaven-shared-io-java all 3.0.0-3 [33.3 kB] Get:172 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libmaven-file-management-java all 3.0.0-1 [35.1 kB] Get:173 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libcommons-compress-java all 1.20-1 [556 kB] Get:174 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libplexus-io-java all 3.2.0-1 [64.9 kB] Get:175 http://ftpmaster.internal/ubuntu hirsute/main amd64 libsnappy1v5 amd64 1.1.8-1build1 [16.7 kB] Get:176 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libsnappy-jni amd64 1.1.7.7-1 [6712 B] Get:177 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libsnappy-java all 1.1.7.7-1 [91.7 kB] Get:178 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libxz-java all 1.8-2 [140 kB] Get:179 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libplexus-archiver-java all 3.6.0-2 [171 kB] Get:180 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libsisu-guice-java all 4.2.0-1 [785 kB] Get:181 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libsisu-ioc-java all 2.3.0-11 [492 kB] Get:182 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libjsoup-java all 1.10.2-2 [337 kB] Get:183 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libwagon-http-java all 3.3.4-1 [51.1 kB] Get:184 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libistack-commons-java all 3.0.6-4 [145 kB] Get:185 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libcodemodel-java all 2.6+jaxb2.3.0.1-9 [163 kB] Get:186 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libcommons-jexl2-java all 2.1.1-4 [252 kB] Get:187 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libcommons-math3-java all 3.6.1-3 [2016 kB] Get:188 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libdtd-parser-java all 1.2~svn20110404-1 [62.4 kB] Get:189 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libjaxb-api-java all 2.3.1-1 [119 kB] Get:190 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libstax-ex-java all 1.7.8-3 [40.9 kB] Get:191 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libstreambuffer-java all 1.5.4-1 [71.9 kB] Get:192 http://ftpmaster.internal/ubuntu hirsute/universe amd64 librelaxng-datatype-java all 1.0+ds1-3 [11.7 kB] Get:193 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libxsom-java all 2.3.0.1-9 [396 kB] Get:194 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libfastinfoset-java all 1.2.12-3 [343 kB] Get:195 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libgatk-native-bindings-java all 1.0.0-2 [7260 B] Get:196 http://ftpmaster.internal/ubuntu hirsute/main amd64 libgfortran5 amd64 10.2.0-17ubuntu1 [735 kB] Get:197 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libgkl-jni amd64 0.8.6+dfsg-1 [187 kB] Get:198 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libgkl-java amd64 0.8.6+dfsg-1 [18.0 kB] Get:199 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libhtscodecs2 amd64 0.5-3 [50.8 kB] Get:200 http://ftpmaster.internal/ubuntu hirsute/universe amd64 librngom-java all 2.3.0.1-9 [288 kB] Get:201 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libtxw2-java all 2.3.0.1-9 [132 kB] Get:202 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libxml-commons-resolver1.1-java all 1.2-11 [97.6 kB] Get:203 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libjaxb-java all 2.3.0.1-9 [1965 kB] Get:204 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libngs-sdk2 amd64 2.10.5-1 [58.0 kB] Get:205 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libngs-sdk-dev amd64 2.10.5-1 [102 kB] Get:206 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libngs-java amd64 2.10.5-1 [76.2 kB] Get:207 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libhtsjdk-java all 2.23.0+dfsg-2 [1605 kB] Get:208 http://ftpmaster.internal/ubuntu hirsute/main amd64 libimagequant0 amd64 2.12.2-1.1 [31.4 kB] Get:209 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libjemalloc2 amd64 5.2.1-1ubuntu1 [235 kB] Get:210 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 node-jquery all 3.5.1+dfsg+~3.5.4-1 [390 kB] Get:211 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libjs-jquery all 3.5.1+dfsg+~3.5.4-1 [2364 B] Get:212 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libjs-jquery-ui all 1.12.1+dfsg-7 [231 kB] Get:213 http://ftpmaster.internal/ubuntu hirsute/main amd64 libjs-underscore all 1.9.1~dfsg-1 [98.6 kB] Get:214 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libjs-sphinxdoc all 3.3.1-1 [124 kB] Get:215 http://ftpmaster.internal/ubuntu hirsute/main amd64 liblapack3 amd64 3.9.0-3ubuntu1 [2152 kB] Get:216 http://ftpmaster.internal/ubuntu hirsute/universe amd64 liblbfgsb0 amd64 3.0+dfsg.3-9 [28.5 kB] Get:217 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libpicard-java amd64 2.23.7+dfsg-1 [1614 kB] Get:218 http://ftpmaster.internal/ubuntu hirsute/main amd64 libpython3.9-stdlib amd64 3.9.0-5 [1752 kB] Get:219 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libstaden-read14 amd64 1.14.13-4 [230 kB] Get:220 http://ftpmaster.internal/ubuntu hirsute/main amd64 libjbig0 amd64 2.1-3.1build1 [26.7 kB] Get:221 http://ftpmaster.internal/ubuntu hirsute/main amd64 libwebp6 amd64 0.6.1-2 [185 kB] Get:222 http://ftpmaster.internal/ubuntu hirsute/main amd64 libtiff5 amd64 4.1.0+git191117-2build1 [161 kB] Get:223 http://ftpmaster.internal/ubuntu hirsute/main amd64 libwebpdemux2 amd64 0.6.1-2 [9472 B] Get:224 http://ftpmaster.internal/ubuntu hirsute/main amd64 libwebpmux3 amd64 0.6.1-2 [19.6 kB] Get:225 http://ftpmaster.internal/ubuntu hirsute-proposed/universe amd64 mosdepth amd64 0.3.1+ds-2 [155 kB] Get:226 http://ftpmaster.internal/ubuntu hirsute/main amd64 python3-colorama all 0.4.3-1build1 [23.9 kB] Get:227 http://ftpmaster.internal/ubuntu hirsute/main amd64 python3-click all 7.1.2-1 [66.1 kB] Get:228 http://ftpmaster.internal/ubuntu hirsute/universe amd64 python3-humanfriendly all 8.2-3 [68.6 kB] Get:229 http://ftpmaster.internal/ubuntu hirsute/universe amd64 python3-coloredlogs all 7.3-2 [28.0 kB] Get:230 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 python3-future all 0.18.2-4ubuntu1 [336 kB] Get:231 http://ftpmaster.internal/ubuntu hirsute/main amd64 python3-markupsafe amd64 1.1.1-1build1 [14.1 kB] Get:232 http://ftpmaster.internal/ubuntu hirsute/main amd64 python3-jinja2 all 2.11.2-1 [99.8 kB] Get:233 http://ftpmaster.internal/ubuntu hirsute/universe amd64 python3-lzstring all 1.0.4-1 [5324 B] Get:234 http://ftpmaster.internal/ubuntu hirsute/main amd64 python3-markdown all 3.3.3-1 [66.4 kB] Get:235 http://ftpmaster.internal/ubuntu hirsute/universe amd64 python-matplotlib-data all 3.3.2-2 [3803 kB] Get:236 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 python3-six all 1.15.0-2 [12.0 kB] Get:237 http://ftpmaster.internal/ubuntu hirsute/main amd64 python3-dateutil all 2.8.1-4 [79.8 kB] Get:238 http://ftpmaster.internal/ubuntu hirsute/main amd64 python3-pyparsing all 2.4.7-1 [61.4 kB] Get:239 http://ftpmaster.internal/ubuntu hirsute/main amd64 python3.9 amd64 3.9.0-5 [408 kB] Get:240 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 python3-numpy amd64 1:1.19.4-1 [3337 kB] Get:241 http://ftpmaster.internal/ubuntu hirsute/main amd64 python3-certifi all 2020.6.20-1 [150 kB] Get:242 http://ftpmaster.internal/ubuntu hirsute/universe amd64 python3-cycler all 0.10.0-3 [8132 B] Get:243 http://ftpmaster.internal/ubuntu hirsute/universe amd64 python3-kiwisolver amd64 1.3.1-1 [286 kB] Get:244 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 python3-pil amd64 8.0.1-1 [406 kB] Get:245 http://ftpmaster.internal/ubuntu hirsute/universe amd64 python3-matplotlib amd64 3.3.2-2 [3480 kB] Get:246 http://ftpmaster.internal/ubuntu hirsute/main amd64 python3-decorator all 4.4.2-0ubuntu1 [10.3 kB] Get:247 http://ftpmaster.internal/ubuntu hirsute/main amd64 python3-networkx all 2.4-4ubuntu1 [855 kB] Get:248 http://ftpmaster.internal/ubuntu hirsute/main amd64 python3-chardet all 3.0.4-7 [80.2 kB] Get:249 http://ftpmaster.internal/ubuntu hirsute/main amd64 python3-idna all 2.10-1 [35.2 kB] Get:250 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 python3-urllib3 all 1.25.11-1 [89.8 kB] Get:251 http://ftpmaster.internal/ubuntu hirsute/main amd64 python3-requests all 2.24.0+dfsg-1 [51.0 kB] Get:252 http://ftpmaster.internal/ubuntu hirsute/main amd64 python3-simplejson amd64 3.17.0-1build1 [61.9 kB] Get:253 http://ftpmaster.internal/ubuntu hirsute/universe amd64 python3-colormath all 3.0.0-1 [35.2 kB] Get:254 http://ftpmaster.internal/ubuntu hirsute/universe amd64 python3-spectra all 0.0.11-2 [16.4 kB] Get:255 http://ftpmaster.internal/ubuntu hirsute/universe amd64 multiqc all 1.9+dfsg-2 [514 kB] Get:256 http://ftpmaster.internal/ubuntu hirsute/main amd64 python-babel-localedata all 2.8.0+dfsg.1-4 [4985 kB] Get:257 http://ftpmaster.internal/ubuntu hirsute/main amd64 python3-all amd64 3.8.6-1 [1112 B] Get:258 http://ftpmaster.internal/ubuntu hirsute/universe amd64 python3-argcomplete all 1.8.1-1.3ubuntu1 [27.2 kB] Get:259 http://ftpmaster.internal/ubuntu hirsute/universe amd64 python3-atomicwrites all 1.4.0-1 [10.2 kB] Get:260 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 python3-attr all 20.3.0-1 [40.2 kB] Get:261 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 python3-tz all 2020.4-2 [31.7 kB] Get:262 http://ftpmaster.internal/ubuntu hirsute/main amd64 python3-babel all 2.8.0+dfsg.1-4 [84.9 kB] Get:263 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 python3-reportlab-accel amd64 3.5.55-1 [23.2 kB] Get:264 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 python3-reportlab all 3.5.55-1 [553 kB] Get:265 http://ftpmaster.internal/ubuntu hirsute/universe amd64 python3-biopython amd64 1.78+dfsg-3build2 [1412 kB] Get:266 http://ftpmaster.internal/ubuntu hirsute/universe amd64 python3-cyvcf2 amd64 0.20.9-1 [984 kB] Get:267 http://ftpmaster.internal/ubuntu hirsute/main amd64 python3-roman all 2.0.0-5 [8928 B] Get:268 http://ftpmaster.internal/ubuntu hirsute/main amd64 python3-docutils all 0.16+dfsg-3 [369 kB] Get:269 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amd64 python3-sphinx all 3.3.1-1 [537 kB] Get:298 http://ftpmaster.internal/ubuntu hirsute/universe amd64 python3-toolz all 0.9.0-1.1 [42.1 kB] Get:299 http://ftpmaster.internal/ubuntu hirsute-proposed/universe amd64 python3-tornado amd64 6.1.0-1 [284 kB] Get:300 http://ftpmaster.internal/ubuntu hirsute/universe amd64 python3-vcf amd64 0.6.8+git20170215.476169c-7build1 [50.9 kB] Get:301 http://ftpmaster.internal/ubuntu hirsute/universe amd64 rna-star amd64 2.7.6a+dfsg-1 [571 kB] Get:302 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libtbb2 amd64 2020.3-1 [125 kB] Get:303 http://ftpmaster.internal/ubuntu hirsute/main amd64 sphinx-rtd-theme-common all 0.5.0+dfsg-1ubuntu1 [991 kB] Get:304 http://ftpmaster.internal/ubuntu hirsute/universe amd64 salmon amd64 1.3.0+ds1-3 [1947 kB] Get:305 http://ftpmaster.internal/ubuntu hirsute/universe amd64 samblaster amd64 0.1.26-1 [26.6 kB] Get:306 http://ftpmaster.internal/ubuntu hirsute-proposed/universe amd64 samtools amd64 1.11-1 [516 kB] Get:307 http://ftpmaster.internal/ubuntu hirsute/universe amd64 seqtk amd64 1.3-1 [31.3 kB] Get:308 http://ftpmaster.internal/ubuntu hirsute/universe amd64 tophat-recondition all 1.4-3 [9648 B] Get:309 http://ftpmaster.internal/ubuntu hirsute/universe amd64 wham-align amd64 0.1.5-3.1 [129 kB] Get:310 http://ftpmaster.internal/ubuntu hirsute/universe amd64 xonsh all 0.9.24+dfsg-1 [332 kB] Get:311 http://ftpmaster.internal/ubuntu hirsute/universe amd64 python3-mock all 4.0.2-1 [28.4 kB] Get:312 http://ftpmaster.internal/ubuntu hirsute-proposed/universe amd64 python3-scipy amd64 1.5.4-1 [13.8 MB] debconf: delaying package configuration, since apt-utils is not installed Fetched 199 MB in 3s (58.1 MB/s) Selecting previously unselected package libpython3.8-minimal:amd64. 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Setting up python3-pbr (5.4.5-0ubuntu1) ... update-alternatives: using /usr/bin/python3-pbr to provide /usr/bin/pbr (pbr) in auto mode Setting up libcommons-io-java (2.8.0-1) ... Setting up python3-alabaster (0.7.8-1.1) ... Setting up libhx509-5-heimdal:amd64 (7.7.0+dfsg-2) ... Setting up python3-ply (3.11-4) ... Setting up libxext6:amd64 (2:1.3.4-0ubuntu1) ... Setting up python3-all (3.8.6-1) ... Setting up python3-yaml (5.3.1-3) ... Setting up libsisu-ioc-java (2.3.0-11) ... Setting up python3-zipp (1.0.0-3) ... Setting up python3-click (7.1.2-1) ... Setting up python3-networkx (2.4-4ubuntu1) ... /usr/lib/python3/dist-packages/networkx/readwrite/tests/test_graphml.py:933: SyntaxWarning: "is" with a literal. Did you mean "=="? assert H.nodes['n1']['special'] is 0 /usr/lib/python3/dist-packages/networkx/readwrite/tests/test_graphml.py:935: SyntaxWarning: "is" with a literal. Did you mean "=="? assert H.edges['n0','n1',1]['special'] is 0 /usr/lib/python3/dist-packages/networkx/readwrite/tests/test_graphml.py:933: SyntaxWarning: "is" with a literal. Did you mean "=="? assert H.nodes['n1']['special'] is 0 /usr/lib/python3/dist-packages/networkx/readwrite/tests/test_graphml.py:935: SyntaxWarning: "is" with a literal. Did you mean "=="? assert H.edges['n0','n1',1]['special'] is 0 Setting up man-db (2.9.3-2) ... Not building database; man-db/auto-update is not 'true'. Created symlink /etc/systemd/system/timers.target.wants/man-db.timer → /lib/systemd/system/man-db.timer. Setting up python3-nose (1.3.7-7) ... Setting up libguice-java (4.2.3-1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up python3-mock (4.0.2-1) ... Setting up python3-pil:amd64 (8.0.1-1) ... Setting up python3-pygments (2.7.1+dfsg-1) ... Setting up python3-packaging (20.4-1) ... Setting up python3-chardet (3.0.4-7) ... Setting up libjs-jquery-ui (1.12.1+dfsg-7) ... 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Setting up multiqc (1.9+dfsg-2) ... /usr/lib/python3/dist-packages/multiqc/modules/custom_content/custom_content.py:71: SyntaxWarning: "is not" with a literal. Did you mean "!="? cust_mods[c_id]['config'].update( { k:v for k, v in f.items() if k is not 'data' } ) /usr/lib/python3/dist-packages/multiqc/modules/custom_content/custom_content.py:71: SyntaxWarning: "is not" with a literal. Did you mean "!="? cust_mods[c_id]['config'].update( { k:v for k, v in f.items() if k is not 'data' } ) Setting up libmaven3-core-java (3.6.3-1) ... Setting up python3-pytest (4.6.11-1) ... Setting up libmaven-shared-io-java (3.0.0-3) ... Setting up libldap-2.4-2:amd64 (2.4.53+dfsg-1ubuntu4) ... Setting up libcurl3-gnutls:amd64 (7.72.0-1ubuntu1) ... Setting up libmaven-file-management-java (3.0.0-1) ... Setting up python3-pytest-mock (1.10.4-3) ... Setting up libstaden-read14:amd64 (1.14.13-4) ... Setting up libhts3:amd64 (1.11-2) ... Setting up python3-pysam (0.15.4+ds-3build1) ... Setting up atropos (1.1.24+dfsg-1build1) ... Setting up bcftools (1.11-1) ... Setting up rna-star (2.7.6a+dfsg-1) ... Setting up samtools (1.11-1) ... Setting up python3-vcf (0.6.8+git20170215.476169c-7build1) ... Setting up salmon (1.3.0+ds1-3) ... Setting up python3-cyvcf2 (0.20.9-1) ... Setting up python3-pybedtools (0.8.0-5build1) ... Setting up dh-autoreconf (19) ... Setting up default-jre-headless (2:1.11-72) ... Setting up openjdk-11-jre-headless:amd64 (11.0.9.1+1-0ubuntu1) ... update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jfr to provide /usr/bin/jfr (jfr) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jjs to provide /usr/bin/jjs (jjs) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/pack200 to provide /usr/bin/pack200 (pack200) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/rmid to provide /usr/bin/rmid (rmid) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/unpack200 to provide /usr/bin/unpack200 (unpack200) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up debhelper (13.2.1ubuntu1) ... Setting up ant (1.10.9-1) ... Setting up ca-certificates-java (20190405ubuntu1) ... head: cannot open '/etc/ssl/certs/java/cacerts' for reading: No such file or directory Adding debian:Amazon_Root_CA_4.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:OISTE_WISeKey_Global_Root_GA_CA.pem Adding debian:Certigna_Root_CA.pem Adding debian:AffirmTrust_Networking.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:AffirmTrust_Premium.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:ISRG_Root_X1.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:Staat_der_Nederlanden_EV_Root_CA.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:DST_Root_CA_X3.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:SecureTrust_CA.pem Adding debian:Staat_der_Nederlanden_Root_CA_-_G2.pem Adding debian:Sonera_Class_2_Root_CA.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:GTS_Root_R4.pem Adding debian:Hongkong_Post_Root_CA_1.pem Adding debian:Verisign_Class_3_Public_Primary_Certification_Authority_-_G3.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:Trustis_FPS_Root_CA.pem Adding debian:Taiwan_GRCA.pem Adding debian:emSign_Root_CA_-_G1.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:LuxTrust_Global_Root_2.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:GTS_Root_R3.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:ACCVRAIZ1.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:TrustCor_ECA-1.pem Adding debian:Izenpe.com.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:SwissSign_Silver_CA_-_G2.pem Adding debian:GeoTrust_Universal_CA_2.pem Adding debian:Chambers_of_Commerce_Root_-_2008.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:Global_Chambersign_Root_-_2008.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:TrustCor_RootCert_CA-1.pem Adding debian:Entrust_Root_Certification_Authority_-_G4.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:EE_Certification_Centre_Root_CA.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:GTS_Root_R2.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2011.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:Cybertrust_Global_Root.pem Adding debian:Certigna.pem Adding debian:Staat_der_Nederlanden_Root_CA_-_G3.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:TrustCor_RootCert_CA-2.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:Security_Communication_Root_CA.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:GTS_Root_R1.pem Adding debian:EC-ACC.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:Secure_Global_CA.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:SecureSign_RootCA11.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:QuoVadis_Root_CA.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:E-Tugra_Certification_Authority.pem Adding debian:Network_Solutions_Certificate_Authority.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:GlobalSign_Root_CA_-_R2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem done. Setting up ant-optional (1.10.9-1) ... Setting up libistack-commons-java (3.0.6-4) ... Setting up libcodemodel-java (2.6+jaxb2.3.0.1-9) ... Setting up libtxw2-java (2.3.0.1-9) ... Setting up libjaxb-java (2.3.0.1-9) ... Setting up libhtsjdk-java (2.23.0+dfsg-2) ... Setting up libpicard-java (2.23.7+dfsg-1) ... Processing triggers for libc-bin (2.32-0ubuntu5) ... Processing triggers for systemd (246.6-2ubuntu1) ... Processing triggers for ca-certificates (20200601) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. done. Processing triggers for sgml-base (1.30) ... Setting up docutils-common (0.16+dfsg-3) ... Processing triggers for sgml-base (1.30) ... Setting up python3-docutils (0.16+dfsg-3) ... update-alternatives: using /usr/share/docutils/scripts/python3/rst-buildhtml to provide /usr/bin/rst-buildhtml (rst-buildhtml) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2html to provide /usr/bin/rst2html (rst2html) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2html4 to provide /usr/bin/rst2html4 (rst2html4) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2html5 to provide /usr/bin/rst2html5 (rst2html5) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2latex to provide /usr/bin/rst2latex (rst2latex) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2man to provide /usr/bin/rst2man (rst2man) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2odt to provide /usr/bin/rst2odt (rst2odt) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2odt_prepstyles to provide /usr/bin/rst2odt_prepstyles (rst2odt_prepstyles) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2pseudoxml to provide /usr/bin/rst2pseudoxml (rst2pseudoxml) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2s5 to provide /usr/bin/rst2s5 (rst2s5) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2xetex to provide /usr/bin/rst2xetex (rst2xetex) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2xml to provide /usr/bin/rst2xml (rst2xml) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rstpep2html to provide /usr/bin/rstpep2html (rstpep2html) in auto mode Setting up python3-sphinx (3.3.1-1) ... Setting up sbuild-build-depends-bcbio-dummy (0.invalid.0) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.15.0-123-generic amd64 (x86_64) Toolchain package versions: binutils_2.35.1-2ubuntu1 dpkg-dev_1.20.5ubuntu3 g++-10_10.2.0-17ubuntu1 gcc-10_10.2.0-17ubuntu1 libc6-dev_2.32-0ubuntu5 libstdc++-10-dev_10.2.0-17ubuntu1 libstdc++6_10.2.0-17ubuntu1 linux-libc-dev_5.8.0-26.27 Package versions: adduser_3.118ubuntu2 advancecomp_2.1-2.1build1 ant_1.10.9-1 ant-optional_1.10.9-1 apt_2.1.11 atropos_1.1.24+dfsg-1build1 autoconf_2.69-11.1 automake_1:1.16.2-4ubuntu1 autopoint_0.19.8.1-10build1 autotools-dev_20180224.1 base-files_11ubuntu16 base-passwd_3.5.48 bash_5.1~rc2-1ubuntu1 bcftools_1.11-1 bedtools_2.29.2+dfsg-3build2 binutils_2.35.1-2ubuntu1 binutils-common_2.35.1-2ubuntu1 binutils-x86-64-linux-gnu_2.35.1-2ubuntu1 biobambam2_2.0.173+ds-1 bsdextrautils_2.36-3ubuntu1 bsdutils_1:2.36-3ubuntu1 build-essential_12.8ubuntu3 bzip2_1.0.8-4ubuntu2 ca-certificates_20200601 ca-certificates-java_20190405ubuntu1 coreutils_8.32-4ubuntu1 cpp_4:10.2.0-1ubuntu1 cpp-10_10.2.0-17ubuntu1 cython3_0.29.21-1ubuntu2 dash_0.5.11+git20200708+dd9ef66-2 debconf_1.5.74 debhelper_13.2.1ubuntu1 debianutils_4.11.2 default-jre-headless_2:1.11-72 dh-autoreconf_19 dh-python_4.20201102 dh-strip-nondeterminism_1.9.0-1 diffutils_1:3.7-3ubuntu1 docutils-common_0.16+dfsg-3 dpkg_1.20.5ubuntu3 dpkg-dev_1.20.5ubuntu3 dwz_0.13-5 e2fsprogs_1.45.6-1ubuntu1 fakeroot_1.25.3-1 file_1:5.38-5 findutils_4.7.0-1ubuntu2 fontconfig-config_2.13.1-4.2ubuntu2 fonts-font-awesome_5.0.10+really4.7.0~dfsg-2 fonts-lato_2.0-2 fonts-lyx_2.3.5.2-1 g++_4:10.2.0-1ubuntu1 g++-10_10.2.0-17ubuntu1 gcc_4:10.2.0-1ubuntu1 gcc-10_10.2.0-17ubuntu1 gcc-10-base_10.2.0-17ubuntu1 gettext_0.19.8.1-10build1 gettext-base_0.19.8.1-10build1 gffread_0.12.1-1 gpg_2.2.20-1ubuntu1 gpg-agent_2.2.20-1ubuntu1 gpgconf_2.2.20-1ubuntu1 gpgv_2.2.20-1ubuntu1 grabix_0.1.7-2build1 grep_3.6-1 groff-base_1.22.4-5 gzip_1.10-2ubuntu1 hisat2_2.2.1-1 hostname_3.23 init_1.58 init-system-helpers_1.58 intltool-debian_0.35.0+20060710.5 java-common_0.72 libacl1_2.2.53-8 libactivation-java_1.2.0-2 libaopalliance-java_20070526-6 libapache-pom-java_18-1 libapparmor1_3.0.0-0ubuntu4 libapt-pkg6.0_2.1.11 libarchive-zip-perl_1.68-1 libargon2-1_0~20171227-0.2build20.10.0 libargs4j-java_2.33-1 libasan6_10.2.0-17ubuntu1 libasn1-8-heimdal_7.7.0+dfsg-2 libasound2_1.2.3.2-1ubuntu4 libasound2-data_1.2.3.2-1ubuntu4 libassuan0_2.5.3-7.1 libatinject-jsr330-api-java_1.0+ds1-5 libatomic1_10.2.0-17ubuntu1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-3ubuntu2 libaudit1_1:2.8.5-3ubuntu2 libavahi-client3_0.8-3ubuntu2 libavahi-common-data_0.8-3ubuntu2 libavahi-common3_0.8-3ubuntu2 libbarclay-java_2.1.0-3 libbinutils_2.35.1-2ubuntu1 libblas3_3.9.0-3ubuntu1 libblkid1_2.36-3ubuntu1 libboost-filesystem1.71.0_1.71.0-6ubuntu10 libboost-iostreams1.71.0_1.71.0-6ubuntu10 libboost-program-options1.71.0_1.71.0-6ubuntu10 libbrotli1_1.0.9-2build1 libbsd0_0.10.0-1 libbz2-1.0_1.0.8-4ubuntu2 libc-bin_2.32-0ubuntu5 libc-dev-bin_2.32-0ubuntu5 libc6_2.32-0ubuntu5 libc6-dev_2.32-0ubuntu5 libcap-ng0_0.7.9-2.2 libcap2_1:2.44-1 libcc1-0_10.2.0-17ubuntu1 libcdi-api-java_1.2-2 libcodemodel-java_2.6+jaxb2.3.0.1-9 libcom-err2_1.45.6-1ubuntu1 libcommons-cli-java_1.4-2 libcommons-codec-java_1.14-1 libcommons-compress-java_1.20-1 libcommons-io-java_2.8.0-1 libcommons-jexl2-java_2.1.1-4 libcommons-lang3-java_3.11-1 libcommons-logging-java_1.2-2 libcommons-math3-java_3.6.1-3 libcommons-parent-java_43-1 libcroco3_0.6.13-1 libcrypt-dev_1:4.4.17-1ubuntu1 libcrypt1_1:4.4.17-1ubuntu1 libcryptsetup12_2:2.3.4-1ubuntu1 libctf-nobfd0_2.35.1-2ubuntu1 libctf0_2.35.1-2ubuntu1 libcups2_2.3.3-3ubuntu1 libcurl3-gnutls_7.72.0-1ubuntu1 libdb5.3_5.3.28+dfsg1-0.6ubuntu3 libdbus-1-3_1.12.20-1ubuntu1 libdebconfclient0_0.255ubuntu1 libdebhelper-perl_13.2.1ubuntu1 libdeflate0_1.6-1 libdevmapper1.02.1_2:1.02.167-1ubuntu3 libdom4j-java_2.1.3-1 libdpkg-perl_1.20.5ubuntu3 libdtd-parser-java_1.2~svn20110404-1 libelf1_0.182-1 libexpat1_2.2.10-1 libext2fs2_1.45.6-1ubuntu1 libfakeroot_1.25.3-1 libfastinfoset-java_1.2.12-3 libffi8ubuntu1_3.4~20200819gead65ca871-0ubuntu3 libfile-stripnondeterminism-perl_1.9.0-1 libfontconfig1_2.13.1-4.2ubuntu2 libfreemarker-java_2.3.23-9 libfreetype6_2.10.2+dfsg-4 libgatk-native-bindings-java_1.0.0-2 libgcc-10-dev_10.2.0-17ubuntu1 libgcc-s1_10.2.0-17ubuntu1 libgclib2_0.11.10+ds-2 libgcrypt20_1.8.7-2ubuntu1 libgdbm-compat4_1.18.1-5.1 libgdbm6_1.18.1-5.1 libgeronimo-annotation-1.3-spec-java_1.0-1 libgeronimo-interceptor-3.0-spec-java_1.0.1-4fakesync libgfortran5_10.2.0-17ubuntu1 libgkl-java_0.8.6+dfsg-1 libgkl-jni_0.8.6+dfsg-1 libglib2.0-0_2.66.2-1 libgmp10_2:6.2.0+dfsg-6ubuntu1 libgnutls30_3.6.15-4ubuntu2 libgomp1_10.2.0-17ubuntu1 libgoogle-gson-java_2.8.6-1 libgpg-error0_1.38-2 libgssapi-krb5-2_1.17-10 libgssapi3-heimdal_7.7.0+dfsg-2 libguava-java_29.0-6 libguice-java_4.2.3-1 libhcrypto4-heimdal_7.7.0+dfsg-2 libheimbase1-heimdal_7.7.0+dfsg-2 libheimntlm0-heimdal_7.7.0+dfsg-2 libhogweed6_3.6-2 libhts3_1.11-2 libhtscodecs2_0.5-3 libhtsjdk-java_2.23.0+dfsg-2 libhttpclient-java_4.5.13-1 libhttpcore-java_4.4.13-1 libhx509-5-heimdal_7.7.0+dfsg-2 libicu67_67.1-4 libidn2-0_2.3.0-3 libimagequant0_2.12.2-1.1 libip4tc2_1.8.5-3ubuntu3 libisl22_0.22.1-1 libistack-commons-java_3.0.6-4 libitm1_10.2.0-17ubuntu1 libjaxb-api-java_2.3.1-1 libjaxb-java_2.3.0.1-9 libjaxen-java_1.1.6-4 libjbig0_2.1-3.1build1 libjemalloc2_5.2.1-1ubuntu1 libjoptsimple-java_5.0.4-4 libjpeg-turbo8_2.0.3-0ubuntu2 libjpeg8_8c-2ubuntu8 libjs-jquery_3.5.1+dfsg+~3.5.4-1 libjs-jquery-ui_1.12.1+dfsg-7 libjs-sphinxdoc_3.3.1-1 libjs-underscore_1.9.1~dfsg-1 libjson-c5_0.15-1 libjsoup-java_1.10.2-2 libjsr305-java_0.1~+svn49-11 libk5crypto3_1.17-10 libkeyutils1_1.6.1-2ubuntu1 libkmod2_27+20200310-2ubuntu1 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libp11-kit0_0.23.21-2build1 libpam-modules_1.3.1-5ubuntu6 libpam-modules-bin_1.3.1-5ubuntu6 libpam-runtime_1.3.1-5ubuntu6 libpam0g_1.3.1-5ubuntu6 libpcre2-8-0_10.34-7 libpcre3_2:8.39-13 libpcsclite1_1.9.0-1 libperl5.30_5.30.3-4 libperl5.32_5.32.0-5 libpicard-java_2.23.7+dfsg-1 libpipeline1_1.5.3-1 libplexus-archiver-java_3.6.0-2 libplexus-cipher-java_1.7-3 libplexus-classworlds-java_2.6.0-1 libplexus-component-annotations-java_2.1.0-1 libplexus-interpolation-java_1.26-1 libplexus-io-java_3.2.0-1 libplexus-sec-dispatcher-java_1.4-4 libplexus-utils2-java_3.3.0-1 libpng16-16_1.6.37-3 libprocps8_2:3.3.16-5ubuntu2 libpsl5_0.21.0-1.1ubuntu1 libpython3-stdlib_3.8.6-1 libpython3.8-minimal_3.8.6-1 libpython3.8-stdlib_3.8.6-1 libpython3.9-minimal_3.9.0-5 libpython3.9-stdlib_3.9.0-5 libquadmath0_10.2.0-17ubuntu1 libreadline8_8.1~rc2-2 librelaxng-datatype-java_1.0+ds1-3 librngom-java_2.3.0.1-9 libroken18-heimdal_7.7.0+dfsg-2 librtmp1_2.4+20151223.gitfa8646d.1-2build2 libsasl2-2_2.1.27+dfsg-2ubuntu1 libsasl2-modules-db_2.1.27+dfsg-2ubuntu1 libseccomp2_2.4.3-1ubuntu5 libselinux1_3.1-2build1 libsemanage-common_3.1-1build1 libsemanage1_3.1-1build1 libsepol1_3.1-1 libsigsegv2_2.12-2build1 libsisu-guice-java_4.2.0-1 libsisu-inject-java_0.3.3-1 libsisu-ioc-java_2.3.0-11 libsisu-plexus-java_0.3.3-3 libslf4j-java_1.7.25-3 libsmartcols1_2.36-3ubuntu1 libsnappy-java_1.1.7.7-1 libsnappy-jni_1.1.7.7-1 libsnappy1v5_1.1.8-1build1 libsqlite3-0_3.33.0-1 libss2_1.45.6-1ubuntu1 libssh-4_0.9.4-1ubuntu3 libssl1.1_1.1.1f-1ubuntu4 libstaden-read14_1.14.13-4 libstax-ex-java_1.7.8-3 libstdc++-10-dev_10.2.0-17ubuntu1 libstdc++6_10.2.0-17ubuntu1 libstreambuffer-java_1.5.4-1 libsub-override-perl_0.09-2 libsystemd0_246.6-2ubuntu1 libtasn1-6_4.16.0-2 libtbb2_2020.3-1 libtiff5_4.1.0+git191117-2build1 libtinfo6_6.2+20200918-1 libtirpc-common_1.2.6-3 libtirpc-dev_1.2.6-3 libtirpc3_1.2.6-3 libtool_2.4.6-14 libtsan0_10.2.0-17ubuntu1 libtxw2-java_2.3.0.1-9 libubsan1_10.2.0-17ubuntu1 libuchardet0_0.0.7-1 libudev1_246.6-2ubuntu1 libunistring2_0.9.10-4 libuuid1_2.36-3ubuntu1 libwagon-http-java_3.3.4-1 libwagon-provider-api-java_3.3.4-1 libwebp6_0.6.1-2 libwebpdemux2_0.6.1-2 libwebpmux3_0.6.1-2 libwind0-heimdal_7.7.0+dfsg-2 libx11-6_2:1.6.12-1 libx11-data_2:1.6.12-1 libxau6_1:1.0.9-0ubuntu1 libxcb1_1.14-2 libxdmcp6_1:1.1.3-0ubuntu1 libxext6_2:1.3.4-0ubuntu1 libxi6_2:1.7.10-1 libxml-commons-resolver1.1-java_1.2-11 libxml2_2.9.10+dfsg-6.2 libxrender1_1:0.9.10-1 libxsom-java_2.3.0.1-9 libxtst6_2:1.2.3-1 libxz-java_1.8-2 libyaml-0-2_0.2.2-1 libzstd1_1.4.5+dfsg-4 linux-libc-dev_5.8.0-26.27 lockfile-progs_0.1.18 login_1:4.8.1-1ubuntu6 logsave_1.45.6-1ubuntu1 lsb-base_11.1.0ubuntu2 m4_1.4.18-4 make_4.3-4ubuntu1 man-db_2.9.3-2 mawk_1.3.4.20200120-2 mime-support_3.64ubuntu1 mosdepth_0.3.1+ds-2 mount_2.36-3ubuntu1 multiqc_1.9+dfsg-2 ncurses-base_6.2+20200918-1 ncurses-bin_6.2+20200918-1 node-jquery_3.5.1+dfsg+~3.5.4-1 openjdk-11-jre-headless_11.0.9.1+1-0ubuntu1 openssl_1.1.1f-1ubuntu4 optipng_0.7.7-1 passwd_1:4.8.1-1ubuntu6 patch_2.7.6-6 perl_5.32.0-5 perl-base_5.32.0-5 perl-modules-5.30_5.30.3-4 perl-modules-5.32_5.32.0-5 pinentry-curses_1.1.0-4build1 pkgbinarymangler_146 po-debconf_1.0.21 policyrcd-script-zg2_0.1-3 procps_2:3.3.16-5ubuntu2 python-babel-localedata_2.8.0+dfsg.1-4 python-matplotlib-data_3.3.2-2 python3_3.8.6-1 python3-alabaster_0.7.8-1.1 python3-all_3.8.6-1 python3-argcomplete_1.8.1-1.3ubuntu1 python3-argh_0.26.2-1.1 python3-atomicwrites_1.4.0-1 python3-attr_20.3.0-1 python3-babel_2.8.0+dfsg.1-4 python3-biopython_1.78+dfsg-3build2 python3-certifi_2020.6.20-1 python3-chardet_3.0.4-7 python3-click_7.1.2-1 python3-colorama_0.4.3-1build1 python3-coloredlogs_7.3-2 python3-colormath_3.0.0-1 python3-cycler_0.10.0-3 python3-cyvcf2_0.20.9-1 python3-dateutil_2.8.1-4 python3-decorator_4.4.2-0ubuntu1 python3-distutils_3.9.0-1 python3-docutils_0.16+dfsg-3 python3-future_0.18.2-4ubuntu1 python3-geneimpacts_0.3.7-3 python3-gffutils_0.10.1-2 python3-humanfriendly_8.2-3 python3-idna_2.10-1 python3-imagesize_1.2.0-2 python3-importlib-metadata_1.6.0-2 python3-jinja2_2.11.2-1 python3-joblib_0.17.0-0.1 python3-kiwisolver_1.3.1-1 python3-lib2to3_3.9.0-1 python3-logbook_1.5.3-4 python3-lzstring_1.0.4-1 python3-markdown_3.3.3-1 python3-markupsafe_1.1.1-1build1 python3-matplotlib_3.3.2-2 python3-minimal_3.8.6-1 python3-mock_4.0.2-1 python3-more-itertools_4.2.0-3 python3-networkx_2.4-4ubuntu1 python3-nose_1.3.7-7 python3-numpy_1:1.19.4-1 python3-packaging_20.4-1 python3-pandas_1.1.4+dfsg-1 python3-pandas-lib_1.1.4+dfsg-1 python3-pbr_5.4.5-0ubuntu1 python3-pil_8.0.1-1 python3-pkg-resources_50.3.0-1 python3-pluggy_0.13.0-5 python3-ply_3.11-4 python3-psutil_5.7.3-1 python3-py_1.9.0-2 python3-pybedtools_0.8.0-5build1 python3-pyfaidx_0.5.9.1-1 python3-pygments_2.7.1+dfsg-1 python3-pyparsing_2.4.7-1 python3-pysam_0.15.4+ds-3build1 python3-pytest_4.6.11-1 python3-pytest-mock_1.10.4-3 python3-reportlab_3.5.55-1 python3-reportlab-accel_3.5.55-1 python3-requests_2.24.0+dfsg-1 python3-roman_2.0.0-5 python3-scipy_1.5.4-1 python3-setuptools_50.3.0-1 python3-simplejson_3.17.0-1build1 python3-six_1.15.0-2 python3-snowballstemmer_2.0.0-2 python3-spectra_0.0.11-2 python3-sphinx_3.3.1-1 python3-toolz_0.9.0-1.1 python3-tornado_6.1.0-1 python3-tz_2020.4-2 python3-urllib3_1.25.11-1 python3-vcf_0.6.8+git20170215.476169c-7build1 python3-wcwidth_0.1.9+dfsg1-2 python3-yaml_5.3.1-3 python3-zipp_1.0.0-3 python3.8_3.8.6-1 python3.8-minimal_3.8.6-1 python3.9_3.9.0-5 python3.9-minimal_3.9.0-5 readline-common_8.1~rc2-2 rna-star_2.7.6a+dfsg-1 rpcsvc-proto_1.4.2-0ubuntu4 salmon_1.3.0+ds1-3 samblaster_0.1.26-1 samtools_1.11-1 sbuild-build-depends-bcbio-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 sed_4.7-1ubuntu1 sensible-utils_0.0.13 seqtk_1.3-1 sgml-base_1.30 sphinx-common_3.3.1-1 sphinx-rtd-theme-common_0.5.0+dfsg-1ubuntu1 systemd_246.6-2ubuntu1 systemd-sysv_246.6-2ubuntu1 systemd-timesyncd_246.6-2ubuntu1 sysvinit-utils_2.96-5ubuntu1 tabix_1.11-2 tar_1.30+dfsg-7 tophat-recondition_1.4-3 ttf-bitstream-vera_1.10-8 tzdata_2020d-1ubuntu1 ubuntu-keyring_2020.06.17.1 ucf_3.0043 util-linux_2.36-3ubuntu1 wham-align_0.1.5-3.1 x11-common_1:7.7+19ubuntu15 xml-core_0.18+nmu1 xonsh_0.9.24+dfsg-1 xz-utils_5.2.4-1ubuntu1 zlib1g_1:1.2.11.dfsg-2ubuntu4 zlib1g-dev_1:1.2.11.dfsg-2ubuntu4 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Fri Nov 6 10:23:18 2020 UTC gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./bcbio_1.2.4-2.dsc dpkg-source: info: extracting bcbio in /<> dpkg-source: info: unpacking bcbio_1.2.4.orig.tar.gz dpkg-source: info: unpacking bcbio_1.2.4-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying include_tests dpkg-source: info: applying do_not_use_git.patch Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=4 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LOGNAME=buildd PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=build-PACKAGEBUILD-20255721 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-20255721 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-20255721 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package bcbio dpkg-buildpackage: info: source version 1.2.4-2 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 dpkg-source: info: using options from bcbio-1.2.4/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ debian/rules clean dh clean --with python3,sphinxdoc --buildsystem=pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/<>' dh_auto_clean install -d /<>/debian/.debhelper/generated/_source/home pybuild --clean --test-pytest -i python{version} -p "3.9 3.8" I: pybuild base:232: python3.9 setup.py clean running clean removing '/<>/.pybuild/cpython3_3.9_bcbio/build' (and everything under it) 'build/bdist.linux-x86_64' does not exist -- can't clean it 'build/scripts-3.9' does not exist -- can't clean it I: pybuild base:232: python3.8 setup.py clean running clean removing '/<>/.pybuild/cpython3_3.8_bcbio/build' (and everything under it) 'build/bdist.linux-x86_64' does not exist -- can't clean it 'build/scripts-3.8' does not exist -- can't clean it rm -rf .pybuild/ find . -name \*.pyc -exec rm {} \; rm -f bcbio/pipeline/version.py rm -f debian/*.1 rm -rf .pytest_cache rm -f tests/data/110106_FC70BUKAAXX/1_110106_FC70BUKAAXX_1_fastq.txt rm -f tests/data/110106_FC70BUKAAXX/1_110106_FC70BUKAAXX_2_fastq.txt rm -f tests/data/110106_FC70BUKAAXX/2_110106_FC70BUKAAXX_1_fastq.txt rm -f tests/data/110106_FC70BUKAAXX/2_110106_FC70BUKAAXX_2_fastq.txt rm -f tests/data/110106_FC70BUKAAXX/3_110106_FC70BUKAAXX_fastq.txt make[1]: Leaving directory '/<>' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild rm -f debian/debhelper-build-stamp rm -rf debian/.debhelper/ rm -f -- debian/python3-bcbio.substvars debian/bcbio.substvars debian/files rm -fr -- debian/python3-bcbio/ debian/tmp/ debian/bcbio/ find . \( \( \ \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \ \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ \) -exec rm -f {} + \) -o \ \( -type d -a -name autom4te.cache -prune -exec rm -rf {} + \) \) debian/rules binary dh binary --with python3,sphinxdoc --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild install -d /<>/debian/.debhelper/generated/_source/home pybuild --configure --test-pytest -i python{version} -p "3.9 3.8" I: pybuild base:232: python3.9 setup.py config running config I: pybuild base:232: python3.8 setup.py config running config debian/rules override_dh_auto_build make[1]: Entering directory '/<>' dh_auto_build pybuild --build --test-pytest -i python{version} -p "3.9 3.8" I: pybuild base:232: /usr/bin/python3.9 setup.py build running build running build_py creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio copying bcbio/install.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio copying bcbio/setpath.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio copying bcbio/__init__.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio copying bcbio/utils.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc copying bcbio/qc/atac.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc copying bcbio/qc/damage.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc copying bcbio/qc/viral.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc copying bcbio/qc/kraken.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc copying bcbio/qc/samtools.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc copying bcbio/qc/__init__.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc copying bcbio/qc/picard.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc copying bcbio/qc/multiqc.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc copying bcbio/qc/qualimap.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc copying bcbio/qc/fastqc.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc copying bcbio/qc/atropos.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc copying bcbio/qc/srna.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc copying bcbio/qc/preseq.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc copying bcbio/qc/contamination.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc copying bcbio/qc/coverage.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc copying bcbio/qc/qsignature.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc copying bcbio/qc/chipseq.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc copying bcbio/qc/variant.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc copying bcbio/qc/umi.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/illumina copying bcbio/illumina/transfer.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/illumina copying bcbio/illumina/__init__.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/illumina copying bcbio/illumina/samplesheet.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/illumina copying bcbio/illumina/flowcell.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/illumina copying bcbio/illumina/demultiplex.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/illumina copying bcbio/illumina/machine.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/illumina creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/hmmer copying bcbio/hmmer/search.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/hmmer copying bcbio/hmmer/__init__.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/hmmer creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/heterogeneity copying bcbio/heterogeneity/phylowgs.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/heterogeneity copying bcbio/heterogeneity/chromhacks.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/heterogeneity copying bcbio/heterogeneity/theta.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/heterogeneity copying bcbio/heterogeneity/__init__.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/heterogeneity copying bcbio/heterogeneity/loh.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/heterogeneity copying bcbio/heterogeneity/bubbletree.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/heterogeneity creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/provenance copying bcbio/provenance/programs.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/provenance copying bcbio/provenance/__init__.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/provenance copying bcbio/provenance/data.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/provenance copying bcbio/provenance/do.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/provenance copying bcbio/provenance/versioncheck.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/provenance copying bcbio/provenance/profile.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/provenance copying bcbio/provenance/diagnostics.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/provenance copying bcbio/provenance/system.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/provenance creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/postalign.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/novoalign.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/bismark.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/bowtie2.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/bowtie.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/snap.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/alignprep.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/__init__.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/bwa.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/bbmap.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/hisat2.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/mosaik.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/minimap2.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/star.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/tophat.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/rtg.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/bsmap.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/split.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/strelka2.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/deepvariant.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/octopus.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/damage.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/ensemble.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/joint.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/mutect2.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/smcounter2.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/multi.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/naming.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/samtools.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/cortex.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/peddy.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/scalpel.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/bedutils.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/__init__.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/normalize.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/germline.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/varscan.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/qsnp.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/gatkfilter.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/validate.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/annotation.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/prioritize.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/gatk.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/validateplot.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/effects.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/freebayes.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/coverage.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/vardict.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/vcfutils.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/mutect.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/gatkjoint.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/recalibrate.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/sentieon.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/platypus.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/genotype.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/population.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/pisces.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/bamprep.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/realign.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/ploidy.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/vfilter.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation copying bcbio/variation/vcfanno.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/broad copying bcbio/broad/__init__.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/broad copying bcbio/broad/picardrun.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/broad copying bcbio/broad/metrics.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/broad creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/chipseq copying bcbio/chipseq/atac.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/chipseq copying bcbio/chipseq/antibodies.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/chipseq copying bcbio/chipseq/peaks.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/chipseq copying bcbio/chipseq/__init__.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/chipseq copying bcbio/chipseq/macs2.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/chipseq creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/cufflinks.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/express.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/cpat.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/singlecellexperiment.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/dexseq.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/stringtie.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/oncofuse.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/rsem.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/__init__.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/salmon.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/gtf.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/kallisto.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/variation.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/bcbiornaseq.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/qc.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/spikein.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/count.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/ericscript.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/pizzly.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/rapmap.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/featureCounts.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/sailfish.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/annotate_gtf.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/arriba.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/umi.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/picard copying bcbio/picard/__init__.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/picard copying bcbio/picard/utils.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/picard copying bcbio/picard/metrics.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/picard creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/distributed copying bcbio/distributed/split.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/distributed copying bcbio/distributed/runfn.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/distributed copying bcbio/distributed/multi.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/distributed copying bcbio/distributed/__init__.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/distributed copying bcbio/distributed/multitasks.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/distributed copying bcbio/distributed/ipython.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/distributed copying bcbio/distributed/clusterk.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/distributed copying bcbio/distributed/transaction.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/distributed copying bcbio/distributed/ipythontasks.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/distributed copying bcbio/distributed/clargs.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/distributed copying bcbio/distributed/objectstore.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/distributed copying bcbio/distributed/prun.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/distributed copying bcbio/distributed/resources.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/distributed creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/cwl copying bcbio/cwl/create.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/cwl copying bcbio/cwl/hpc.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/cwl copying bcbio/cwl/defs.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/cwl copying bcbio/cwl/workflow.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/cwl copying bcbio/cwl/tool.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/cwl copying bcbio/cwl/__init__.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/cwl copying bcbio/cwl/inspect.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/cwl copying bcbio/cwl/main.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/cwl copying bcbio/cwl/cwlutils.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/cwl creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/wgbsseq copying bcbio/wgbsseq/deduplication.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/wgbsseq copying bcbio/wgbsseq/trimming.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/wgbsseq copying bcbio/wgbsseq/align.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/wgbsseq copying bcbio/wgbsseq/__init__.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/wgbsseq copying bcbio/wgbsseq/kits.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/wgbsseq copying bcbio/wgbsseq/cpg_caller.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/wgbsseq creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/hla copying bcbio/hla/optitype.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/hla copying bcbio/hla/__init__.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/hla copying bcbio/hla/bwakit.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/hla copying bcbio/hla/groups.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/hla creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural copying bcbio/structural/wham.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural copying bcbio/structural/purecn.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural copying bcbio/structural/shared.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural copying bcbio/structural/metasv.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural copying bcbio/structural/convert.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural copying bcbio/structural/regions.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural copying bcbio/structural/annotate.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural copying bcbio/structural/gatkcnv.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural copying bcbio/structural/__init__.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural copying bcbio/structural/battenberg.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural copying bcbio/structural/hydra.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural copying bcbio/structural/titancna.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural copying bcbio/structural/seq2c.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural copying bcbio/structural/validate.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural copying bcbio/structural/purple.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural copying bcbio/structural/prioritize.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural copying bcbio/structural/manta.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural copying bcbio/structural/gridss.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural copying bcbio/structural/lumpy.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural copying bcbio/structural/delly.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural copying bcbio/structural/pindel.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural copying bcbio/structural/cn_mops.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural copying bcbio/structural/cnvkit.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural copying bcbio/structural/plot.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/workflow copying bcbio/workflow/template.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/workflow copying bcbio/workflow/__init__.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/workflow copying bcbio/workflow/xprize.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/workflow copying bcbio/workflow/stormseq.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/workflow creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/galaxy copying bcbio/galaxy/nglims.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/galaxy copying bcbio/galaxy/__init__.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/galaxy copying bcbio/galaxy/loc.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/galaxy copying bcbio/galaxy/api.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/galaxy creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/graph copying bcbio/graph/__init__.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/graph copying bcbio/graph/collectl.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/graph copying bcbio/graph/graph.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/graph creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/bed copying bcbio/bed/__init__.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/bed creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/bam copying bcbio/bam/fastq.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/bam copying bcbio/bam/__init__.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/bam copying bcbio/bam/ref.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/bam copying bcbio/bam/trim.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/bam copying bcbio/bam/fasta.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/bam copying bcbio/bam/callable.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/bam copying bcbio/bam/readstats.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/bam copying bcbio/bam/coverage.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/bam copying bcbio/bam/skewer.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/bam copying bcbio/bam/cram.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/bam copying bcbio/bam/counts.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/bam creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/log copying bcbio/log/__init__.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/log copying bcbio/log/logbook_zmqpush.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/log creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/server copying bcbio/server/__init__.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/server copying bcbio/server/run.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/server copying bcbio/server/background.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/server copying bcbio/server/main.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/server creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/srna copying bcbio/srna/mirge.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/srna copying bcbio/srna/sample.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/srna copying bcbio/srna/group.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/srna copying bcbio/srna/__init__.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/srna copying bcbio/srna/qc.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/srna copying bcbio/srna/umis.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/srna copying bcbio/srna/mirdeep.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/srna creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline copying bcbio/pipeline/shared.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline copying bcbio/pipeline/merge.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline copying bcbio/pipeline/alignment.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline copying bcbio/pipeline/run_info.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline copying bcbio/pipeline/sample.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline copying bcbio/pipeline/fastq.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline copying bcbio/pipeline/tools.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline copying bcbio/pipeline/archive.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline copying bcbio/pipeline/genome.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline copying bcbio/pipeline/__init__.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline copying bcbio/pipeline/config_utils.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline copying bcbio/pipeline/variation.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline copying bcbio/pipeline/qcsummary.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline copying bcbio/pipeline/version.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline copying bcbio/pipeline/cleanbam.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline copying bcbio/pipeline/main.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline copying bcbio/pipeline/region.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline copying bcbio/pipeline/datadict.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline copying bcbio/pipeline/sra.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline copying bcbio/pipeline/rnaseq.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/upload copying bcbio/upload/shared.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/upload copying bcbio/upload/irods.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/upload copying bcbio/upload/__init__.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/upload copying bcbio/upload/s3.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/upload copying bcbio/upload/galaxy.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/upload copying bcbio/upload/filesystem.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/upload creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline/disambiguate copying bcbio/pipeline/disambiguate/__init__.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline/disambiguate copying bcbio/pipeline/disambiguate/run.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline/disambiguate running egg_info creating bcbio_nextgen.egg-info writing bcbio_nextgen.egg-info/PKG-INFO writing dependency_links to bcbio_nextgen.egg-info/dependency_links.txt writing top-level names to bcbio_nextgen.egg-info/top_level.txt writing manifest file 'bcbio_nextgen.egg-info/SOURCES.txt' reading manifest file 'bcbio_nextgen.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'config/*.ini' writing manifest file 'bcbio_nextgen.egg-info/SOURCES.txt' creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data creating /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis copying bcbio/data/umis/10x_v2-cb1.txt.gz -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis copying bcbio/data/umis/10x_v2-transform.json -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis copying bcbio/data/umis/dropseq-transform.json -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis copying bcbio/data/umis/harvard-indrop-v2-cb1.txt.gz -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis copying bcbio/data/umis/harvard-indrop-v2-cb2.txt.gz -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis copying bcbio/data/umis/harvard-indrop-v2-transform.json -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis copying bcbio/data/umis/harvard-indrop-v3-cb1.txt.gz -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis copying bcbio/data/umis/harvard-indrop-v3-cb2.txt.gz -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis copying bcbio/data/umis/harvard-indrop-v3-sample_barcodes.txt.gz -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis copying bcbio/data/umis/harvard-indrop-v3-transform.json -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis copying bcbio/data/umis/harvard-scrb-cb1.txt.gz -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis copying bcbio/data/umis/harvard-scrb-transform.json -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis copying bcbio/data/umis/icell8-cb1.txt.gz -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis copying bcbio/data/umis/icell8-transform.json -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis copying bcbio/data/umis/qiagen_smallRNA_umi-transform.json -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis copying bcbio/data/umis/qiaseq-upx-384-cb1.txt.gz -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis copying bcbio/data/umis/qiaseq-upx-384-transform.json -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis copying bcbio/data/umis/qiaseq-upx-96-cb1.txt.gz -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis copying bcbio/data/umis/qiaseq-upx-96-transform.json -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis copying bcbio/data/umis/surecell-cb1.txt.gz -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis copying bcbio/data/umis/surecell-cb2.txt.gz -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis copying bcbio/data/umis/surecell-cb3.txt.gz -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis copying bcbio/data/umis/surecell-transform.json -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis running build_scripts creating build creating build/scripts-3.9 copying and adjusting scripts/bcbio_nextgen.py -> build/scripts-3.9 copying and adjusting scripts/bcbio_setup_genome.py -> build/scripts-3.9 copying and adjusting scripts/bcbio_prepare_samples.py -> build/scripts-3.9 copying and adjusting scripts/bcbio_fastq_umi_prep.py -> build/scripts-3.9 copying and adjusting scripts/cwltool2wdl.py -> build/scripts-3.9 changing mode of build/scripts-3.9/bcbio_nextgen.py from 644 to 755 changing mode of build/scripts-3.9/bcbio_setup_genome.py from 644 to 755 changing mode of build/scripts-3.9/bcbio_prepare_samples.py from 644 to 755 changing mode of build/scripts-3.9/bcbio_fastq_umi_prep.py from 644 to 755 changing mode of build/scripts-3.9/cwltool2wdl.py from 644 to 755 I: pybuild base:232: /usr/bin/python3 setup.py build running build running build_py creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio copying bcbio/install.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio copying bcbio/setpath.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio copying bcbio/__init__.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio copying bcbio/utils.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc copying bcbio/qc/atac.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc copying bcbio/qc/damage.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc copying bcbio/qc/viral.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc copying bcbio/qc/kraken.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc copying bcbio/qc/samtools.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc copying bcbio/qc/__init__.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc copying bcbio/qc/picard.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc copying bcbio/qc/multiqc.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc copying bcbio/qc/qualimap.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc copying bcbio/qc/fastqc.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc copying bcbio/qc/atropos.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc copying bcbio/qc/srna.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc copying bcbio/qc/preseq.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc copying bcbio/qc/contamination.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc copying bcbio/qc/coverage.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc copying bcbio/qc/qsignature.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc copying bcbio/qc/chipseq.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc copying bcbio/qc/variant.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc copying bcbio/qc/umi.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/illumina copying bcbio/illumina/transfer.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/illumina copying bcbio/illumina/__init__.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/illumina copying bcbio/illumina/samplesheet.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/illumina copying bcbio/illumina/flowcell.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/illumina copying bcbio/illumina/demultiplex.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/illumina copying bcbio/illumina/machine.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/illumina creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/hmmer copying bcbio/hmmer/search.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/hmmer copying bcbio/hmmer/__init__.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/hmmer creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/heterogeneity copying bcbio/heterogeneity/phylowgs.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/heterogeneity copying bcbio/heterogeneity/chromhacks.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/heterogeneity copying bcbio/heterogeneity/theta.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/heterogeneity copying bcbio/heterogeneity/__init__.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/heterogeneity copying bcbio/heterogeneity/loh.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/heterogeneity copying bcbio/heterogeneity/bubbletree.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/heterogeneity creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/provenance copying bcbio/provenance/programs.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/provenance copying bcbio/provenance/__init__.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/provenance copying bcbio/provenance/data.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/provenance copying bcbio/provenance/do.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/provenance copying bcbio/provenance/versioncheck.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/provenance copying bcbio/provenance/profile.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/provenance copying bcbio/provenance/diagnostics.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/provenance copying bcbio/provenance/system.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/provenance creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/postalign.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/novoalign.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/bismark.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/bowtie2.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/bowtie.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/snap.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/alignprep.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/__init__.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/bwa.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/bbmap.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/hisat2.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/mosaik.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/minimap2.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/star.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/tophat.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/rtg.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign copying bcbio/ngsalign/bsmap.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/split.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/strelka2.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/deepvariant.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/octopus.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/damage.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/ensemble.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/joint.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/mutect2.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/smcounter2.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/multi.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/naming.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/samtools.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/cortex.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/peddy.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/scalpel.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/bedutils.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/__init__.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/normalize.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/germline.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/varscan.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/qsnp.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/gatkfilter.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/validate.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/annotation.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/prioritize.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/gatk.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/validateplot.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/effects.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/freebayes.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/coverage.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/vardict.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/vcfutils.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/mutect.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/gatkjoint.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/recalibrate.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/sentieon.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/platypus.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/genotype.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/population.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/pisces.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/bamprep.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/realign.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/ploidy.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/vfilter.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation copying bcbio/variation/vcfanno.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/broad copying bcbio/broad/__init__.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/broad copying bcbio/broad/picardrun.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/broad copying bcbio/broad/metrics.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/broad creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/chipseq copying bcbio/chipseq/atac.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/chipseq copying bcbio/chipseq/antibodies.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/chipseq copying bcbio/chipseq/peaks.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/chipseq copying bcbio/chipseq/__init__.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/chipseq copying bcbio/chipseq/macs2.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/chipseq creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/cufflinks.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/express.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/cpat.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/singlecellexperiment.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/dexseq.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/stringtie.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/oncofuse.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/rsem.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/__init__.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/salmon.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/gtf.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/kallisto.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/variation.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/bcbiornaseq.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/qc.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/spikein.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/count.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/ericscript.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/pizzly.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/rapmap.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/featureCounts.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/sailfish.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/annotate_gtf.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/arriba.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq copying bcbio/rnaseq/umi.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/picard copying bcbio/picard/__init__.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/picard copying bcbio/picard/utils.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/picard copying bcbio/picard/metrics.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/picard creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/distributed copying bcbio/distributed/split.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/distributed copying bcbio/distributed/runfn.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/distributed copying bcbio/distributed/multi.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/distributed copying bcbio/distributed/__init__.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/distributed copying bcbio/distributed/multitasks.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/distributed copying bcbio/distributed/ipython.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/distributed copying bcbio/distributed/clusterk.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/distributed copying bcbio/distributed/transaction.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/distributed copying bcbio/distributed/ipythontasks.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/distributed copying bcbio/distributed/clargs.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/distributed copying bcbio/distributed/objectstore.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/distributed copying bcbio/distributed/prun.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/distributed copying bcbio/distributed/resources.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/distributed creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/cwl copying bcbio/cwl/create.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/cwl copying bcbio/cwl/hpc.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/cwl copying bcbio/cwl/defs.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/cwl copying bcbio/cwl/workflow.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/cwl copying bcbio/cwl/tool.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/cwl copying bcbio/cwl/__init__.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/cwl copying bcbio/cwl/inspect.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/cwl copying bcbio/cwl/main.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/cwl copying bcbio/cwl/cwlutils.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/cwl creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/wgbsseq copying bcbio/wgbsseq/deduplication.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/wgbsseq copying bcbio/wgbsseq/trimming.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/wgbsseq copying bcbio/wgbsseq/align.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/wgbsseq copying bcbio/wgbsseq/__init__.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/wgbsseq copying bcbio/wgbsseq/kits.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/wgbsseq copying bcbio/wgbsseq/cpg_caller.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/wgbsseq creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/hla copying bcbio/hla/optitype.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/hla copying bcbio/hla/__init__.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/hla copying bcbio/hla/bwakit.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/hla copying bcbio/hla/groups.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/hla creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural copying bcbio/structural/wham.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural copying bcbio/structural/purecn.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural copying bcbio/structural/shared.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural copying bcbio/structural/metasv.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural copying bcbio/structural/convert.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural copying bcbio/structural/regions.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural copying bcbio/structural/annotate.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural copying bcbio/structural/gatkcnv.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural copying bcbio/structural/__init__.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural copying bcbio/structural/battenberg.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural copying bcbio/structural/hydra.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural copying bcbio/structural/titancna.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural copying bcbio/structural/seq2c.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural copying bcbio/structural/validate.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural copying bcbio/structural/purple.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural copying bcbio/structural/prioritize.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural copying bcbio/structural/manta.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural copying bcbio/structural/gridss.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural copying bcbio/structural/lumpy.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural copying bcbio/structural/delly.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural copying bcbio/structural/pindel.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural copying bcbio/structural/cn_mops.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural copying bcbio/structural/cnvkit.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural copying bcbio/structural/plot.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/workflow copying bcbio/workflow/template.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/workflow copying bcbio/workflow/__init__.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/workflow copying bcbio/workflow/xprize.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/workflow copying bcbio/workflow/stormseq.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/workflow creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/galaxy copying bcbio/galaxy/nglims.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/galaxy copying bcbio/galaxy/__init__.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/galaxy copying bcbio/galaxy/loc.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/galaxy copying bcbio/galaxy/api.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/galaxy creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/graph copying bcbio/graph/__init__.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/graph copying bcbio/graph/collectl.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/graph copying bcbio/graph/graph.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/graph creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/bed copying bcbio/bed/__init__.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/bed creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/bam copying bcbio/bam/fastq.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/bam copying bcbio/bam/__init__.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/bam copying bcbio/bam/ref.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/bam copying bcbio/bam/trim.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/bam copying bcbio/bam/fasta.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/bam copying bcbio/bam/callable.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/bam copying bcbio/bam/readstats.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/bam copying bcbio/bam/coverage.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/bam copying bcbio/bam/skewer.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/bam copying bcbio/bam/cram.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/bam copying bcbio/bam/counts.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/bam creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/log copying bcbio/log/__init__.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/log copying bcbio/log/logbook_zmqpush.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/log creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/server copying bcbio/server/__init__.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/server copying bcbio/server/run.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/server copying bcbio/server/background.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/server copying bcbio/server/main.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/server creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/srna copying bcbio/srna/mirge.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/srna copying bcbio/srna/sample.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/srna copying bcbio/srna/group.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/srna copying bcbio/srna/__init__.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/srna copying bcbio/srna/qc.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/srna copying bcbio/srna/umis.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/srna copying bcbio/srna/mirdeep.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/srna creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline copying bcbio/pipeline/shared.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline copying bcbio/pipeline/merge.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline copying bcbio/pipeline/alignment.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline copying bcbio/pipeline/run_info.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline copying bcbio/pipeline/sample.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline copying bcbio/pipeline/fastq.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline copying bcbio/pipeline/tools.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline copying bcbio/pipeline/archive.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline copying bcbio/pipeline/genome.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline copying bcbio/pipeline/__init__.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline copying bcbio/pipeline/config_utils.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline copying bcbio/pipeline/variation.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline copying bcbio/pipeline/qcsummary.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline copying bcbio/pipeline/version.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline copying bcbio/pipeline/cleanbam.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline copying bcbio/pipeline/main.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline copying bcbio/pipeline/region.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline copying bcbio/pipeline/datadict.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline copying bcbio/pipeline/sra.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline copying bcbio/pipeline/rnaseq.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/upload copying bcbio/upload/shared.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/upload copying bcbio/upload/irods.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/upload copying bcbio/upload/__init__.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/upload copying bcbio/upload/s3.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/upload copying bcbio/upload/galaxy.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/upload copying bcbio/upload/filesystem.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/upload creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline/disambiguate copying bcbio/pipeline/disambiguate/__init__.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline/disambiguate copying bcbio/pipeline/disambiguate/run.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline/disambiguate running egg_info writing bcbio_nextgen.egg-info/PKG-INFO writing dependency_links to bcbio_nextgen.egg-info/dependency_links.txt writing top-level names to bcbio_nextgen.egg-info/top_level.txt reading manifest file 'bcbio_nextgen.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'config/*.ini' writing manifest file 'bcbio_nextgen.egg-info/SOURCES.txt' creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data creating /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis copying bcbio/data/umis/10x_v2-cb1.txt.gz -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis copying bcbio/data/umis/10x_v2-transform.json -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis copying bcbio/data/umis/dropseq-transform.json -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis copying bcbio/data/umis/harvard-indrop-v2-cb1.txt.gz -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis copying bcbio/data/umis/harvard-indrop-v2-cb2.txt.gz -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis copying bcbio/data/umis/harvard-indrop-v2-transform.json -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis copying bcbio/data/umis/harvard-indrop-v3-cb1.txt.gz -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis copying bcbio/data/umis/harvard-indrop-v3-cb2.txt.gz -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis copying bcbio/data/umis/harvard-indrop-v3-sample_barcodes.txt.gz -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis copying bcbio/data/umis/harvard-indrop-v3-transform.json -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis copying bcbio/data/umis/harvard-scrb-cb1.txt.gz -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis copying bcbio/data/umis/harvard-scrb-transform.json -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis copying bcbio/data/umis/icell8-cb1.txt.gz -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis copying bcbio/data/umis/icell8-transform.json -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis copying bcbio/data/umis/qiagen_smallRNA_umi-transform.json -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis copying bcbio/data/umis/qiaseq-upx-384-cb1.txt.gz -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis copying bcbio/data/umis/qiaseq-upx-384-transform.json -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis copying bcbio/data/umis/qiaseq-upx-96-cb1.txt.gz -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis copying bcbio/data/umis/qiaseq-upx-96-transform.json -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis copying bcbio/data/umis/surecell-cb1.txt.gz -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis copying bcbio/data/umis/surecell-cb2.txt.gz -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis copying bcbio/data/umis/surecell-cb3.txt.gz -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis copying bcbio/data/umis/surecell-transform.json -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis running build_scripts creating build/scripts-3.8 copying and adjusting scripts/bcbio_nextgen.py -> build/scripts-3.8 copying and adjusting scripts/bcbio_setup_genome.py -> build/scripts-3.8 copying and adjusting scripts/bcbio_prepare_samples.py -> build/scripts-3.8 copying and adjusting scripts/bcbio_fastq_umi_prep.py -> build/scripts-3.8 copying and adjusting scripts/cwltool2wdl.py -> build/scripts-3.8 changing mode of build/scripts-3.8/bcbio_nextgen.py from 644 to 755 changing mode of build/scripts-3.8/bcbio_setup_genome.py from 644 to 755 changing mode of build/scripts-3.8/bcbio_prepare_samples.py from 644 to 755 changing mode of build/scripts-3.8/bcbio_fastq_umi_prep.py from 644 to 755 changing mode of build/scripts-3.8/cwltool2wdl.py from 644 to 755 # gave error for version 1.2.3 #PYTHONPATH=. http_proxy='127.0.0.1:9' sphinx-build -N -bhtml docs build/html # HTML generator #PYTHONPATH=. http_proxy='127.0.0.1:9' sphinx-build -N -bman docs build/man # Manpage generator mkdir -p build/html mkdir -p build/man && touch build/man/bcbio_nextgen.1 make[1]: Leaving directory '/<>' dh_auto_test -O--buildsystem=pybuild pybuild --test --test-pytest -i python{version} -p "3.9 3.8" rm -fr -- /tmp/dh-xdg-rundir-fxtQ5g0T create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild rm -f -- debian/python3-bcbio.substvars debian/bcbio.substvars rm -fr -- debian/.debhelper/generated/python3-bcbio/ debian/python3-bcbio/ debian/tmp/ debian/.debhelper/generated/bcbio/ debian/bcbio/ rm -f debian/bcbio.debhelper.log debian/python3-bcbio.debhelper.log debian/rules override_dh_auto_install make[1]: Entering directory '/<>' dh_auto_install install -d /<>/debian/tmp pybuild --install --test-pytest -i python{version} -p "3.9 3.8" --dest-dir /<>/debian/tmp I: pybuild base:232: /usr/bin/python3.9 setup.py install --root /<>/debian/python3-bcbio running install running build running build_py copying bcbio/pipeline/version.py -> /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline running egg_info writing bcbio_nextgen.egg-info/PKG-INFO writing dependency_links to bcbio_nextgen.egg-info/dependency_links.txt writing top-level names to bcbio_nextgen.egg-info/top_level.txt reading manifest file 'bcbio_nextgen.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'config/*.ini' writing manifest file 'bcbio_nextgen.egg-info/SOURCES.txt' running build_scripts running install_lib creating /<>/debian/python3-bcbio creating /<>/debian/python3-bcbio/usr creating /<>/debian/python3-bcbio/usr/lib creating /<>/debian/python3-bcbio/usr/lib/python3.9 creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc/atac.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc/damage.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc/viral.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc/kraken.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc/samtools.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc/picard.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc/multiqc.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc/qualimap.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc/fastqc.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc/atropos.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc/srna.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc/preseq.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc/contamination.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc/coverage.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc/qsignature.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc/chipseq.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc/variant.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/qc/umi.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/install.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/illumina copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/illumina/transfer.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/illumina copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/illumina/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/illumina copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/illumina/samplesheet.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/illumina copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/illumina/flowcell.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/illumina copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/illumina/demultiplex.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/illumina copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/illumina/machine.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/illumina creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/hmmer copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/hmmer/search.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/hmmer copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/hmmer/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/hmmer copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/setpath.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/heterogeneity copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/heterogeneity/phylowgs.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/heterogeneity copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/heterogeneity/chromhacks.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/heterogeneity copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/heterogeneity/theta.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/heterogeneity copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/heterogeneity/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/heterogeneity copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/heterogeneity/loh.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/heterogeneity copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/heterogeneity/bubbletree.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/heterogeneity creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/provenance copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/provenance/programs.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/provenance copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/provenance/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/provenance copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/provenance/data.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/provenance copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/provenance/do.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/provenance copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/provenance/versioncheck.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/provenance copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/provenance/profile.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/provenance copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/provenance/diagnostics.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/provenance copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/provenance/system.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/provenance creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/data creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis/harvard-indrop-v2-cb1.txt.gz -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis/harvard-indrop-v3-cb2.txt.gz -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis/qiaseq-upx-384-transform.json -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis/dropseq-transform.json -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis/harvard-scrb-cb1.txt.gz -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis/harvard-indrop-v3-cb1.txt.gz -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis/harvard-scrb-transform.json -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis/10x_v2-transform.json -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis/qiaseq-upx-384-cb1.txt.gz -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis/qiagen_smallRNA_umi-transform.json -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis/surecell-cb3.txt.gz -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis/surecell-cb2.txt.gz -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis/harvard-indrop-v3-sample_barcodes.txt.gz -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis/icell8-transform.json -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis/surecell-transform.json -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis/icell8-cb1.txt.gz -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis/10x_v2-cb1.txt.gz -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis/qiaseq-upx-96-cb1.txt.gz -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis/harvard-indrop-v3-transform.json -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis/harvard-indrop-v2-transform.json -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis/qiaseq-upx-96-transform.json -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis/surecell-cb1.txt.gz -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/data/umis/harvard-indrop-v2-cb2.txt.gz -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/data/umis creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign/postalign.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign/novoalign.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign/bismark.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign/bowtie2.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign/bowtie.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign/snap.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign/alignprep.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign/bwa.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign/bbmap.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign/hisat2.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign/mosaik.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign/minimap2.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign/star.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign/tophat.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign/rtg.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/ngsalign/bsmap.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/split.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/strelka2.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/deepvariant.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/octopus.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/damage.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/ensemble.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/joint.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/mutect2.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/smcounter2.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/multi.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/naming.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/samtools.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/cortex.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/peddy.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/scalpel.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/bedutils.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/normalize.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/germline.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/varscan.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/qsnp.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/gatkfilter.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/validate.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/annotation.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/prioritize.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/gatk.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/validateplot.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/effects.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/freebayes.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/coverage.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/vardict.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/vcfutils.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/mutect.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/gatkjoint.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/recalibrate.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/sentieon.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/platypus.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/genotype.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/population.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/pisces.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/bamprep.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/realign.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/ploidy.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/vfilter.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/variation/vcfanno.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/broad copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/broad/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/broad copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/broad/picardrun.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/broad copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/broad/metrics.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/broad creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/chipseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/chipseq/atac.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/chipseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/chipseq/antibodies.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/chipseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/chipseq/peaks.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/chipseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/chipseq/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/chipseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/chipseq/macs2.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/chipseq creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq/cufflinks.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq/express.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq/cpat.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq/singlecellexperiment.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq/dexseq.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq/stringtie.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq/oncofuse.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq/rsem.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq/salmon.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq/gtf.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq/kallisto.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq/variation.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq/bcbiornaseq.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq/qc.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq/spikein.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq/count.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq/ericscript.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq/pizzly.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq/rapmap.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq/featureCounts.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq/sailfish.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq/annotate_gtf.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq/arriba.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/rnaseq/umi.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/picard copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/picard/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/picard copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/picard/utils.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/picard copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/picard/metrics.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/picard copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/distributed copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/distributed/split.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/distributed copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/distributed/runfn.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/distributed copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/distributed/multi.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/distributed copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/distributed/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/distributed copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/distributed/multitasks.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/distributed copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/distributed/ipython.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/distributed copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/distributed/clusterk.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/distributed copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/distributed/transaction.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/distributed copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/distributed/ipythontasks.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/distributed copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/distributed/clargs.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/distributed copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/distributed/objectstore.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/distributed copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/distributed/prun.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/distributed copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/distributed/resources.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/distributed creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/cwl copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/cwl/create.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/cwl copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/cwl/hpc.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/cwl copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/cwl/defs.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/cwl copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/cwl/workflow.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/cwl copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/cwl/tool.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/cwl copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/cwl/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/cwl copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/cwl/inspect.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/cwl copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/cwl/main.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/cwl copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/cwl/cwlutils.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/cwl creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/wgbsseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/wgbsseq/deduplication.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/wgbsseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/wgbsseq/trimming.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/wgbsseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/wgbsseq/align.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/wgbsseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/wgbsseq/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/wgbsseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/wgbsseq/kits.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/wgbsseq copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/wgbsseq/cpg_caller.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/wgbsseq creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/hla copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/hla/optitype.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/hla copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/hla/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/hla copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/hla/bwakit.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/hla copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/hla/groups.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/hla copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/utils.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural/wham.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural/purecn.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural/shared.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural/metasv.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural/convert.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural/regions.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural/annotate.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural/gatkcnv.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural/battenberg.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural/hydra.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural/titancna.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural/seq2c.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural/validate.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural/purple.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural/prioritize.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural/manta.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural/gridss.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural/lumpy.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural/delly.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural/pindel.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural/cn_mops.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural/cnvkit.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/structural/plot.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/workflow copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/workflow/template.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/workflow copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/workflow/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/workflow copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/workflow/xprize.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/workflow copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/workflow/stormseq.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/workflow creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/galaxy copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/galaxy/nglims.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/galaxy copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/galaxy/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/galaxy copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/galaxy/loc.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/galaxy copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/galaxy/api.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/galaxy creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/graph copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/graph/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/graph copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/graph/collectl.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/graph copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/graph/graph.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/graph creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/bed copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/bed/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/bed creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/bam copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/bam/fastq.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/bam copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/bam/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/bam copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/bam/ref.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/bam copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/bam/trim.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/bam copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/bam/fasta.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/bam copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/bam/callable.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/bam copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/bam/readstats.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/bam copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/bam/coverage.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/bam copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/bam/skewer.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/bam copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/bam/cram.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/bam copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/bam/counts.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/bam creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/log copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/log/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/log copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/log/logbook_zmqpush.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/log creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/server copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/server/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/server copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/server/run.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/server copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/server/background.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/server copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/server/main.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/server creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/srna copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/srna/mirge.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/srna copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/srna/sample.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/srna copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/srna/group.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/srna copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/srna/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/srna copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/srna/qc.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/srna copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/srna/umis.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/srna copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/srna/mirdeep.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/srna creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline/shared.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline/merge.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline/alignment.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline/run_info.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline/sample.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline/fastq.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline/tools.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline/archive.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline/genome.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline/disambiguate copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline/disambiguate/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline/disambiguate copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline/disambiguate/run.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline/disambiguate copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline/config_utils.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline/variation.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline/qcsummary.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline/version.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline/cleanbam.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline/main.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline/region.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline/datadict.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline/sra.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/pipeline/rnaseq.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline creating /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/upload copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/upload/shared.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/upload copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/upload/irods.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/upload copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/upload/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/upload copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/upload/s3.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/upload copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/upload/galaxy.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/upload copying /<>/.pybuild/cpython3_3.9_bcbio/build/bcbio/upload/filesystem.py -> /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/upload byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc/atac.py to atac.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc/damage.py to damage.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc/viral.py to viral.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc/kraken.py to kraken.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc/samtools.py to samtools.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc/picard.py to picard.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc/multiqc.py to multiqc.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc/qualimap.py to qualimap.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc/fastqc.py to fastqc.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc/atropos.py to atropos.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc/srna.py to srna.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc/preseq.py to preseq.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc/contamination.py to contamination.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc/coverage.py to coverage.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc/qsignature.py to qsignature.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc/chipseq.py to chipseq.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc/variant.py to variant.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/qc/umi.py to umi.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/install.py to install.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/illumina/transfer.py to transfer.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/illumina/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/illumina/samplesheet.py to samplesheet.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/illumina/flowcell.py to flowcell.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/illumina/demultiplex.py to demultiplex.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/illumina/machine.py to machine.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/hmmer/search.py to search.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/hmmer/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/setpath.py to setpath.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/heterogeneity/phylowgs.py to phylowgs.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/heterogeneity/chromhacks.py to chromhacks.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/heterogeneity/theta.py to theta.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/heterogeneity/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/heterogeneity/loh.py to loh.cpython-39.pyc /usr/lib/python3.9/dist-packages/bcbio/heterogeneity/loh.py:325: SyntaxWarning: "is not" with a literal. Did you mean "!="? /usr/lib/python3.9/dist-packages/bcbio/heterogeneity/loh.py:356: SyntaxWarning: "is not" with a literal. Did you mean "!="? byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/heterogeneity/bubbletree.py to bubbletree.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/provenance/programs.py to programs.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/provenance/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/provenance/data.py to data.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/provenance/do.py to do.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/provenance/versioncheck.py to versioncheck.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/provenance/profile.py to profile.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/provenance/diagnostics.py to diagnostics.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/provenance/system.py to system.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign/postalign.py to postalign.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign/novoalign.py to novoalign.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign/bismark.py to bismark.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign/bowtie2.py to bowtie2.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign/bowtie.py to bowtie.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign/snap.py to snap.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign/alignprep.py to alignprep.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign/bwa.py to bwa.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign/bbmap.py to bbmap.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign/hisat2.py to hisat2.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign/mosaik.py to mosaik.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign/minimap2.py to minimap2.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign/star.py to star.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign/tophat.py to tophat.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign/rtg.py to rtg.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/ngsalign/bsmap.py to bsmap.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/split.py to split.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/strelka2.py to strelka2.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/deepvariant.py to deepvariant.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/octopus.py to octopus.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/damage.py to damage.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/ensemble.py to ensemble.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/joint.py to joint.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/mutect2.py to mutect2.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/smcounter2.py to smcounter2.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/multi.py to multi.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/naming.py to naming.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/samtools.py to samtools.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/cortex.py to cortex.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/peddy.py to peddy.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/scalpel.py to scalpel.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/bedutils.py to bedutils.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/normalize.py to normalize.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/germline.py to germline.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/varscan.py to varscan.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/qsnp.py to qsnp.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/gatkfilter.py to gatkfilter.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/validate.py to validate.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/annotation.py to annotation.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/prioritize.py to prioritize.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/gatk.py to gatk.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/validateplot.py to validateplot.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/effects.py to effects.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/freebayes.py to freebayes.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/coverage.py to coverage.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/vardict.py to vardict.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/vcfutils.py to vcfutils.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/mutect.py to mutect.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/gatkjoint.py to gatkjoint.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/recalibrate.py to recalibrate.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/sentieon.py to sentieon.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/platypus.py to platypus.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/genotype.py to genotype.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/population.py to population.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/pisces.py to pisces.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/bamprep.py to bamprep.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/realign.py to realign.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/ploidy.py to ploidy.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/vfilter.py to vfilter.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/variation/vcfanno.py to vcfanno.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/broad/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/broad/picardrun.py to picardrun.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/broad/metrics.py to metrics.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/chipseq/atac.py to atac.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/chipseq/antibodies.py to antibodies.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/chipseq/peaks.py to peaks.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/chipseq/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/chipseq/macs2.py to macs2.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq/cufflinks.py to cufflinks.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq/express.py to express.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq/cpat.py to cpat.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq/singlecellexperiment.py to singlecellexperiment.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq/dexseq.py to dexseq.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq/stringtie.py to stringtie.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq/oncofuse.py to oncofuse.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq/rsem.py to rsem.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq/salmon.py to salmon.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq/gtf.py to gtf.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq/kallisto.py to kallisto.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq/variation.py to variation.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq/bcbiornaseq.py to bcbiornaseq.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq/qc.py to qc.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq/spikein.py to spikein.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq/count.py to count.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq/ericscript.py to ericscript.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq/pizzly.py to pizzly.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq/rapmap.py to rapmap.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq/featureCounts.py to featureCounts.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq/sailfish.py to sailfish.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq/annotate_gtf.py to annotate_gtf.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq/arriba.py to arriba.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/rnaseq/umi.py to umi.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/picard/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/picard/utils.py to utils.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/picard/metrics.py to metrics.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/distributed/split.py to split.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/distributed/runfn.py to runfn.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/distributed/multi.py to multi.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/distributed/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/distributed/multitasks.py to multitasks.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/distributed/ipython.py to ipython.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/distributed/clusterk.py to clusterk.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/distributed/transaction.py to transaction.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/distributed/ipythontasks.py to ipythontasks.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/distributed/clargs.py to clargs.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/distributed/objectstore.py to objectstore.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/distributed/prun.py to prun.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/distributed/resources.py to resources.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/cwl/create.py to create.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/cwl/hpc.py to hpc.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/cwl/defs.py to defs.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/cwl/workflow.py to workflow.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/cwl/tool.py to tool.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/cwl/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/cwl/inspect.py to inspect.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/cwl/main.py to main.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/cwl/cwlutils.py to cwlutils.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/wgbsseq/deduplication.py to deduplication.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/wgbsseq/trimming.py to trimming.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/wgbsseq/align.py to align.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/wgbsseq/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/wgbsseq/kits.py to kits.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/wgbsseq/cpg_caller.py to cpg_caller.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/hla/optitype.py to optitype.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/hla/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/hla/bwakit.py to bwakit.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/hla/groups.py to groups.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/utils.py to utils.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural/wham.py to wham.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural/purecn.py to purecn.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural/shared.py to shared.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural/metasv.py to metasv.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural/convert.py to convert.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural/regions.py to regions.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural/annotate.py to annotate.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural/gatkcnv.py to gatkcnv.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural/battenberg.py to battenberg.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural/hydra.py to hydra.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural/titancna.py to titancna.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural/seq2c.py to seq2c.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural/validate.py to validate.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural/purple.py to purple.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural/prioritize.py to prioritize.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural/manta.py to manta.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural/gridss.py to gridss.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural/lumpy.py to lumpy.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural/delly.py to delly.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural/pindel.py to pindel.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural/cn_mops.py to cn_mops.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural/cnvkit.py to cnvkit.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/structural/plot.py to plot.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/workflow/template.py to template.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/workflow/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/workflow/xprize.py to xprize.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/workflow/stormseq.py to stormseq.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/galaxy/nglims.py to nglims.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/galaxy/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/galaxy/loc.py to loc.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/galaxy/api.py to api.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/graph/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/graph/collectl.py to collectl.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/graph/graph.py to graph.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/bed/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/bam/fastq.py to fastq.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/bam/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/bam/ref.py to ref.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/bam/trim.py to trim.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/bam/fasta.py to fasta.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/bam/callable.py to callable.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/bam/readstats.py to readstats.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/bam/coverage.py to coverage.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/bam/skewer.py to skewer.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/bam/cram.py to cram.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/bam/counts.py to counts.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/log/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/log/logbook_zmqpush.py to logbook_zmqpush.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/server/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/server/run.py to run.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/server/background.py to background.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/server/main.py to main.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/srna/mirge.py to mirge.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/srna/sample.py to sample.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/srna/group.py to group.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/srna/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/srna/qc.py to qc.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/srna/umis.py to umis.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/srna/mirdeep.py to mirdeep.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline/shared.py to shared.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline/merge.py to merge.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline/alignment.py to alignment.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline/run_info.py to run_info.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline/sample.py to sample.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline/fastq.py to fastq.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline/tools.py to tools.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline/archive.py to archive.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline/genome.py to genome.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline/disambiguate/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline/disambiguate/run.py to run.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline/config_utils.py to config_utils.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline/variation.py to variation.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline/qcsummary.py to qcsummary.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline/version.py to version.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline/cleanbam.py to cleanbam.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline/main.py to main.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline/region.py to region.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline/datadict.py to datadict.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline/sra.py to sra.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/pipeline/rnaseq.py to rnaseq.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/upload/shared.py to shared.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/upload/irods.py to irods.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/upload/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/upload/s3.py to s3.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/upload/galaxy.py to galaxy.cpython-39.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio/upload/filesystem.py to filesystem.cpython-39.pyc running install_egg_info Copying bcbio_nextgen.egg-info to /<>/debian/python3-bcbio/usr/lib/python3.9/dist-packages/bcbio_nextgen-1.2.4.egg-info Skipping SOURCES.txt running install_scripts creating /<>/debian/python3-bcbio/usr/bin copying build/scripts-3.9/bcbio_nextgen.py -> /<>/debian/python3-bcbio/usr/bin copying build/scripts-3.9/bcbio_setup_genome.py -> /<>/debian/python3-bcbio/usr/bin copying build/scripts-3.9/bcbio_fastq_umi_prep.py -> /<>/debian/python3-bcbio/usr/bin copying build/scripts-3.9/cwltool2wdl.py -> /<>/debian/python3-bcbio/usr/bin copying build/scripts-3.9/bcbio_prepare_samples.py -> /<>/debian/python3-bcbio/usr/bin changing mode of /<>/debian/python3-bcbio/usr/bin/bcbio_nextgen.py to 755 changing mode of /<>/debian/python3-bcbio/usr/bin/bcbio_setup_genome.py to 755 changing mode of /<>/debian/python3-bcbio/usr/bin/bcbio_fastq_umi_prep.py to 755 changing mode of /<>/debian/python3-bcbio/usr/bin/cwltool2wdl.py to 755 changing mode of /<>/debian/python3-bcbio/usr/bin/bcbio_prepare_samples.py to 755 I: pybuild base:232: /usr/bin/python3 setup.py install --root /<>/debian/python3-bcbio running install running build running build_py copying bcbio/pipeline/version.py -> /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline running egg_info writing bcbio_nextgen.egg-info/PKG-INFO writing dependency_links to bcbio_nextgen.egg-info/dependency_links.txt writing top-level names to bcbio_nextgen.egg-info/top_level.txt reading manifest file 'bcbio_nextgen.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'config/*.ini' writing manifest file 'bcbio_nextgen.egg-info/SOURCES.txt' running build_scripts running install_lib creating /<>/debian/python3-bcbio/usr/lib/python3.8 creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc/atac.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc/damage.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc/viral.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc/kraken.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc/samtools.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc/picard.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc/multiqc.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc/qualimap.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc/fastqc.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc/atropos.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc/srna.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc/preseq.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc/contamination.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc/coverage.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc/qsignature.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc/chipseq.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc/variant.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/qc/umi.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/install.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/illumina copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/illumina/transfer.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/illumina copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/illumina/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/illumina copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/illumina/samplesheet.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/illumina copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/illumina/flowcell.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/illumina copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/illumina/demultiplex.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/illumina copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/illumina/machine.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/illumina creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/hmmer copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/hmmer/search.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/hmmer copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/hmmer/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/hmmer copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/setpath.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/heterogeneity copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/heterogeneity/phylowgs.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/heterogeneity copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/heterogeneity/chromhacks.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/heterogeneity copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/heterogeneity/theta.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/heterogeneity copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/heterogeneity/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/heterogeneity copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/heterogeneity/loh.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/heterogeneity copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/heterogeneity/bubbletree.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/heterogeneity creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/provenance copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/provenance/programs.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/provenance copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/provenance/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/provenance copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/provenance/data.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/provenance copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/provenance/do.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/provenance copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/provenance/versioncheck.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/provenance copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/provenance/profile.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/provenance copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/provenance/diagnostics.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/provenance copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/provenance/system.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/provenance creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/data creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis/harvard-indrop-v2-cb1.txt.gz -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis/harvard-indrop-v3-cb2.txt.gz -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis/qiaseq-upx-384-transform.json -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis/dropseq-transform.json -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis/harvard-scrb-cb1.txt.gz -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis/harvard-indrop-v3-cb1.txt.gz -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis/harvard-scrb-transform.json -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis/10x_v2-transform.json -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis/qiaseq-upx-384-cb1.txt.gz -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis/qiagen_smallRNA_umi-transform.json -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis/surecell-cb3.txt.gz -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis/surecell-cb2.txt.gz -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis/harvard-indrop-v3-sample_barcodes.txt.gz -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis/icell8-transform.json -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis/surecell-transform.json -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis/icell8-cb1.txt.gz -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis/10x_v2-cb1.txt.gz -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis/qiaseq-upx-96-cb1.txt.gz -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis/harvard-indrop-v3-transform.json -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis/harvard-indrop-v2-transform.json -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis/qiaseq-upx-96-transform.json -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis/surecell-cb1.txt.gz -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/data/umis copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/data/umis/harvard-indrop-v2-cb2.txt.gz -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/data/umis creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign/postalign.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign/novoalign.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign/bismark.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign/bowtie2.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign/bowtie.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign/snap.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign/alignprep.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign/bwa.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign/bbmap.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign/hisat2.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign/mosaik.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign/minimap2.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign/star.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign/tophat.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign/rtg.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/ngsalign/bsmap.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/split.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/strelka2.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/deepvariant.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/octopus.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/damage.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/ensemble.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/joint.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/mutect2.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/smcounter2.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/multi.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/naming.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/samtools.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/cortex.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/peddy.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/scalpel.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/bedutils.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/normalize.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/germline.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/varscan.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/qsnp.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/gatkfilter.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/validate.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/annotation.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/prioritize.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/gatk.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/validateplot.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/effects.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/freebayes.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/coverage.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/vardict.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/vcfutils.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/mutect.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/gatkjoint.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/recalibrate.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/sentieon.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/platypus.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/genotype.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/population.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/pisces.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/bamprep.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/realign.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/ploidy.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/vfilter.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/variation/vcfanno.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/broad copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/broad/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/broad copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/broad/picardrun.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/broad copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/broad/metrics.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/broad creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/chipseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/chipseq/atac.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/chipseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/chipseq/antibodies.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/chipseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/chipseq/peaks.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/chipseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/chipseq/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/chipseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/chipseq/macs2.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/chipseq creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq/cufflinks.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq/express.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq/cpat.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq/singlecellexperiment.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq/dexseq.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq/stringtie.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq/oncofuse.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq/rsem.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq/salmon.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq/gtf.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq/kallisto.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq/variation.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq/bcbiornaseq.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq/qc.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq/spikein.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq/count.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq/ericscript.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq/pizzly.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq/rapmap.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq/featureCounts.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq/sailfish.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq/annotate_gtf.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq/arriba.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/rnaseq/umi.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/picard copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/picard/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/picard copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/picard/utils.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/picard copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/picard/metrics.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/picard copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/distributed copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/distributed/split.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/distributed copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/distributed/runfn.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/distributed copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/distributed/multi.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/distributed copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/distributed/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/distributed copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/distributed/multitasks.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/distributed copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/distributed/ipython.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/distributed copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/distributed/clusterk.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/distributed copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/distributed/transaction.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/distributed copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/distributed/ipythontasks.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/distributed copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/distributed/clargs.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/distributed copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/distributed/objectstore.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/distributed copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/distributed/prun.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/distributed copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/distributed/resources.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/distributed creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/cwl copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/cwl/create.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/cwl copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/cwl/hpc.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/cwl copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/cwl/defs.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/cwl copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/cwl/workflow.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/cwl copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/cwl/tool.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/cwl copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/cwl/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/cwl copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/cwl/inspect.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/cwl copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/cwl/main.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/cwl copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/cwl/cwlutils.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/cwl creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/wgbsseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/wgbsseq/deduplication.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/wgbsseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/wgbsseq/trimming.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/wgbsseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/wgbsseq/align.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/wgbsseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/wgbsseq/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/wgbsseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/wgbsseq/kits.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/wgbsseq copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/wgbsseq/cpg_caller.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/wgbsseq creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/hla copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/hla/optitype.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/hla copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/hla/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/hla copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/hla/bwakit.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/hla copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/hla/groups.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/hla copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/utils.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural/wham.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural/purecn.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural/shared.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural/metasv.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural/convert.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural/regions.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural/annotate.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural/gatkcnv.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural/battenberg.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural/hydra.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural/titancna.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural/seq2c.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural/validate.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural/purple.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural/prioritize.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural/manta.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural/gridss.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural/lumpy.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural/delly.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural/pindel.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural/cn_mops.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural/cnvkit.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/structural/plot.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/workflow copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/workflow/template.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/workflow copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/workflow/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/workflow copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/workflow/xprize.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/workflow copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/workflow/stormseq.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/workflow creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/galaxy copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/galaxy/nglims.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/galaxy copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/galaxy/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/galaxy copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/galaxy/loc.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/galaxy copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/galaxy/api.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/galaxy creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/graph copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/graph/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/graph copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/graph/collectl.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/graph copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/graph/graph.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/graph creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/bed copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/bed/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/bed creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/bam copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/bam/fastq.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/bam copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/bam/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/bam copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/bam/ref.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/bam copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/bam/trim.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/bam copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/bam/fasta.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/bam copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/bam/callable.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/bam copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/bam/readstats.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/bam copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/bam/coverage.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/bam copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/bam/skewer.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/bam copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/bam/cram.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/bam copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/bam/counts.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/bam creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/log copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/log/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/log copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/log/logbook_zmqpush.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/log creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/server copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/server/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/server copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/server/run.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/server copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/server/background.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/server copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/server/main.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/server creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/srna copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/srna/mirge.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/srna copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/srna/sample.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/srna copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/srna/group.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/srna copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/srna/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/srna copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/srna/qc.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/srna copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/srna/umis.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/srna copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/srna/mirdeep.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/srna creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline/shared.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline/merge.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline/alignment.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline/run_info.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline/sample.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline/fastq.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline/tools.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline/archive.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline/genome.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline/disambiguate copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline/disambiguate/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline/disambiguate copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline/disambiguate/run.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline/disambiguate copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline/config_utils.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline/variation.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline/qcsummary.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline/version.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline/cleanbam.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline/main.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline/region.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline/datadict.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline/sra.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/pipeline/rnaseq.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline creating /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/upload copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/upload/shared.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/upload copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/upload/irods.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/upload copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/upload/__init__.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/upload copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/upload/s3.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/upload copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/upload/galaxy.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/upload copying /<>/.pybuild/cpython3_3.8_bcbio/build/bcbio/upload/filesystem.py -> /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/upload byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc/atac.py to atac.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc/damage.py to damage.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc/viral.py to viral.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc/kraken.py to kraken.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc/samtools.py to samtools.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc/picard.py to picard.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc/multiqc.py to multiqc.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc/qualimap.py to qualimap.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc/fastqc.py to fastqc.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc/atropos.py to atropos.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc/srna.py to srna.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc/preseq.py to preseq.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc/contamination.py to contamination.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc/coverage.py to coverage.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc/qsignature.py to qsignature.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc/chipseq.py to chipseq.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc/variant.py to variant.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/qc/umi.py to umi.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/install.py to install.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/illumina/transfer.py to transfer.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/illumina/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/illumina/samplesheet.py to samplesheet.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/illumina/flowcell.py to flowcell.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/illumina/demultiplex.py to demultiplex.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/illumina/machine.py to machine.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/hmmer/search.py to search.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/hmmer/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/setpath.py to setpath.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/heterogeneity/phylowgs.py to phylowgs.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/heterogeneity/chromhacks.py to chromhacks.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/heterogeneity/theta.py to theta.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/heterogeneity/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/heterogeneity/loh.py to loh.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/heterogeneity/bubbletree.py to bubbletree.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/provenance/programs.py to programs.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/provenance/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/provenance/data.py to data.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/provenance/do.py to do.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/provenance/versioncheck.py to versioncheck.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/provenance/profile.py to profile.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/provenance/diagnostics.py to diagnostics.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/provenance/system.py to system.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign/postalign.py to postalign.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign/novoalign.py to novoalign.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign/bismark.py to bismark.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign/bowtie2.py to bowtie2.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign/bowtie.py to bowtie.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign/snap.py to snap.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign/alignprep.py to alignprep.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign/bwa.py to bwa.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign/bbmap.py to bbmap.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign/hisat2.py to hisat2.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign/mosaik.py to mosaik.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign/minimap2.py to minimap2.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign/star.py to star.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign/tophat.py to tophat.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign/rtg.py to rtg.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/ngsalign/bsmap.py to bsmap.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/split.py to split.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/strelka2.py to strelka2.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/deepvariant.py to deepvariant.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/octopus.py to octopus.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/damage.py to damage.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/ensemble.py to ensemble.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/joint.py to joint.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/mutect2.py to mutect2.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/smcounter2.py to smcounter2.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/multi.py to multi.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/naming.py to naming.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/samtools.py to samtools.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/cortex.py to cortex.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/peddy.py to peddy.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/scalpel.py to scalpel.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/bedutils.py to bedutils.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/normalize.py to normalize.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/germline.py to germline.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/varscan.py to varscan.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/qsnp.py to qsnp.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/gatkfilter.py to gatkfilter.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/validate.py to validate.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/annotation.py to annotation.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/prioritize.py to prioritize.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/gatk.py to gatk.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/validateplot.py to validateplot.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/effects.py to effects.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/freebayes.py to freebayes.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/coverage.py to coverage.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/vardict.py to vardict.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/vcfutils.py to vcfutils.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/mutect.py to mutect.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/gatkjoint.py to gatkjoint.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/recalibrate.py to recalibrate.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/sentieon.py to sentieon.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/platypus.py to platypus.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/genotype.py to genotype.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/population.py to population.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/pisces.py to pisces.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/bamprep.py to bamprep.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/realign.py to realign.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/ploidy.py to ploidy.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/vfilter.py to vfilter.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/variation/vcfanno.py to vcfanno.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/broad/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/broad/picardrun.py to picardrun.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/broad/metrics.py to metrics.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/chipseq/atac.py to atac.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/chipseq/antibodies.py to antibodies.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/chipseq/peaks.py to peaks.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/chipseq/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/chipseq/macs2.py to macs2.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq/cufflinks.py to cufflinks.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq/express.py to express.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq/cpat.py to cpat.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq/singlecellexperiment.py to singlecellexperiment.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq/dexseq.py to dexseq.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq/stringtie.py to stringtie.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq/oncofuse.py to oncofuse.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq/rsem.py to rsem.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq/salmon.py to salmon.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq/gtf.py to gtf.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq/kallisto.py to kallisto.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq/variation.py to variation.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq/bcbiornaseq.py to bcbiornaseq.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq/qc.py to qc.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq/spikein.py to spikein.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq/count.py to count.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq/ericscript.py to ericscript.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq/pizzly.py to pizzly.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq/rapmap.py to rapmap.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq/featureCounts.py to featureCounts.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq/sailfish.py to sailfish.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq/annotate_gtf.py to annotate_gtf.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq/arriba.py to arriba.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/rnaseq/umi.py to umi.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/picard/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/picard/utils.py to utils.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/picard/metrics.py to metrics.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/distributed/split.py to split.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/distributed/runfn.py to runfn.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/distributed/multi.py to multi.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/distributed/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/distributed/multitasks.py to multitasks.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/distributed/ipython.py to ipython.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/distributed/clusterk.py to clusterk.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/distributed/transaction.py to transaction.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/distributed/ipythontasks.py to ipythontasks.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/distributed/clargs.py to clargs.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/distributed/objectstore.py to objectstore.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/distributed/prun.py to prun.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/distributed/resources.py to resources.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/cwl/create.py to create.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/cwl/hpc.py to hpc.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/cwl/defs.py to defs.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/cwl/workflow.py to workflow.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/cwl/tool.py to tool.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/cwl/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/cwl/inspect.py to inspect.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/cwl/main.py to main.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/cwl/cwlutils.py to cwlutils.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/wgbsseq/deduplication.py to deduplication.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/wgbsseq/trimming.py to trimming.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/wgbsseq/align.py to align.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/wgbsseq/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/wgbsseq/kits.py to kits.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/wgbsseq/cpg_caller.py to cpg_caller.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/hla/optitype.py to optitype.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/hla/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/hla/bwakit.py to bwakit.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/hla/groups.py to groups.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/utils.py to utils.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural/wham.py to wham.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural/purecn.py to purecn.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural/shared.py to shared.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural/metasv.py to metasv.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural/convert.py to convert.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural/regions.py to regions.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural/annotate.py to annotate.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural/gatkcnv.py to gatkcnv.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural/battenberg.py to battenberg.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural/hydra.py to hydra.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural/titancna.py to titancna.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural/seq2c.py to seq2c.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural/validate.py to validate.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural/purple.py to purple.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural/prioritize.py to prioritize.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural/manta.py to manta.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural/gridss.py to gridss.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural/lumpy.py to lumpy.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural/delly.py to delly.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural/pindel.py to pindel.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural/cn_mops.py to cn_mops.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural/cnvkit.py to cnvkit.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/structural/plot.py to plot.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/workflow/template.py to template.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/workflow/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/workflow/xprize.py to xprize.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/workflow/stormseq.py to stormseq.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/galaxy/nglims.py to nglims.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/galaxy/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/galaxy/loc.py to loc.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/galaxy/api.py to api.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/graph/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/graph/collectl.py to collectl.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/graph/graph.py to graph.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/bed/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/bam/fastq.py to fastq.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/bam/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/bam/ref.py to ref.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/bam/trim.py to trim.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/bam/fasta.py to fasta.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/bam/callable.py to callable.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/bam/readstats.py to readstats.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/bam/coverage.py to coverage.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/bam/skewer.py to skewer.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/bam/cram.py to cram.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/bam/counts.py to counts.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/log/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/log/logbook_zmqpush.py to logbook_zmqpush.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/server/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/server/run.py to run.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/server/background.py to background.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/server/main.py to main.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/srna/mirge.py to mirge.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/srna/sample.py to sample.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/srna/group.py to group.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/srna/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/srna/qc.py to qc.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/srna/umis.py to umis.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/srna/mirdeep.py to mirdeep.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline/shared.py to shared.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline/merge.py to merge.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline/alignment.py to alignment.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline/run_info.py to run_info.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline/sample.py to sample.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline/fastq.py to fastq.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline/tools.py to tools.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline/archive.py to archive.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline/genome.py to genome.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline/disambiguate/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline/disambiguate/run.py to run.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline/config_utils.py to config_utils.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline/variation.py to variation.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline/qcsummary.py to qcsummary.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline/version.py to version.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline/cleanbam.py to cleanbam.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline/main.py to main.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline/region.py to region.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline/datadict.py to datadict.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline/sra.py to sra.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/pipeline/rnaseq.py to rnaseq.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/upload/shared.py to shared.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/upload/irods.py to irods.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/upload/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/upload/s3.py to s3.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/upload/galaxy.py to galaxy.cpython-38.pyc byte-compiling /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio/upload/filesystem.py to filesystem.cpython-38.pyc running install_egg_info Copying bcbio_nextgen.egg-info to /<>/debian/python3-bcbio/usr/lib/python3.8/dist-packages/bcbio_nextgen-1.2.4.egg-info Skipping SOURCES.txt running install_scripts copying build/scripts-3.8/bcbio_nextgen.py -> /<>/debian/python3-bcbio/usr/bin copying build/scripts-3.8/bcbio_setup_genome.py -> /<>/debian/python3-bcbio/usr/bin copying build/scripts-3.8/bcbio_fastq_umi_prep.py -> /<>/debian/python3-bcbio/usr/bin copying build/scripts-3.8/cwltool2wdl.py -> /<>/debian/python3-bcbio/usr/bin copying build/scripts-3.8/bcbio_prepare_samples.py -> /<>/debian/python3-bcbio/usr/bin changing mode of /<>/debian/python3-bcbio/usr/bin/bcbio_nextgen.py to 755 changing mode of /<>/debian/python3-bcbio/usr/bin/bcbio_setup_genome.py to 755 changing mode of /<>/debian/python3-bcbio/usr/bin/bcbio_fastq_umi_prep.py to 755 changing mode of /<>/debian/python3-bcbio/usr/bin/cwltool2wdl.py to 755 changing mode of /<>/debian/python3-bcbio/usr/bin/bcbio_prepare_samples.py to 755 /usr/lib/python3.8/dist-packages/bcbio/heterogeneity/loh.py:325: SyntaxWarning: "is not" with a literal. Did you mean "!="? /usr/lib/python3.8/dist-packages/bcbio/heterogeneity/loh.py:356: SyntaxWarning: "is not" with a literal. Did you mean "!="? [ -d debian/bcbio/usr/bin ] || mkdir -p debian/bcbio/usr/bin mv debian/python3-bcbio/usr/bin/* debian/bcbio/usr/bin/ # To keep awareness of redundant binaries with different versions of Python #mkdir -p debian/bcbio/usr/bin #rm -rf debian/python-bcbio/usr/bin debian/python3-bcbio/usr/bin find /<>/debian/bcbio/usr/share/bcbio/config/ -name "*.sh" | xargs -r chmod +x find: ‘/<>/debian/bcbio/usr/share/bcbio/config/’: No such file or directory make[1]: Leaving directory '/<>' dh_install -O--buildsystem=pybuild install -d debian/.debhelper/generated/python3-bcbio install -d debian/bcbio/usr/share/bcbio cp --reflink=auto -a ./config debian/bcbio/usr/share/bcbio/ install -d debian/.debhelper/generated/bcbio dh_installdocs -O--buildsystem=pybuild install -d debian/python3-bcbio/usr/share/doc/python3-bcbio install -p -m0644 debian/README.Debian debian/python3-bcbio/usr/share/doc/python3-bcbio/README.Debian install -p -m0644 debian/TODO debian/python3-bcbio/usr/share/doc/python3-bcbio/TODO.Debian install -p -m0644 debian/copyright debian/python3-bcbio/usr/share/doc/python3-bcbio/copyright install -d debian/bcbio/usr/share/doc/bcbio install -p -m0644 debian/copyright debian/bcbio/usr/share/doc/bcbio/copyright dh_sphinxdoc -O--buildsystem=pybuild dh_sphinxdoc: warning: Sphinx documentation not found dh_installchangelogs -O--buildsystem=pybuild install -p -m0644 debian/changelog debian/python3-bcbio/usr/share/doc/python3-bcbio/changelog.Debian install -p -m0644 debian/changelog debian/bcbio/usr/share/doc/bcbio/changelog.Debian dh_installman -O--buildsystem=pybuild install -d debian/bcbio/usr/share/man/man1/ install -p -m0644 ./build/man/bcbio_nextgen.1 debian/bcbio/usr/share/man/man1/bcbio_nextgen.1 man-recode --to-code UTF-8 --suffix .dh-new debian/bcbio/usr/share/man/man1/bcbio_nextgen.1 mv debian/bcbio/usr/share/man/man1/bcbio_nextgen.1.dh-new debian/bcbio/usr/share/man/man1/bcbio_nextgen.1 chmod 0644 -- debian/bcbio/usr/share/man/man1/bcbio_nextgen.1 dh_python3 -O--buildsystem=pybuild D: dh_python3 dh_python3:161: version: 4.20201102 D: dh_python3 dh_python3:162: argv: ['/usr/bin/dh_python3', '-O--buildsystem=pybuild'] D: dh_python3 dh_python3:163: options: {'guess_deps': True, 'skip_private': False, 'verbose': False, 'arch': None, 'package': None, 'no_package': None, 'compile_all': False, 'vrange': None, 'regexpr': None, 'accept_upstream_versions': False, 'depends': None, 'depends_section': None, 'recommends': None, 'recommends_section': None, 'suggests': None, 'suggests_section': None, 'requires': None, 'shebang': None, 'ignore_shebangs': False, 'clean_dbg_pkg': True, 'no_ext_rename': False, 'no_shebang_rewrite': False, 'O': '--buildsystem=pybuild'} D: dh_python3 dh_python3:164: args: [] D: dh_python3 dh_python3:165: supported Python versions: 3.8,3.9 (default=3.8) D: dh_python3 debhelper:152: source=bcbio, binary packages=['python3-bcbio', 'bcbio'] D: dh_python3 dh_python3:183: processing package python3-bcbio... D: dh_python3 fs:49: moving files from debian/python3-bcbio/usr/lib/python3.8/dist-packages to debian/python3-bcbio/usr/lib/python3/dist-packages/ D: dh_python3 fs:49: moving files from debian/python3-bcbio/usr/lib/python3.9/dist-packages to debian/python3-bcbio/usr/lib/python3/dist-packages/ D: dh_python3 fs:260: package python3-bcbio details = {'requires.txt': set(), 'egg-info': set(), 'nsp.txt': set(), 'shebangs': set(), 'public_vers': {Version('3')}, 'private_dirs': {}, 'compile': True, 'ext_vers': set(), 'ext_no_version': set()} D: dh_python3 depends:117: generating dependencies for package python3-bcbio D: dh_python3 depends:275: D={'python3:any'}; R=[]; S=[]; E=[], B=[]; RT=[] D: dh_python3 dh_python3:183: processing package bcbio... D: dh_python3 fs:260: package bcbio details = {'requires.txt': set(), 'egg-info': set(), 'nsp.txt': set(), 'shebangs': {/usr/bin/python3 -Es, /usr/bin/python3 -Es, /usr/bin/python3 -Es, /usr/bin/python3, /usr/bin/python3}, 'public_vers': set(), 'private_dirs': {}, 'compile': True, 'ext_vers': set(), 'ext_no_version': set()} D: dh_python3 depends:117: generating dependencies for package bcbio D: dh_python3 depends:275: D={'python3:any'}; R=[]; S=[]; E=[], B=[]; RT=[] dh_installsystemduser -O--buildsystem=pybuild dh_lintian -O--buildsystem=pybuild install -d debian/bcbio/usr/share/lintian/overrides install -p -m0644 debian/bcbio.lintian-overrides debian/bcbio/usr/share/lintian/overrides/bcbio dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild Using 1604657793 as canonical time Normalizing debian/python3-bcbio/usr/lib/python3/dist-packages/bcbio/data/umis/harvard-indrop-v2-cb2.txt.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-bcbio/usr/lib/python3/dist-packages/bcbio/data/umis/harvard-indrop-v2-cb1.txt.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-bcbio/usr/lib/python3/dist-packages/bcbio/data/umis/harvard-indrop-v3-cb2.txt.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-bcbio/usr/lib/python3/dist-packages/bcbio/data/umis/harvard-scrb-cb1.txt.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-bcbio/usr/lib/python3/dist-packages/bcbio/data/umis/harvard-indrop-v3-cb1.txt.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-bcbio/usr/lib/python3/dist-packages/bcbio/data/umis/qiaseq-upx-384-cb1.txt.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-bcbio/usr/lib/python3/dist-packages/bcbio/data/umis/surecell-cb3.txt.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-bcbio/usr/lib/python3/dist-packages/bcbio/data/umis/surecell-cb2.txt.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-bcbio/usr/lib/python3/dist-packages/bcbio/data/umis/harvard-indrop-v3-sample_barcodes.txt.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-bcbio/usr/lib/python3/dist-packages/bcbio/data/umis/icell8-cb1.txt.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-bcbio/usr/lib/python3/dist-packages/bcbio/data/umis/10x_v2-cb1.txt.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-bcbio/usr/lib/python3/dist-packages/bcbio/data/umis/qiaseq-upx-96-cb1.txt.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-bcbio/usr/lib/python3/dist-packages/bcbio/data/umis/surecell-cb1.txt.gz using File::StripNondeterminism::handlers::gzip dh_compress -O--buildsystem=pybuild cd debian/python3-bcbio cd debian/bcbio chmod a-x usr/share/doc/python3-bcbio/TODO.Debian usr/share/doc/python3-bcbio/changelog.Debian chmod a-x usr/share/doc/bcbio/changelog.Debian usr/share/man/man1/bcbio_nextgen.1 gzip -9nf usr/share/doc/bcbio/changelog.Debian usr/share/man/man1/bcbio_nextgen.1 gzip -9nf usr/share/doc/python3-bcbio/TODO.Debian usr/share/doc/python3-bcbio/changelog.Debian cd '/<>' cd '/<>' dh_fixperms -O--buildsystem=pybuild find debian/python3-bcbio ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/bcbio ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/bcbio/usr/share/doc -type f -a -true -a ! -regex 'debian/bcbio/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-bcbio/usr/share/doc -type f -a -true -a ! -regex 'debian/python3-bcbio/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/bcbio/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/python3-bcbio/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/bcbio/usr/share/man debian/bcbio/usr/share/lintian/overrides -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-bcbio -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/bcbio -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/bcbio/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x find debian/python3-bcbio/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w dh_missing -O--buildsystem=pybuild dh_installdeb -O--buildsystem=pybuild install -d debian/python3-bcbio/DEBIAN printf '#!/bin/sh\nset -e\n' > debian/python3-bcbio/DEBIAN/postinst cat debian/python3-bcbio.postinst.debhelper >> debian/python3-bcbio/DEBIAN/postinst chmod 0755 -- debian/python3-bcbio/DEBIAN/postinst printf '#!/bin/sh\nset -e\n' > debian/python3-bcbio/DEBIAN/prerm cat debian/python3-bcbio.prerm.debhelper >> debian/python3-bcbio/DEBIAN/prerm chmod 0755 -- debian/python3-bcbio/DEBIAN/prerm install -d debian/bcbio/DEBIAN printf '#!/bin/sh\nset -e\n' > debian/bcbio/DEBIAN/postinst cat debian/bcbio.postinst.debhelper >> debian/bcbio/DEBIAN/postinst chmod 0755 -- debian/bcbio/DEBIAN/postinst printf '#!/bin/sh\nset -e\n' > debian/bcbio/DEBIAN/prerm cat debian/bcbio.prerm.debhelper >> debian/bcbio/DEBIAN/prerm chmod 0755 -- debian/bcbio/DEBIAN/prerm dh_gencontrol -O--buildsystem=pybuild echo misc:Depends= >> debian/python3-bcbio.substvars echo misc:Pre-Depends= >> debian/python3-bcbio.substvars dpkg-gencontrol -ppython3-bcbio -ldebian/changelog -Tdebian/python3-bcbio.substvars -Pdebian/python3-bcbio echo misc:Depends= >> debian/bcbio.substvars echo misc:Pre-Depends= >> debian/bcbio.substvars dpkg-gencontrol -pbcbio -ldebian/changelog -Tdebian/bcbio.substvars -Pdebian/bcbio chmod 0644 -- debian/bcbio/DEBIAN/control chmod 0644 -- debian/python3-bcbio/DEBIAN/control dh_md5sums -O--buildsystem=pybuild cd debian/bcbio >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums cd debian/python3-bcbio >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/bcbio/DEBIAN/md5sums chmod 0644 -- debian/python3-bcbio/DEBIAN/md5sums dh_builddeb -O--buildsystem=pybuild dpkg-deb --root-owner-group --build debian/python3-bcbio .. dpkg-deb --root-owner-group --build debian/bcbio .. INFO: pkgstriptranslations version 146 INFO: pkgstriptranslations version 146 pkgstriptranslations: processing python3-bcbio (in debian/python3-bcbio); do_strip: , oemstrip: pkgstriptranslations: processing bcbio (in debian/bcbio); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/python3-bcbio/DEBIAN/control, package python3-bcbio, directory debian/python3-bcbio pkgstripfiles: Truncating usr/share/doc/python3-bcbio/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 4 cpus) for package python3-bcbio ... pkgstripfiles: No PNG files. dpkg-deb: building package 'python3-bcbio' in '../python3-bcbio_1.2.4-2_all.deb'. pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/bcbio/DEBIAN/control, package bcbio, directory debian/bcbio Searching for duplicated docs in dependency python3-bcbio... symlinking changelog.Debian.gz in bcbio to file in python3-bcbio pkgstripfiles: Running PNG optimization (using 4 cpus) for package bcbio ... pkgstripfiles: No PNG files. dpkg-deb: building package 'bcbio' in '../bcbio_1.2.4-2_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary -mLaunchpad Build Daemon >../bcbio_1.2.4-2_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-source: info: using options from bcbio-1.2.4/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2020-11-16T10:53:49Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ bcbio_1.2.4-2_amd64.changes: ---------------------------- Format: 1.8 Date: Fri, 06 Nov 2020 11:16:33 +0100 Source: bcbio Binary: bcbio python3-bcbio Architecture: all Version: 1.2.4-2 Distribution: hirsute-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Andreas Tille Description: bcbio - toolkit for analysing high-throughput sequencing data python3-bcbio - library for analysing high-throughput sequencing data Closes: 973804 Changes: bcbio (1.2.4-2) unstable; urgency=medium . * Team upload. * Avoid calling Git - use Debian version to specify the code version Closes: #973804 Checksums-Sha1: fe934915433b9d13c891171d0eca9b9d4fb3bd1f 39484 bcbio_1.2.4-2_all.deb 36fcfec0bfbd8f19aada521cd7c98af6b6a7e283 15150 bcbio_1.2.4-2_amd64.buildinfo 8975c57186c622e8530c92a8938db8b8f535af68 1220604 python3-bcbio_1.2.4-2_all.deb Checksums-Sha256: 4fca21b3426c379dc6e9f43152a60962cf7b9101d397d82568d2675e0b4bf185 39484 bcbio_1.2.4-2_all.deb 719ab896fa12076bba249da2f9222e5d3606963d1e5cca33470e5ff762a79da9 15150 bcbio_1.2.4-2_amd64.buildinfo b0eb3b039f2deef68a1b2381c568b37cedfedb2a63e72cf8e5b6733c21118cba 1220604 python3-bcbio_1.2.4-2_all.deb Files: 0b605dafa81ab33f749d23c11e558162 39484 contrib/science optional bcbio_1.2.4-2_all.deb 1dffb96e80d43d5c9ae5f6eba4e51074 15150 contrib/science optional bcbio_1.2.4-2_amd64.buildinfo 86e09350f5e5cc8f5407f7e566e8fe13 1220604 contrib/python optional python3-bcbio_1.2.4-2_all.deb +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: bcbio Binary: bcbio python3-bcbio Architecture: all Version: 1.2.4-2 Checksums-Md5: 0b605dafa81ab33f749d23c11e558162 39484 bcbio_1.2.4-2_all.deb 86e09350f5e5cc8f5407f7e566e8fe13 1220604 python3-bcbio_1.2.4-2_all.deb Checksums-Sha1: fe934915433b9d13c891171d0eca9b9d4fb3bd1f 39484 bcbio_1.2.4-2_all.deb 8975c57186c622e8530c92a8938db8b8f535af68 1220604 python3-bcbio_1.2.4-2_all.deb Checksums-Sha256: 4fca21b3426c379dc6e9f43152a60962cf7b9101d397d82568d2675e0b4bf185 39484 bcbio_1.2.4-2_all.deb b0eb3b039f2deef68a1b2381c568b37cedfedb2a63e72cf8e5b6733c21118cba 1220604 python3-bcbio_1.2.4-2_all.deb Build-Origin: Ubuntu Build-Architecture: amd64 Build-Date: Mon, 16 Nov 2020 10:53:49 +0000 Build-Path: /<> Build-Tainted-By: usr-local-has-programs Installed-Build-Depends: ant (= 1.10.9-1), ant-optional (= 1.10.9-1), atropos (= 1.1.24+dfsg-1build1), autoconf (= 2.69-11.1), automake (= 1:1.16.2-4ubuntu1), autopoint (= 0.19.8.1-10build1), autotools-dev (= 20180224.1), base-files (= 11ubuntu16), base-passwd (= 3.5.48), bash (= 5.1~rc2-1ubuntu1), bcftools (= 1.11-1), bedtools (= 2.29.2+dfsg-3build2), binutils (= 2.35.1-2ubuntu1), binutils-common (= 2.35.1-2ubuntu1), binutils-x86-64-linux-gnu (= 2.35.1-2ubuntu1), biobambam2 (= 2.0.173+ds-1), bsdextrautils (= 2.36-3ubuntu1), bsdutils (= 1:2.36-3ubuntu1), build-essential (= 12.8ubuntu3), bzip2 (= 1.0.8-4ubuntu2), ca-certificates (= 20200601), ca-certificates-java (= 20190405ubuntu1), coreutils (= 8.32-4ubuntu1), cpp (= 4:10.2.0-1ubuntu1), cpp-10 (= 10.2.0-17ubuntu1), cython3 (= 0.29.21-1ubuntu2), dash (= 0.5.11+git20200708+dd9ef66-2), debconf (= 1.5.74), debhelper (= 13.2.1ubuntu1), debianutils (= 4.11.2), default-jre-headless (= 2:1.11-72), dh-autoreconf (= 19), dh-python (= 4.20201102), dh-strip-nondeterminism (= 1.9.0-1), diffutils (= 1:3.7-3ubuntu1), docutils-common (= 0.16+dfsg-3), dpkg (= 1.20.5ubuntu3), dpkg-dev (= 1.20.5ubuntu3), dwz (= 0.13-5), file (= 1:5.38-5), findutils (= 4.7.0-1ubuntu2), fontconfig-config (= 2.13.1-4.2ubuntu2), fonts-font-awesome (= 5.0.10+really4.7.0~dfsg-2), fonts-lato (= 2.0-2), fonts-lyx (= 2.3.5.2-1), g++ (= 4:10.2.0-1ubuntu1), g++-10 (= 10.2.0-17ubuntu1), gcc (= 4:10.2.0-1ubuntu1), gcc-10 (= 10.2.0-17ubuntu1), gcc-10-base (= 10.2.0-17ubuntu1), gettext (= 0.19.8.1-10build1), gettext-base (= 0.19.8.1-10build1), gffread (= 0.12.1-1), grabix (= 0.1.7-2build1), grep (= 3.6-1), groff-base (= 1.22.4-5), gzip (= 1.10-2ubuntu1), hisat2 (= 2.2.1-1), hostname (= 3.23), init-system-helpers (= 1.58), intltool-debian (= 0.35.0+20060710.5), java-common (= 0.72), libacl1 (= 2.2.53-8), libactivation-java (= 1.2.0-2), libaopalliance-java (= 20070526-6), libapache-pom-java (= 18-1), libarchive-zip-perl (= 1.68-1), libargs4j-java (= 2.33-1), libasan6 (= 10.2.0-17ubuntu1), libasn1-8-heimdal (= 7.7.0+dfsg-2), libasound2 (= 1.2.3.2-1ubuntu4), libasound2-data (= 1.2.3.2-1ubuntu4), libatinject-jsr330-api-java (= 1.0+ds1-5), libatomic1 (= 10.2.0-17ubuntu1), libattr1 (= 1:2.4.48-5), libaudit-common (= 1:2.8.5-3ubuntu2), libaudit1 (= 1:2.8.5-3ubuntu2), libavahi-client3 (= 0.8-3ubuntu2), libavahi-common-data (= 0.8-3ubuntu2), libavahi-common3 (= 0.8-3ubuntu2), libbarclay-java (= 2.1.0-3), libbinutils (= 2.35.1-2ubuntu1), libblas3 (= 3.9.0-3ubuntu1), libblkid1 (= 2.36-3ubuntu1), libboost-filesystem1.71.0 (= 1.71.0-6ubuntu10), libboost-iostreams1.71.0 (= 1.71.0-6ubuntu10), libboost-program-options1.71.0 (= 1.71.0-6ubuntu10), libbrotli1 (= 1.0.9-2build1), libbsd0 (= 0.10.0-1), libbz2-1.0 (= 1.0.8-4ubuntu2), libc-bin (= 2.32-0ubuntu5), libc-dev-bin (= 2.32-0ubuntu5), libc6 (= 2.32-0ubuntu5), libc6-dev (= 2.32-0ubuntu5), libcap-ng0 (= 0.7.9-2.2), libcc1-0 (= 10.2.0-17ubuntu1), libcdi-api-java (= 1.2-2), libcodemodel-java (= 2.6+jaxb2.3.0.1-9), libcom-err2 (= 1.45.6-1ubuntu1), libcommons-cli-java (= 1.4-2), libcommons-codec-java (= 1.14-1), libcommons-compress-java (= 1.20-1), libcommons-io-java (= 2.8.0-1), libcommons-jexl2-java (= 2.1.1-4), libcommons-lang3-java (= 3.11-1), libcommons-logging-java (= 1.2-2), libcommons-math3-java (= 3.6.1-3), libcommons-parent-java (= 43-1), libcroco3 (= 0.6.13-1), libcrypt-dev (= 1:4.4.17-1ubuntu1), libcrypt1 (= 1:4.4.17-1ubuntu1), libctf-nobfd0 (= 2.35.1-2ubuntu1), libctf0 (= 2.35.1-2ubuntu1), libcups2 (= 2.3.3-3ubuntu1), libcurl3-gnutls (= 7.72.0-1ubuntu1), libdb5.3 (= 5.3.28+dfsg1-0.6ubuntu3), libdbus-1-3 (= 1.12.20-1ubuntu1), libdebconfclient0 (= 0.255ubuntu1), libdebhelper-perl (= 13.2.1ubuntu1), libdeflate0 (= 1.6-1), libdom4j-java (= 2.1.3-1), libdpkg-perl (= 1.20.5ubuntu3), libdtd-parser-java (= 1.2~svn20110404-1), libelf1 (= 0.182-1), libexpat1 (= 2.2.10-1), libfastinfoset-java (= 1.2.12-3), libffi8ubuntu1 (= 3.4~20200819gead65ca871-0ubuntu3), libfile-stripnondeterminism-perl (= 1.9.0-1), libfontconfig1 (= 2.13.1-4.2ubuntu2), libfreemarker-java (= 2.3.23-9), libfreetype6 (= 2.10.2+dfsg-4), libgatk-native-bindings-java (= 1.0.0-2), libgcc-10-dev (= 10.2.0-17ubuntu1), libgcc-s1 (= 10.2.0-17ubuntu1), libgclib2 (= 0.11.10+ds-2), libgcrypt20 (= 1.8.7-2ubuntu1), libgdbm-compat4 (= 1.18.1-5.1), libgdbm6 (= 1.18.1-5.1), libgeronimo-annotation-1.3-spec-java (= 1.0-1), libgeronimo-interceptor-3.0-spec-java (= 1.0.1-4fakesync), libgfortran5 (= 10.2.0-17ubuntu1), libgkl-java (= 0.8.6+dfsg-1), libgkl-jni (= 0.8.6+dfsg-1), libglib2.0-0 (= 2.66.2-1), libgmp10 (= 2:6.2.0+dfsg-6ubuntu1), libgnutls30 (= 3.6.15-4ubuntu2), libgomp1 (= 10.2.0-17ubuntu1), libgoogle-gson-java (= 2.8.6-1), libgpg-error0 (= 1.38-2), libgssapi-krb5-2 (= 1.17-10), libgssapi3-heimdal (= 7.7.0+dfsg-2), libguava-java (= 29.0-6), libguice-java (= 4.2.3-1), libhcrypto4-heimdal (= 7.7.0+dfsg-2), libheimbase1-heimdal (= 7.7.0+dfsg-2), libheimntlm0-heimdal (= 7.7.0+dfsg-2), libhogweed6 (= 3.6-2), libhts3 (= 1.11-2), libhtscodecs2 (= 0.5-3), libhtsjdk-java (= 2.23.0+dfsg-2), libhttpclient-java (= 4.5.13-1), libhttpcore-java (= 4.4.13-1), libhx509-5-heimdal (= 7.7.0+dfsg-2), libicu67 (= 67.1-4), libidn2-0 (= 2.3.0-3), libimagequant0 (= 2.12.2-1.1), libisl22 (= 0.22.1-1), libistack-commons-java (= 3.0.6-4), libitm1 (= 10.2.0-17ubuntu1), libjaxb-api-java (= 2.3.1-1), libjaxb-java (= 2.3.0.1-9), libjaxen-java (= 1.1.6-4), libjbig0 (= 2.1-3.1build1), libjemalloc2 (= 5.2.1-1ubuntu1), libjoptsimple-java (= 5.0.4-4), libjpeg-turbo8 (= 2.0.3-0ubuntu2), libjpeg8 (= 8c-2ubuntu8), libjs-jquery (= 3.5.1+dfsg+~3.5.4-1), libjs-jquery-ui (= 1.12.1+dfsg-7), libjs-sphinxdoc (= 3.3.1-1), libjs-underscore (= 1.9.1~dfsg-1), libjsoup-java (= 1.10.2-2), libjsr305-java (= 0.1~+svn49-11), libk5crypto3 (= 1.17-10), libkeyutils1 (= 1.6.1-2ubuntu1), libkrb5-26-heimdal (= 7.7.0+dfsg-2), libkrb5-3 (= 1.17-10), libkrb5support0 (= 1.17-10), liblapack3 (= 3.9.0-3ubuntu1), liblbfgsb0 (= 3.0+dfsg.3-9), liblcms2-2 (= 2.9-4), libldap-2.4-2 (= 2.4.53+dfsg-1ubuntu4), liblightcouch-java (= 0.0.6-1), liblog4j2-java (= 2.11.2-1), liblsan0 (= 10.2.0-17ubuntu1), liblz4-1 (= 1.9.2-2), liblzma5 (= 5.2.4-1ubuntu1), libmagic-mgc (= 1:5.38-5), libmagic1 (= 1:5.38-5), libmaus2-2 (= 2.0.743+dfsg-1), libmaven-file-management-java (= 3.0.0-1), libmaven-parent-java (= 31-2), libmaven-resolver-java (= 1.4.2-1), libmaven-shared-io-java (= 3.0.0-3), libmaven-shared-utils-java (= 3.3.0-1), libmaven3-core-java (= 3.6.3-1), libmongodb-java (= 3.6.3-2), libmount1 (= 2.36-3ubuntu1), libmpc3 (= 1.2.0-1), libmpfr6 (= 4.1.0-3), libncurses6 (= 6.2+20200918-1), libncursesw6 (= 6.2+20200918-1), libnettle8 (= 3.6-2), libnghttp2-14 (= 1.41.0-3), libngs-java (= 2.10.5-1), libngs-sdk-dev (= 2.10.5-1), libngs-sdk2 (= 2.10.5-1), libnsl-dev (= 1.3.0-0ubuntu3), libnsl2 (= 1.3.0-0ubuntu3), libnspr4 (= 2:4.29-1), libnss3 (= 2:3.55-1ubuntu3), libp11-kit0 (= 0.23.21-2build1), libpam-modules (= 1.3.1-5ubuntu6), libpam-modules-bin (= 1.3.1-5ubuntu6), libpam-runtime (= 1.3.1-5ubuntu6), libpam0g (= 1.3.1-5ubuntu6), libpcre2-8-0 (= 10.34-7), libpcre3 (= 2:8.39-13), libpcsclite1 (= 1.9.0-1), libperl5.32 (= 5.32.0-5), libpicard-java (= 2.23.7+dfsg-1), libpipeline1 (= 1.5.3-1), libplexus-archiver-java (= 3.6.0-2), libplexus-cipher-java (= 1.7-3), libplexus-classworlds-java (= 2.6.0-1), libplexus-component-annotations-java (= 2.1.0-1), libplexus-interpolation-java (= 1.26-1), libplexus-io-java (= 3.2.0-1), libplexus-sec-dispatcher-java (= 1.4-4), libplexus-utils2-java (= 3.3.0-1), libpng16-16 (= 1.6.37-3), libprocps8 (= 2:3.3.16-5ubuntu2), libpsl5 (= 0.21.0-1.1ubuntu1), libpython3-stdlib (= 3.8.6-1), libpython3.8-minimal (= 3.8.6-1), libpython3.8-stdlib (= 3.8.6-1), libpython3.9-minimal (= 3.9.0-5), libpython3.9-stdlib (= 3.9.0-5), libquadmath0 (= 10.2.0-17ubuntu1), libreadline8 (= 8.1~rc2-2), librelaxng-datatype-java (= 1.0+ds1-3), librngom-java (= 2.3.0.1-9), libroken18-heimdal (= 7.7.0+dfsg-2), librtmp1 (= 2.4+20151223.gitfa8646d.1-2build2), libsasl2-2 (= 2.1.27+dfsg-2ubuntu1), libsasl2-modules-db (= 2.1.27+dfsg-2ubuntu1), libseccomp2 (= 2.4.3-1ubuntu5), libselinux1 (= 3.1-2build1), libsigsegv2 (= 2.12-2build1), libsisu-guice-java (= 4.2.0-1), libsisu-inject-java (= 0.3.3-1), libsisu-ioc-java (= 2.3.0-11), libsisu-plexus-java (= 0.3.3-3), libslf4j-java (= 1.7.25-3), libsmartcols1 (= 2.36-3ubuntu1), libsnappy-java (= 1.1.7.7-1), libsnappy-jni (= 1.1.7.7-1), libsnappy1v5 (= 1.1.8-1build1), libsqlite3-0 (= 3.33.0-1), libssh-4 (= 0.9.4-1ubuntu3), libssl1.1 (= 1.1.1f-1ubuntu4), libstaden-read14 (= 1.14.13-4), libstax-ex-java (= 1.7.8-3), libstdc++-10-dev (= 10.2.0-17ubuntu1), libstdc++6 (= 10.2.0-17ubuntu1), libstreambuffer-java (= 1.5.4-1), libsub-override-perl (= 0.09-2), libsystemd0 (= 246.6-2ubuntu1), libtasn1-6 (= 4.16.0-2), libtbb2 (= 2020.3-1), libtiff5 (= 4.1.0+git191117-2build1), libtinfo6 (= 6.2+20200918-1), libtirpc-common (= 1.2.6-3), libtirpc-dev (= 1.2.6-3), libtirpc3 (= 1.2.6-3), libtool (= 2.4.6-14), libtsan0 (= 10.2.0-17ubuntu1), libtxw2-java (= 2.3.0.1-9), libubsan1 (= 10.2.0-17ubuntu1), libuchardet0 (= 0.0.7-1), libudev1 (= 246.6-2ubuntu1), libunistring2 (= 0.9.10-4), libuuid1 (= 2.36-3ubuntu1), libwagon-http-java (= 3.3.4-1), libwagon-provider-api-java (= 3.3.4-1), libwebp6 (= 0.6.1-2), libwebpdemux2 (= 0.6.1-2), libwebpmux3 (= 0.6.1-2), libwind0-heimdal (= 7.7.0+dfsg-2), libx11-6 (= 2:1.6.12-1), libx11-data (= 2:1.6.12-1), libxau6 (= 1:1.0.9-0ubuntu1), libxcb1 (= 1.14-2), libxdmcp6 (= 1:1.1.3-0ubuntu1), libxext6 (= 2:1.3.4-0ubuntu1), libxi6 (= 2:1.7.10-1), libxml-commons-resolver1.1-java (= 1.2-11), libxml2 (= 2.9.10+dfsg-6.2), libxrender1 (= 1:0.9.10-1), libxsom-java (= 2.3.0.1-9), libxtst6 (= 2:1.2.3-1), libxz-java (= 1.8-2), libyaml-0-2 (= 0.2.2-1), libzstd1 (= 1.4.5+dfsg-4), linux-libc-dev (= 5.8.0-26.27), login (= 1:4.8.1-1ubuntu6), lsb-base (= 11.1.0ubuntu2), m4 (= 1.4.18-4), make (= 4.3-4ubuntu1), man-db (= 2.9.3-2), mawk (= 1.3.4.20200120-2), mime-support (= 3.64ubuntu1), mosdepth (= 0.3.1+ds-2), multiqc (= 1.9+dfsg-2), ncurses-base (= 6.2+20200918-1), ncurses-bin (= 6.2+20200918-1), node-jquery (= 3.5.1+dfsg+~3.5.4-1), openjdk-11-jre-headless (= 11.0.9.1+1-0ubuntu1), openssl (= 1.1.1f-1ubuntu4), patch (= 2.7.6-6), perl (= 5.32.0-5), perl-base (= 5.32.0-5), perl-modules-5.32 (= 5.32.0-5), po-debconf (= 1.0.21), procps (= 2:3.3.16-5ubuntu2), python-babel-localedata (= 2.8.0+dfsg.1-4), python-matplotlib-data (= 3.3.2-2), python3 (= 3.8.6-1), python3-alabaster (= 0.7.8-1.1), python3-all (= 3.8.6-1), python3-argcomplete (= 1.8.1-1.3ubuntu1), python3-argh (= 0.26.2-1.1), python3-atomicwrites (= 1.4.0-1), python3-attr (= 20.3.0-1), python3-babel (= 2.8.0+dfsg.1-4), python3-biopython (= 1.78+dfsg-3build2), python3-certifi (= 2020.6.20-1), python3-chardet (= 3.0.4-7), python3-click (= 7.1.2-1), python3-colorama (= 0.4.3-1build1), python3-coloredlogs (= 7.3-2), python3-colormath (= 3.0.0-1), python3-cycler (= 0.10.0-3), python3-cyvcf2 (= 0.20.9-1), python3-dateutil (= 2.8.1-4), python3-decorator (= 4.4.2-0ubuntu1), python3-distutils (= 3.9.0-1), python3-docutils (= 0.16+dfsg-3), python3-future (= 0.18.2-4ubuntu1), python3-geneimpacts (= 0.3.7-3), python3-gffutils (= 0.10.1-2), python3-humanfriendly (= 8.2-3), python3-idna (= 2.10-1), python3-imagesize (= 1.2.0-2), python3-importlib-metadata (= 1.6.0-2), python3-jinja2 (= 2.11.2-1), python3-joblib (= 0.17.0-0.1), python3-kiwisolver (= 1.3.1-1), python3-lib2to3 (= 3.9.0-1), python3-logbook (= 1.5.3-4), python3-lzstring (= 1.0.4-1), python3-markdown (= 3.3.3-1), python3-markupsafe (= 1.1.1-1build1), python3-matplotlib (= 3.3.2-2), python3-minimal (= 3.8.6-1), python3-mock (= 4.0.2-1), python3-more-itertools (= 4.2.0-3), python3-networkx (= 2.4-4ubuntu1), python3-nose (= 1.3.7-7), python3-numpy (= 1:1.19.4-1), python3-packaging (= 20.4-1), python3-pandas (= 1.1.4+dfsg-1), python3-pandas-lib (= 1.1.4+dfsg-1), python3-pbr (= 5.4.5-0ubuntu1), python3-pil (= 8.0.1-1), python3-pkg-resources (= 50.3.0-1), python3-pluggy (= 0.13.0-5), python3-ply (= 3.11-4), python3-psutil (= 5.7.3-1), python3-py (= 1.9.0-2), python3-pybedtools (= 0.8.0-5build1), python3-pyfaidx (= 0.5.9.1-1), python3-pygments (= 2.7.1+dfsg-1), python3-pyparsing (= 2.4.7-1), python3-pysam (= 0.15.4+ds-3build1), python3-pytest (= 4.6.11-1), python3-pytest-mock (= 1.10.4-3), python3-reportlab (= 3.5.55-1), python3-reportlab-accel (= 3.5.55-1), python3-requests (= 2.24.0+dfsg-1), python3-roman (= 2.0.0-5), python3-scipy (= 1.5.4-1), python3-setuptools (= 50.3.0-1), python3-simplejson (= 3.17.0-1build1), python3-six (= 1.15.0-2), python3-snowballstemmer (= 2.0.0-2), python3-spectra (= 0.0.11-2), python3-sphinx (= 3.3.1-1), python3-toolz (= 0.9.0-1.1), python3-tornado (= 6.1.0-1), python3-tz (= 2020.4-2), python3-urllib3 (= 1.25.11-1), python3-vcf (= 0.6.8+git20170215.476169c-7build1), python3-wcwidth (= 0.1.9+dfsg1-2), python3-yaml (= 5.3.1-3), python3-zipp (= 1.0.0-3), python3.8 (= 3.8.6-1), python3.8-minimal (= 3.8.6-1), python3.9 (= 3.9.0-5), python3.9-minimal (= 3.9.0-5), readline-common (= 8.1~rc2-2), rna-star (= 2.7.6a+dfsg-1), rpcsvc-proto (= 1.4.2-0ubuntu4), salmon (= 1.3.0+ds1-3), samblaster (= 0.1.26-1), samtools (= 1.11-1), sed (= 4.7-1ubuntu1), sensible-utils (= 0.0.13), seqtk (= 1.3-1), sgml-base (= 1.30), sphinx-common (= 3.3.1-1), sphinx-rtd-theme-common (= 0.5.0+dfsg-1ubuntu1), sysvinit-utils (= 2.96-5ubuntu1), tabix (= 1.11-2), tar (= 1.30+dfsg-7), tophat-recondition (= 1.4-3), ttf-bitstream-vera (= 1.10-8), tzdata (= 2020d-1ubuntu1), ucf (= 3.0043), util-linux (= 2.36-3ubuntu1), wham-align (= 0.1.5-3.1), x11-common (= 1:7.7+19ubuntu15), xml-core (= 0.18+nmu1), xonsh (= 0.9.24+dfsg-1), xz-utils (= 5.2.4-1ubuntu1), zlib1g (= 1:1.2.11.dfsg-2ubuntu4), zlib1g-dev (= 1:1.2.11.dfsg-2ubuntu4) Environment: DEB_BUILD_OPTIONS="parallel=4" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1604657793" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ bcbio_1.2.4-2_all.deb --------------------- new Debian package, version 2.0. size 39484 bytes: control archive=4276 bytes. 1858 bytes, 32 lines control 8099 bytes, 94 lines md5sums 235 bytes, 12 lines * postinst #!/bin/sh 384 bytes, 12 lines * prerm #!/bin/sh Package: bcbio Version: 1.2.4-2 Architecture: all Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 245 Depends: python3:any, python3-bcbio Recommends: bcftools, cnvkit, cufflinks, delly, fastqc, freebayes, grabix, libvcflib-tools, macs, pythonpy, rna-star, hisat2, sambamba, samblaster, samtools, salmon, stringtie, subread, tabix, umis, varscan, wget, wham-align Suggests: toil, cwltool, kallisto, bcbio-doc, qualimap, libglu1-mesa, tophat2, tophat-recondition, r-other-wasabi Section: contrib/science Priority: optional Homepage: https://github.com/bcbio/bcbio-nextgen Description: toolkit for analysing high-throughput sequencing data This package installs the command line tools of the bcbio-nextgen toolkit implementing best-practice pipelines for fully automated high throughput sequencing analysis. . A high-level configuration file specifies inputs and analysis parameters to drive a parallel pipeline that handles distributed execution, idempotent processing restarts and safe transactional steps. The project contributes a shared community resource that handles the data processing component of sequencing analysis, providing researchers with more time to focus on the downstream biology. . This package builds and having it in Debian unstable helps the Debian developers to synchronize their efforts. But unless a series of external dependencies are not installed manually, amongst which for instance is the tool mosdepth for which much of the nim and go libraries still need to be brought to Debian to make it compile, or also vienna-rna, the functionality of bcbio in Debian is only a shadow of itself. Please use the official distribution of bcbio for the time being, which means "use conda". drwxr-xr-x root/root 0 2020-11-06 10:16 ./ drwxr-xr-x root/root 0 2020-11-06 10:16 ./usr/ drwxr-xr-x root/root 0 2020-11-06 10:16 ./usr/bin/ -rwxr-xr-x root/root 11506 2020-11-06 10:16 ./usr/bin/bcbio_fastq_umi_prep.py -rwxr-xr-x root/root 11183 2020-11-06 10:16 ./usr/bin/bcbio_nextgen.py -rwxr-xr-x root/root 8938 2020-11-06 10:16 ./usr/bin/bcbio_prepare_samples.py -rwxr-xr-x root/root 15179 2020-11-06 10:16 ./usr/bin/bcbio_setup_genome.py -rwxr-xr-x root/root 14160 2020-11-06 10:16 ./usr/bin/cwltool2wdl.py drwxr-xr-x root/root 0 2020-11-06 10:16 ./usr/share/ drwxr-xr-x root/root 0 2020-11-06 10:16 ./usr/share/bcbio/ drwxr-xr-x root/root 0 2020-09-21 19:28 ./usr/share/bcbio/config/ -rw-r--r-- root/root 1093 2020-09-21 19:28 ./usr/share/bcbio/config/bcbio_sample.yaml -rw-r--r-- root/root 2090 2020-09-21 19:28 ./usr/share/bcbio/config/bcbio_system.yaml drwxr-xr-x root/root 0 2020-09-21 19:28 ./usr/share/bcbio/config/examples/ -rw-r--r-- root/root 1002 2020-09-21 19:28 ./usr/share/bcbio/config/examples/HCC2218-sv-getdata.sh -rw-r--r-- root/root 1292 2020-09-21 19:28 ./usr/share/bcbio/config/examples/HCC2218-sv.yaml -rw-r--r-- root/root 2586 2020-09-21 19:28 ./usr/share/bcbio/config/examples/NA12878-ensemble.yaml -rw-r--r-- root/root 791 2020-09-21 19:28 ./usr/share/bcbio/config/examples/NA12878-exome-methodcmp-getdata.sh -rw-r--r-- root/root 781 2020-09-21 19:28 ./usr/share/bcbio/config/examples/NA12878-exome-methodcmp.yaml -rw-r--r-- root/root 573 2020-09-21 19:28 ./usr/share/bcbio/config/examples/NA12878-hg38-validate-getdata.sh -rw-r--r-- root/root 5854 2020-09-21 19:28 ./usr/share/bcbio/config/examples/NA12878-hg38-validate.yaml -rw-r--r-- root/root 816 2020-09-21 19:28 ./usr/share/bcbio/config/examples/NA12878-illumina.yaml -rw-r--r-- root/root 1090 2020-09-21 19:28 ./usr/share/bcbio/config/examples/NA12878-sv-getdata.sh -rw-r--r-- root/root 970 2020-09-21 19:28 ./usr/share/bcbio/config/examples/NA12878-sv.yaml -rw-r--r-- root/root 7390 2020-09-21 19:28 ./usr/share/bcbio/config/examples/NA12878-trio-wgs-joint.yaml -rw-r--r-- root/root 665 2020-09-21 19:28 ./usr/share/bcbio/config/examples/NA12878-trio-wgs-validate-getdata.sh -rw-r--r-- root/root 1559 2020-09-21 19:28 ./usr/share/bcbio/config/examples/NA12878-trio-wgs-validate.yaml -rw-r--r-- root/root 1178 2020-09-21 19:28 ./usr/share/bcbio/config/examples/NA12878.validate.sh -rw-r--r-- root/root 1424 2020-09-21 19:28 ./usr/share/bcbio/config/examples/NA24385-10x-getdata.sh -rw-r--r-- root/root 1128 2020-09-21 19:28 ./usr/share/bcbio/config/examples/NA24385-10x.yaml drwxr-xr-x root/root 0 2020-09-21 19:28 ./usr/share/bcbio/config/examples/archived/ -rw-r--r-- root/root 768 2020-09-21 19:28 ./usr/share/bcbio/config/examples/archived/NA12878-trio-sv-getdata.sh -rw-r--r-- root/root 1637 2020-09-21 19:28 ./usr/share/bcbio/config/examples/archived/NA12878-trio-sv.yaml -rw-r--r-- root/root 1767 2020-09-21 19:28 ./usr/share/bcbio/config/examples/cancer-dream-syn3-getdata.sh -rw-r--r-- root/root 1817 2020-09-21 19:28 ./usr/share/bcbio/config/examples/cancer-dream-syn3.yaml -rw-r--r-- root/root 3273 2020-09-21 19:28 ./usr/share/bcbio/config/examples/cancer-dream-syn4.yaml -rw-r--r-- root/root 1020 2020-09-21 19:28 ./usr/share/bcbio/config/examples/cancer-giab-na12878-na24385-getdata.sh -rw-r--r-- root/root 1288 2020-09-21 19:28 ./usr/share/bcbio/config/examples/cancer-giab-na12878-na24385.yaml -rw-r--r-- root/root 655 2020-09-21 19:28 ./usr/share/bcbio/config/examples/chip_seq.yaml -rw-r--r-- root/root 825 2020-09-21 19:28 ./usr/share/bcbio/config/examples/giab-validate-setup.sh -rw-r--r-- root/root 1340 2020-09-21 19:28 ./usr/share/bcbio/config/examples/giab-validate.yaml -rw-r--r-- root/root 1142 2020-09-21 19:28 ./usr/share/bcbio/config/examples/mitochondrial_variants_amplicons.yaml -rw-r--r-- root/root 1011 2020-09-21 19:28 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postinst #!/bin/sh 400 bytes, 12 lines * prerm #!/bin/sh Package: python3-bcbio Source: bcbio Version: 1.2.4-2 Architecture: all Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 4774 Depends: python3:any, python3-biopython, python3-cyvcf2, python3-joblib, python3-logbook, python3-matplotlib, python3-psutil, python3-pysam, python3-requests, python3-scipy, python3-six, python3-tornado Recommends: mosdepth, multiqc, python3-arrow, python3-geneimpacts, python3-h5py, python3-pyvcf, python3-seqcluster, python3-statsmodels, python3-tabulate, vt Suggests: bcbio-doc, python3-bioblend, python3-dnapilib, python3-msgpack Section: contrib/python Priority: optional Homepage: https://github.com/bcbio/bcbio-nextgen Description: library for analysing high-throughput sequencing data This package installs the Python 3 libraries of the bcbio-nextgen toolkit implementing best-practice pipelines for fully automated high throughput sequencing analysis. . A high-level configuration file specifies inputs and analysis parameters to drive a parallel pipeline that handles distributed execution, idempotent processing restarts and safe transactional steps. 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+------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: binary Build-Space: n/a Build-Time: 12 Distribution: hirsute-proposed Host Architecture: amd64 Install-Time: 132 Job: bcbio_1.2.4-2.dsc Machine Architecture: amd64 Package: bcbio Package-Time: 146 Source-Version: 1.2.4-2 Space: n/a Status: successful Version: 1.2.4-2 -------------------------------------------------------------------------------- Finished at 2020-11-16T10:53:49Z Build needed 00:02:26, no disk space RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=hirsute --arch=amd64 PACKAGEBUILD-20255721 Scanning for processes to kill in build PACKAGEBUILD-20255721