https://launchpad.net/ubuntu/+source/paleomix/1.3.6-1/+build/22617012 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux riscv64-qemu-lcy01-026 5.11.0-1023-generic #24~20.04.1-Ubuntu SMP Mon Nov 15 12:02:12 UTC 2021 riscv64 Buildd toolchain package versions: launchpad-buildd_205~511~ubuntu18.04.1 python3-lpbuildd_205~511~ubuntu18.04.1 sbuild_0.79.0-1ubuntu1 git_1:2.25.1-1ubuntu3.2 dpkg-dev_1.19.7ubuntu3 python3-debian_0.1.36ubuntu1. Syncing the system clock with the buildd NTP service... 12 Dec 05:16:45 ntpdate[189147]: adjust time server 10.211.37.1 offset -0.000530 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=jammy --arch=riscv64 PACKAGEBUILD-22617012 --image-type chroot /home/buildd/filecache-default/03bec7884d85d5bd8bcd177f093129b6620b2195 Creating target for build PACKAGEBUILD-22617012 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=jammy --arch=riscv64 PACKAGEBUILD-22617012 Starting target for build PACKAGEBUILD-22617012 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=jammy --arch=riscv64 PACKAGEBUILD-22617012 'deb http://ftpmaster.internal/ubuntu jammy main universe' 'deb http://ftpmaster.internal/ubuntu jammy-security main universe' 'deb http://ftpmaster.internal/ubuntu jammy-updates main universe' 'deb http://ftpmaster.internal/ubuntu jammy-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-22617012 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=jammy --arch=riscv64 PACKAGEBUILD-22617012 Updating target for build PACKAGEBUILD-22617012 Get:1 http://ftpmaster.internal/ubuntu jammy InRelease [270 kB] Get:2 http://ftpmaster.internal/ubuntu jammy-security InRelease [90.7 kB] Get:3 http://ftpmaster.internal/ubuntu jammy-updates InRelease [90.7 kB] Get:4 http://ftpmaster.internal/ubuntu jammy-proposed InRelease [121 kB] Get:5 http://ftpmaster.internal/ubuntu jammy/main riscv64 Packages [1299 kB] Get:6 http://ftpmaster.internal/ubuntu jammy/main Translation-en [513 kB] Get:7 http://ftpmaster.internal/ubuntu jammy/universe riscv64 Packages [12.6 MB] Get:8 http://ftpmaster.internal/ubuntu jammy/universe Translation-en [5549 kB] Get:9 http://ftpmaster.internal/ubuntu jammy-proposed/main riscv64 Packages [74.3 kB] Get:10 http://ftpmaster.internal/ubuntu jammy-proposed/main Translation-en [35.0 kB] Get:11 http://ftpmaster.internal/ubuntu jammy-proposed/universe riscv64 Packages [536 kB] Get:12 http://ftpmaster.internal/ubuntu jammy-proposed/universe Translation-en [300 kB] Fetched 21.4 MB in 33s (641 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following package was automatically installed and is no longer required: libssl1.1 Use 'sudo apt autoremove' to remove it. The following packages will be REMOVED: libsemanage1* The following NEW packages will be installed: libsemanage2 libsepol2 libssl3 The following packages will be upgraded: apt base-files bash binutils binutils-common binutils-riscv64-linux-gnu bsdutils bzip2 ca-certificates cpp-11 dash debconf debianutils dpkg dpkg-dev e2fsprogs g++-11 gcc-11 gcc-11-base gpg gpg-agent gpgconf gpgv grep init init-system-helpers libapparmor1 libapt-pkg6.0 libasan6 libatomic1 libattr1 libbinutils libblkid1 libbz2-1.0 libcc1-0 libcom-err2 libcrypt-dev libcrypt1 libcryptsetup12 libctf-nobfd0 libctf0 libdpkg-perl libext2fs2 libgcc-11-dev libgcc-s1 libgcrypt20 libgdbm-compat4 libgdbm6 libgnutls30 libgomp1 libgpg-error0 libgssapi-krb5-2 libidn2-0 libip4tc2 libisl23 libk5crypto3 libkmod2 libkrb5-3 libkrb5support0 libmount1 libmpc3 libncurses6 libncursesw6 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpcre2-8-0 libseccomp2 libselinux1 libsemanage-common libsmartcols1 libsqlite3-0 libss2 libstdc++-11-dev libstdc++6 libsystemd0 libtasn1-6 libtinfo6 libudev1 libuuid1 libzstd1 linux-libc-dev lockfile-progs login logsave lto-disabled-list make mount ncurses-base ncurses-bin openssl passwd pkgbinarymangler sed sensible-utils systemd systemd-sysv systemd-timesyncd tzdata usrmerge util-linux 103 upgraded, 3 newly installed, 1 to remove and 0 not upgraded. Need to get 70.9 MB of archives. After this operation, 6774 kB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu jammy/main riscv64 debconf all 1.5.79 [126 kB] Get:2 http://ftpmaster.internal/ubuntu jammy/main riscv64 libpam0g riscv64 1.4.0-10ubuntu2 [56.8 kB] Get:3 http://ftpmaster.internal/ubuntu jammy/main riscv64 libcrypt-dev riscv64 1:4.4.26-1 [249 kB] Get:4 http://ftpmaster.internal/ubuntu jammy/main riscv64 libcrypt1 riscv64 1:4.4.26-1 [97.5 kB] Get:5 http://ftpmaster.internal/ubuntu jammy/main riscv64 base-files riscv64 12ubuntu2 [62.9 kB] Get:6 http://ftpmaster.internal/ubuntu jammy/main riscv64 debianutils riscv64 5.5-1ubuntu1 [105 kB] Get:7 http://ftpmaster.internal/ubuntu jammy/main riscv64 bash riscv64 5.1-5ubuntu1 [643 kB] Get:8 http://ftpmaster.internal/ubuntu jammy/main riscv64 bsdutils riscv64 1:2.37.2-4ubuntu1 [91.2 kB] Get:9 http://ftpmaster.internal/ubuntu jammy/main riscv64 libgpg-error0 riscv64 1.42-3 [61.5 kB] Get:10 http://ftpmaster.internal/ubuntu jammy/main riscv64 libgcrypt20 riscv64 1.9.4-3ubuntu2 [498 kB] Get:11 http://ftpmaster.internal/ubuntu jammy/main riscv64 bzip2 riscv64 1.0.8-5 [33.9 kB] Get:12 http://ftpmaster.internal/ubuntu jammy/main riscv64 libbz2-1.0 riscv64 1.0.8-5 [36.2 kB] Get:13 http://ftpmaster.internal/ubuntu jammy/main riscv64 libcc1-0 riscv64 11.2.0-12ubuntu1 [42.0 kB] Get:14 http://ftpmaster.internal/ubuntu jammy/main riscv64 gcc-11-base riscv64 11.2.0-12ubuntu1 [20.7 kB] Get:15 http://ftpmaster.internal/ubuntu jammy/main riscv64 libgcc-s1 riscv64 11.2.0-12ubuntu1 [43.4 kB] Get:16 http://ftpmaster.internal/ubuntu jammy/main riscv64 libgomp1 riscv64 11.2.0-12ubuntu1 [103 kB] Get:17 http://ftpmaster.internal/ubuntu jammy/main riscv64 libatomic1 riscv64 11.2.0-12ubuntu1 [7796 B] Get:18 http://ftpmaster.internal/ubuntu jammy/main riscv64 libasan6 riscv64 11.2.0-12ubuntu1 [2106 kB] Get:19 http://ftpmaster.internal/ubuntu jammy/main riscv64 g++-11 riscv64 11.2.0-12ubuntu1 [9281 kB] Get:20 http://ftpmaster.internal/ubuntu jammy/main riscv64 libstdc++-11-dev riscv64 11.2.0-12ubuntu1 [4751 kB] Get:21 http://ftpmaster.internal/ubuntu jammy/main riscv64 libgcc-11-dev riscv64 11.2.0-12ubuntu1 [2363 kB] Get:22 http://ftpmaster.internal/ubuntu jammy/main riscv64 gcc-11 riscv64 11.2.0-12ubuntu1 [15.8 MB] Get:23 http://ftpmaster.internal/ubuntu jammy/main riscv64 cpp-11 riscv64 11.2.0-12ubuntu1 [7980 kB] Get:24 http://ftpmaster.internal/ubuntu jammy/main riscv64 libstdc++6 riscv64 11.2.0-12ubuntu1 [665 kB] Get:25 http://ftpmaster.internal/ubuntu jammy/main riscv64 libisl23 riscv64 0.24-2 [593 kB] Get:26 http://ftpmaster.internal/ubuntu jammy/main riscv64 libmpc3 riscv64 1.2.1-1 [44.4 kB] Get:27 http://ftpmaster.internal/ubuntu jammy/main riscv64 libzstd1 riscv64 1.4.8+dfsg-3 [370 kB] Get:28 http://ftpmaster.internal/ubuntu jammy/main riscv64 libctf0 riscv64 2.37-10ubuntu1 [97.9 kB] Get:29 http://ftpmaster.internal/ubuntu jammy/main riscv64 libctf-nobfd0 riscv64 2.37-10ubuntu1 [100 kB] Get:30 http://ftpmaster.internal/ubuntu jammy/main riscv64 libbinutils 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http://ftpmaster.internal/ubuntu jammy/main riscv64 libtasn1-6 riscv64 4.18.0-4 [38.9 kB] Get:41 http://ftpmaster.internal/ubuntu jammy/main riscv64 libgnutls30 riscv64 3.7.2-2ubuntu1 [858 kB] Get:42 http://ftpmaster.internal/ubuntu jammy/main riscv64 systemd-sysv riscv64 249.5-2ubuntu2 [10.5 kB] Get:43 http://ftpmaster.internal/ubuntu jammy/main riscv64 systemd-timesyncd riscv64 249.5-2ubuntu2 [28.5 kB] Get:44 http://ftpmaster.internal/ubuntu jammy/main riscv64 libapparmor1 riscv64 3.0.3-0ubuntu5 [33.6 kB] Get:45 http://ftpmaster.internal/ubuntu jammy/main riscv64 libip4tc2 riscv64 1.8.7-1ubuntu4 [18.1 kB] Get:46 http://ftpmaster.internal/ubuntu jammy/main riscv64 libkmod2 riscv64 28-1ubuntu5 [42.0 kB] Get:47 http://ftpmaster.internal/ubuntu jammy/main riscv64 libpcre2-8-0 riscv64 10.39-3 [136 kB] Get:48 http://ftpmaster.internal/ubuntu jammy-proposed/main riscv64 libselinux1 riscv64 3.3-1build1 [71.0 kB] Get:49 http://ftpmaster.internal/ubuntu jammy/main riscv64 libmount1 riscv64 2.37.2-4ubuntu1 [156 kB] Get:50 http://ftpmaster.internal/ubuntu jammy/main riscv64 libseccomp2 riscv64 2.5.2-2ubuntu2 [46.1 kB] Get:51 http://ftpmaster.internal/ubuntu jammy/main riscv64 login riscv64 1:4.8.1-2ubuntu1 [184 kB] Get:52 http://ftpmaster.internal/ubuntu jammy/main riscv64 util-linux riscv64 2.37.2-4ubuntu1 [1122 kB] Get:53 http://ftpmaster.internal/ubuntu jammy/main riscv64 mount riscv64 2.37.2-4ubuntu1 [129 kB] Get:54 http://ftpmaster.internal/ubuntu jammy/main riscv64 systemd riscv64 249.5-2ubuntu2 [4134 kB] Get:55 http://ftpmaster.internal/ubuntu jammy/main riscv64 libsystemd0 riscv64 249.5-2ubuntu2 [292 kB] Get:56 http://ftpmaster.internal/ubuntu jammy/main riscv64 libudev1 riscv64 249.5-2ubuntu2 [70.9 kB] Get:57 http://ftpmaster.internal/ubuntu jammy/main riscv64 libapt-pkg6.0 riscv64 2.3.13 [916 kB] Get:58 http://ftpmaster.internal/ubuntu jammy/main riscv64 dpkg riscv64 1.20.9ubuntu3 [1222 kB] Get:59 http://ftpmaster.internal/ubuntu jammy/main riscv64 dash riscv64 0.5.11+git20210903+057cd650a4ed-3 [86.3 kB] Get:60 http://ftpmaster.internal/ubuntu jammy/main riscv64 grep riscv64 3.7-1 [151 kB] Get:61 http://ftpmaster.internal/ubuntu jammy/main riscv64 libncurses6 riscv64 6.3-1 [93.5 kB] Get:62 http://ftpmaster.internal/ubuntu jammy/main riscv64 libncursesw6 riscv64 6.3-1 [126 kB] Get:63 http://ftpmaster.internal/ubuntu jammy/main riscv64 libtinfo6 riscv64 6.3-1 [96.4 kB] Get:64 http://ftpmaster.internal/ubuntu jammy/main riscv64 ncurses-bin riscv64 6.3-1 [176 kB] Get:65 http://ftpmaster.internal/ubuntu jammy-proposed/main riscv64 sed riscv64 4.8-1 [187 kB] Get:66 http://ftpmaster.internal/ubuntu jammy-proposed/main riscv64 init-system-helpers all 1.61 [39.3 kB] Get:67 http://ftpmaster.internal/ubuntu jammy/main riscv64 ncurses-base all 6.3-1 [19.9 kB] Get:68 http://ftpmaster.internal/ubuntu jammy/main riscv64 gpgv riscv64 2.2.27-2ubuntu1 [195 kB] Get:69 http://ftpmaster.internal/ubuntu jammy/main riscv64 apt riscv64 2.3.13 [1347 kB] Get:70 http://ftpmaster.internal/ubuntu jammy/main riscv64 libsepol2 riscv64 3.3-1 [254 kB] Get:71 http://ftpmaster.internal/ubuntu jammy-proposed/main riscv64 libsemanage-common all 3.3-1build1 [10.0 kB] Get:72 http://ftpmaster.internal/ubuntu jammy-proposed/main riscv64 libsemanage2 riscv64 3.3-1build1 [83.9 kB] Get:73 http://ftpmaster.internal/ubuntu jammy/main riscv64 passwd riscv64 1:4.8.1-2ubuntu1 [736 kB] Get:74 http://ftpmaster.internal/ubuntu jammy/main riscv64 libpam-modules-bin riscv64 1.4.0-10ubuntu2 [36.5 kB] Get:75 http://ftpmaster.internal/ubuntu jammy/main riscv64 libpam-modules riscv64 1.4.0-10ubuntu2 [264 kB] Get:76 http://ftpmaster.internal/ubuntu jammy/main riscv64 logsave riscv64 1.46.4-1ubuntu1 [10.3 kB] Get:77 http://ftpmaster.internal/ubuntu jammy/main riscv64 libext2fs2 riscv64 1.46.4-1ubuntu1 [196 kB] Get:78 http://ftpmaster.internal/ubuntu jammy/main riscv64 e2fsprogs riscv64 1.46.4-1ubuntu1 [552 kB] Get:79 http://ftpmaster.internal/ubuntu jammy-proposed/main 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jammy/main riscv64 lto-disabled-list all 17 [12.1 kB] Get:100 http://ftpmaster.internal/ubuntu jammy/main riscv64 gpg riscv64 2.2.27-2ubuntu1 [488 kB] Get:101 http://ftpmaster.internal/ubuntu jammy/main riscv64 gpgconf riscv64 2.2.27-2ubuntu1 [115 kB] Get:102 http://ftpmaster.internal/ubuntu jammy/main riscv64 gpg-agent riscv64 2.2.27-2ubuntu1 [231 kB] Get:103 http://ftpmaster.internal/ubuntu jammy/main riscv64 libgdbm-compat4 riscv64 1.22-1 [5824 B] Get:104 http://ftpmaster.internal/ubuntu jammy-proposed/main riscv64 linux-libc-dev riscv64 5.15.0-13.13 [1230 kB] Get:105 http://ftpmaster.internal/ubuntu jammy/main riscv64 lockfile-progs riscv64 0.1.19 [9330 B] Get:106 http://ftpmaster.internal/ubuntu jammy/main riscv64 pkgbinarymangler all 149 [32.4 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 70.9 MB in 14s (5170 kB/s) (Reading database ... 13170 files and directories currently installed.) Preparing to unpack .../debconf_1.5.79_all.deb ... Unpacking debconf (1.5.79) over (1.5.77) ... Setting up debconf (1.5.79) ... (Reading database ... 13169 files and directories currently installed.) Preparing to unpack .../libpam0g_1.4.0-10ubuntu2_riscv64.deb ... Unpacking libpam0g:riscv64 (1.4.0-10ubuntu2) over (1.3.1-5ubuntu11) ... Setting up libpam0g:riscv64 (1.4.0-10ubuntu2) ... Checking for services that may need to be restarted...Checking init scripts... Nothing to restart. (Reading database ... 13169 files and directories currently installed.) Preparing to unpack .../libcrypt-dev_1%3a4.4.26-1_riscv64.deb ... Unpacking libcrypt-dev:riscv64 (1:4.4.26-1) over (1:4.4.18-4ubuntu2) ... Preparing to unpack .../libcrypt1_1%3a4.4.26-1_riscv64.deb ... Unpacking libcrypt1:riscv64 (1:4.4.26-1) over (1:4.4.18-4ubuntu2) ... Setting up libcrypt1:riscv64 (1:4.4.26-1) ... (Reading database ... 13169 files and directories currently installed.) 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Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up make (4.3-4ubuntu2) ... Setting up libncurses6:riscv64 (6.3-1) ... Setting up libmpc3:riscv64 (1.2.1-1) ... Setting up systemd-timesyncd (249.5-2ubuntu2) ... Setting up lockfile-progs (0.1.19) ... Setting up libatomic1:riscv64 (11.2.0-12ubuntu1) ... Setting up usrmerge (25ubuntu2) ... Setting up libss2:riscv64 (1.46.4-1ubuntu1) ... Setting up libncursesw6:riscv64 (6.3-1) ... Setting up libdpkg-perl (1.20.9ubuntu3) ... Setting up logsave (1.46.4-1ubuntu1) ... Setting up libgcc-11-dev:riscv64 (11.2.0-12ubuntu1) ... Setting up sensible-utils (0.0.17) ... Setting up libcrypt-dev:riscv64 (1:4.4.26-1) ... Setting up gpgconf (2.2.27-2ubuntu1) ... Setting up libbinutils:riscv64 (2.37-10ubuntu1) ... Setting up libisl23:riscv64 (0.24-2) ... Setting up openssl (3.0.0-1ubuntu2) ... Installing new version of config file /etc/ssl/openssl.cnf ... Setting up libcc1-0:riscv64 (11.2.0-12ubuntu1) ... Setting up gpg (2.2.27-2ubuntu1) ... Setting up libgdbm6:riscv64 (1.22-1) ... Setting up libctf0:riscv64 (2.37-10ubuntu1) ... Setting up cpp-11 (11.2.0-12ubuntu1) ... Setting up gpg-agent (2.2.27-2ubuntu1) ... Setting up pkgbinarymangler (149) ... Setting up binutils-riscv64-linux-gnu (2.37-10ubuntu1) ... Setting up e2fsprogs (1.46.4-1ubuntu1) ... Installing new version of config file /etc/mke2fs.conf ... Setting up binutils (2.37-10ubuntu1) ... Setting up dpkg-dev (1.20.9ubuntu3) ... Setting up ca-certificates (20211016) ... Updating certificates in /etc/ssl/certs... rehash: warning: skipping ca-certificates.crt,it does not contain exactly one certificate or CRL 7 added, 8 removed; done. Setting up libgdbm-compat4:riscv64 (1.22-1) ... Setting up libstdc++-11-dev:riscv64 (11.2.0-12ubuntu1) ... Setting up gcc-11 (11.2.0-12ubuntu1) ... Setting up g++-11 (11.2.0-12ubuntu1) ... Processing triggers for libc-bin (2.34-0ubuntu3) ... Processing triggers for ca-certificates (20211016) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-22617012 riscv64 jammy-proposed -c chroot:build-PACKAGEBUILD-22617012 --arch=riscv64 --dist=jammy-proposed --nolog paleomix_1.3.6-1.dsc Initiating build PACKAGEBUILD-22617012 with 8 jobs across 8 processor cores. Kernel reported to sbuild: 5.11.0-1023-generic #24~20.04.1-Ubuntu SMP Mon Nov 15 12:02:12 UTC 2021 riscv64 sbuild (Debian sbuild) 0.79.0 (05 February 2020) on riscv64-qemu-lcy01-026.buildd +==============================================================================+ | paleomix 1.3.6-1 (riscv64) Sun, 12 Dec 2021 05:26:14 +0000 | +==============================================================================+ Package: paleomix Version: 1.3.6-1 Source Version: 1.3.6-1 Distribution: jammy-proposed Machine Architecture: riscv64 Host Architecture: riscv64 Build Architecture: riscv64 Build Type: any I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-22617012/chroot-autobuild' with '<>' I: NOTICE: Log filtering will replace 'build/paleomix-rykikR/resolver-EOeewr' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- paleomix_1.3.6-1.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/paleomix-rykikR/paleomix-1.3.6' with '<>' I: NOTICE: Log filtering will replace 'build/paleomix-rykikR' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), dh-python, python3, python3-setuptools, python3-pytest, python3-coloredlogs, python3-configargparse, python3-ruamel.yaml, python3-pysam, python3-setproctitle, default-jre-headless, bowtie2, rsync, examl, picard-tools, build-essential, fakeroot Filtered Build-Depends: debhelper-compat (= 13), dh-python, python3, python3-setuptools, python3-pytest, python3-coloredlogs, python3-configargparse, python3-ruamel.yaml, python3-pysam, python3-setproctitle, default-jre-headless, bowtie2, rsync, examl, picard-tools, build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [957 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [488 B] Get:5 copy:/<>/apt_archive ./ Packages [554 B] Fetched 1999 B in 0s (4798 B/s) Reading package lists... Reading package lists... Install main 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: libssl1.1 systemd-timesyncd Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev bowtie2 bsdextrautils ca-certificates-java debhelper debugedit default-jre default-jre-headless dh-autoreconf dh-python dh-strip-nondeterminism dwz examl file fontconfig-config fonts-dejavu-core gettext gettext-base groff-base intltool-debian java-common libapache-pom-java libarchive-zip-perl libasound2 libasound2-data libavahi-client3 libavahi-common-data libavahi-common3 libbarclay-java libbrotli1 libbsd0 libcbor0.6 libcommons-codec-java libcommons-compress-java libcommons-jexl2-java libcommons-lang3-java libcommons-logging-java libcommons-math3-java libcommons-parent-java libcups2 libcurl3-gnutls libdbus-1-3 libdebhelper-perl libdeflate0 libdrm-common libdrm-nouveau2 libdrm-radeon1 libdrm2 libdw1 libedit2 libelf1 libevent-core-2.1-7 libevent-pthreads-2.1-7 libexpat1 libfabric1 libfido2-1 libfile-stripnondeterminism-perl libfontconfig1 libfreemarker-java libfreetype6 libgatk-native-bindings-java libgif7 libgkl-java libgl1 libgl1-mesa-dri libglapi-mesa libglib2.0-0 libglvnd0 libglx-mesa0 libglx0 libgoogle-gson-java libgraphite2-3 libharfbuzz0b libhts3 libhtscodecs2 libhtsjdk-java libhttpclient-java libhttpcore-java libhwloc-plugins libhwloc15 libibverbs1 libicu67 libjoptsimple-java libjpeg-turbo8 libjpeg8 libjson-simple-java liblcms2-2 libldap-2.5-0 liblightcouch-java liblog4j2-java libmagic-mgc libmagic1 libmd0 libmongodb-java libmpdec3 libnghttp2-14 libngs-java libngs-sdk-dev libngs-sdk2 libnl-3-200 libnl-route-3-200 libnspr4 libnss3 libopenmpi3 libpciaccess0 libpcsclite1 libpicard-java libpipeline1 libpmix2 libpopt0 libpsl5 libpython3-stdlib libpython3.9-minimal libpython3.9-stdlib librdmacm1 librtmp1 libsasl2-2 libsasl2-modules-db libsensors-config libsensors5 libsigsegv2 libslf4j-java libsnappy-java libsnappy-jni libsnappy1v5 libssh-4 libsub-override-perl libtool libuchardet0 libvulkan1 libx11-6 libx11-data libx11-xcb1 libxau6 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxdmcp6 libxext6 libxfixes3 libxi6 libxml2 libxnvctrl0 libxrender1 libxshmfence1 libxtst6 libxxf86vm1 m4 man-db media-types ocl-icd-libopencl1 openjdk-11-jre openjdk-11-jre-headless openmpi-bin openmpi-common openssh-client picard-tools po-debconf python3 python3-attr python3-coloredlogs python3-configargparse python3-distutils python3-humanfriendly python3-importlib-metadata python3-iniconfig python3-lib2to3 python3-minimal python3-more-itertools python3-packaging python3-pkg-resources python3-pluggy python3-py python3-pyparsing python3-pysam python3-pytest python3-ruamel.yaml python3-ruamel.yaml.clib python3-setproctitle python3-setuptools python3-toml python3-zipp python3.9 python3.9-minimal rsync ucf x11-common Suggested packages: autoconf-archive gnu-standards autoconf-doc bowtie2-examples dh-make flit gettext-doc libasprintf-dev libgettextpo-dev groff libasound2-plugins alsa-utils libxz-java libcommons-lang3-java-doc libavalon-framework-java libcommons-logging-java-doc libexcalibur-logkit-java liblog4j1.2-java cups-common jython libdom4j-java libjaxen-java libjdom1-java librhino-java libxalan2-java libgoogle-gson-java-doc libjoptsimple-java-doc libjson-simple-doc liblcms2-utils libgeronimo-jms-1.1-spec-java pciutils pcscd lm-sensors libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser opencl-icd libnss-mdns fonts-dejavu-extra fonts-ipafont-gothic fonts-ipafont-mincho fonts-wqy-microhei | fonts-wqy-zenhei fonts-indic gfortran | fortran-compiler keychain libpam-ssh monkeysphere ssh-askpass libmail-box-perl python3-doc python3-tk python3-venv python-attr-doc subversion python-pyparsing-doc python-setuptools-doc python3.9-venv python3.9-doc binfmt-support openssh-server Recommended packages: curl | wget | lynx alsa-ucm-conf alsa-topology-conf dbus libarchive-cpio-perl libgkl-jni libglib2.0-data shared-mime-info xdg-user-dirs ibverbs-providers libldap-common r-base-core publicsuffix libsasl2-modules libltdl-dev mesa-vulkan-drivers | vulkan-icd libatk-wrapper-java-jni fonts-dejavu-extra xauth libmail-sendmail-perl python3-pygments The following NEW packages will be installed: autoconf automake autopoint autotools-dev bowtie2 bsdextrautils ca-certificates-java debhelper debugedit default-jre default-jre-headless dh-autoreconf dh-python dh-strip-nondeterminism dwz examl file fontconfig-config fonts-dejavu-core gettext gettext-base groff-base intltool-debian java-common libapache-pom-java libarchive-zip-perl libasound2 libasound2-data libavahi-client3 libavahi-common-data libavahi-common3 libbarclay-java libbrotli1 libbsd0 libcbor0.6 libcommons-codec-java libcommons-compress-java libcommons-jexl2-java libcommons-lang3-java libcommons-logging-java libcommons-math3-java libcommons-parent-java libcups2 libcurl3-gnutls libdbus-1-3 libdebhelper-perl libdeflate0 libdrm-common libdrm-nouveau2 libdrm-radeon1 libdrm2 libdw1 libedit2 libelf1 libevent-core-2.1-7 libevent-pthreads-2.1-7 libexpat1 libfabric1 libfido2-1 libfile-stripnondeterminism-perl libfontconfig1 libfreemarker-java libfreetype6 libgatk-native-bindings-java libgif7 libgkl-java libgl1 libgl1-mesa-dri libglapi-mesa libglib2.0-0 libglvnd0 libglx-mesa0 libglx0 libgoogle-gson-java libgraphite2-3 libharfbuzz0b libhts3 libhtscodecs2 libhtsjdk-java libhttpclient-java libhttpcore-java libhwloc-plugins libhwloc15 libibverbs1 libicu67 libjoptsimple-java libjpeg-turbo8 libjpeg8 libjson-simple-java liblcms2-2 libldap-2.5-0 liblightcouch-java liblog4j2-java libmagic-mgc libmagic1 libmd0 libmongodb-java libmpdec3 libnghttp2-14 libngs-java libngs-sdk-dev libngs-sdk2 libnl-3-200 libnl-route-3-200 libnspr4 libnss3 libopenmpi3 libpciaccess0 libpcsclite1 libpicard-java libpipeline1 libpmix2 libpopt0 libpsl5 libpython3-stdlib libpython3.9-minimal libpython3.9-stdlib librdmacm1 librtmp1 libsasl2-2 libsasl2-modules-db libsensors-config libsensors5 libsigsegv2 libslf4j-java libsnappy-java libsnappy-jni libsnappy1v5 libssh-4 libsub-override-perl libtool libuchardet0 libvulkan1 libx11-6 libx11-data libx11-xcb1 libxau6 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxdmcp6 libxext6 libxfixes3 libxi6 libxml2 libxnvctrl0 libxrender1 libxshmfence1 libxtst6 libxxf86vm1 m4 man-db media-types ocl-icd-libopencl1 openjdk-11-jre openjdk-11-jre-headless openmpi-bin openmpi-common openssh-client picard-tools po-debconf python3 python3-attr python3-coloredlogs python3-configargparse python3-distutils python3-humanfriendly python3-importlib-metadata python3-iniconfig python3-lib2to3 python3-minimal python3-more-itertools python3-packaging python3-pkg-resources python3-pluggy python3-py python3-pyparsing python3-pysam python3-pytest python3-ruamel.yaml python3-ruamel.yaml.clib python3-setproctitle python3-setuptools python3-toml python3-zipp python3.9 python3.9-minimal rsync sbuild-build-depends-main-dummy ucf x11-common 0 upgraded, 196 newly installed, 0 to remove and 0 not upgraded. Need to get 99.8 MB of archives. After this operation, 323 MB of additional disk space will be used. 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libfreetype6 riscv64 2.11.0+dfsg-1 [359 kB] Get:61 http://ftpmaster.internal/ubuntu jammy/main riscv64 fonts-dejavu-core all 2.37-2build1 [1041 kB] Get:62 http://ftpmaster.internal/ubuntu jammy/main riscv64 fontconfig-config all 2.13.1-4.2ubuntu4 [29.1 kB] Get:63 http://ftpmaster.internal/ubuntu jammy/main riscv64 libfontconfig1 riscv64 2.13.1-4.2ubuntu4 [116 kB] Get:64 http://ftpmaster.internal/ubuntu jammy/main riscv64 libnspr4 riscv64 2:4.32-3 [100 kB] Get:65 http://ftpmaster.internal/ubuntu jammy/main riscv64 libnss3 riscv64 2:3.68-1ubuntu2 [1160 kB] Get:66 http://ftpmaster.internal/ubuntu jammy/main riscv64 libasound2-data all 1.2.5.1-1ubuntu1 [19.1 kB] Get:67 http://ftpmaster.internal/ubuntu jammy/main riscv64 libasound2 riscv64 1.2.5.1-1ubuntu1 [346 kB] Get:68 http://ftpmaster.internal/ubuntu jammy/main riscv64 libgraphite2-3 riscv64 1.3.14-1build1 [71.5 kB] Get:69 http://ftpmaster.internal/ubuntu jammy/main riscv64 libharfbuzz0b riscv64 2.7.4-1ubuntu2 [369 kB] Get:70 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libfile-stripnondeterminism-perl all 1.12.1-1 [18.1 kB] Get:80 http://ftpmaster.internal/ubuntu jammy/main riscv64 dh-strip-nondeterminism all 1.12.1-1 [5200 B] Get:81 http://ftpmaster.internal/ubuntu jammy/main riscv64 libdw1 riscv64 0.186-1 [228 kB] Get:82 http://ftpmaster.internal/ubuntu jammy/main riscv64 debugedit riscv64 1:5.0-3 [49.8 kB] Get:83 http://ftpmaster.internal/ubuntu jammy/main riscv64 dwz riscv64 0.14-1build1 [105 kB] Get:84 http://ftpmaster.internal/ubuntu jammy/main riscv64 gettext riscv64 0.21-4ubuntu3 [769 kB] Get:85 http://ftpmaster.internal/ubuntu jammy/main riscv64 intltool-debian all 0.35.0+20060710.5 [24.9 kB] Get:86 http://ftpmaster.internal/ubuntu jammy/main riscv64 po-debconf all 1.0.21+nmu1 [233 kB] Get:87 http://ftpmaster.internal/ubuntu jammy/main riscv64 debhelper all 13.5.2ubuntu1 [926 kB] Get:88 http://ftpmaster.internal/ubuntu jammy/main riscv64 libglvnd0 riscv64 1.3.4-2 [81.9 kB] Get:89 http://ftpmaster.internal/ubuntu jammy-proposed/main riscv64 libglapi-mesa riscv64 21.2.6-1 [51.2 kB] Get:90 http://ftpmaster.internal/ubuntu jammy/main riscv64 libx11-xcb1 riscv64 2:1.7.2-2 [7432 B] Get:91 http://ftpmaster.internal/ubuntu jammy/main riscv64 libxcb-dri2-0 riscv64 1.14-3ubuntu2 [6378 B] Get:92 http://ftpmaster.internal/ubuntu jammy/main riscv64 libxcb-dri3-0 riscv64 1.14-3ubuntu2 [6084 B] Get:93 http://ftpmaster.internal/ubuntu jammy/main riscv64 libxcb-glx0 riscv64 1.14-3ubuntu2 [21.1 kB] Get:94 http://ftpmaster.internal/ubuntu jammy/main riscv64 libxcb-present0 riscv64 1.14-3ubuntu2 [5196 B] Get:95 http://ftpmaster.internal/ubuntu jammy/main riscv64 libxcb-shm0 riscv64 1.14-3ubuntu2 [5196 B] Get:96 http://ftpmaster.internal/ubuntu jammy/main riscv64 libxcb-sync1 riscv64 1.14-3ubuntu2 [8030 B] Get:97 http://ftpmaster.internal/ubuntu jammy/main riscv64 libxcb-xfixes0 riscv64 1.14-3ubuntu2 [8646 B] Get:98 http://ftpmaster.internal/ubuntu jammy/main riscv64 libxfixes3 riscv64 1:5.0.3-2build2 [9920 B] Get:99 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jammy/main riscv64 libglx0 riscv64 1.3.4-2 [26.1 kB] Get:109 http://ftpmaster.internal/ubuntu jammy/main riscv64 libgl1 riscv64 1.3.4-2 [127 kB] Get:110 http://ftpmaster.internal/ubuntu jammy/main riscv64 libgif7 riscv64 5.1.9-2build1 [31.8 kB] Get:111 http://ftpmaster.internal/ubuntu jammy/main riscv64 libxi6 riscv64 2:1.8-1 [29.6 kB] Get:112 http://ftpmaster.internal/ubuntu jammy/main riscv64 libxrender1 riscv64 1:0.9.10-1build3 [17.2 kB] Get:113 http://ftpmaster.internal/ubuntu jammy/main riscv64 x11-common all 1:7.7+23ubuntu1 [23.5 kB] Get:114 http://ftpmaster.internal/ubuntu jammy/main riscv64 libxtst6 riscv64 2:1.2.3-1build3 [12.1 kB] Get:115 http://ftpmaster.internal/ubuntu jammy/main riscv64 openjdk-11-jre riscv64 11.0.13+8-0ubuntu1 [172 kB] Get:116 http://ftpmaster.internal/ubuntu jammy/main riscv64 default-jre riscv64 2:1.11-72build1 [900 B] Get:117 http://ftpmaster.internal/ubuntu jammy-proposed/main riscv64 python3-lib2to3 all 3.9.9-3 [77.7 kB] Get:118 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jammy/universe riscv64 libhwloc15 riscv64 2.6.0-1 [137 kB] Get:128 http://ftpmaster.internal/ubuntu jammy/main riscv64 libpciaccess0 riscv64 0.16-1build3 [16.6 kB] Get:129 http://ftpmaster.internal/ubuntu jammy/main riscv64 libxnvctrl0 riscv64 470.57.01-0ubuntu3 [10.7 kB] Get:130 http://ftpmaster.internal/ubuntu jammy/universe riscv64 ocl-icd-libopencl1 riscv64 2.2.14-3 [34.3 kB] Get:131 http://ftpmaster.internal/ubuntu jammy/universe riscv64 libhwloc-plugins riscv64 2.6.0-1 [13.6 kB] Get:132 http://ftpmaster.internal/ubuntu jammy/universe riscv64 libpmix2 riscv64 4.1.0-3ubuntu2 [552 kB] Get:133 http://ftpmaster.internal/ubuntu jammy/universe riscv64 libopenmpi3 riscv64 4.1.0-10ubuntu1 [1972 kB] Get:134 http://ftpmaster.internal/ubuntu jammy/universe riscv64 openmpi-common all 4.1.0-10ubuntu1 [159 kB] Get:135 http://ftpmaster.internal/ubuntu jammy/universe riscv64 openmpi-bin riscv64 4.1.0-10ubuntu1 [82.4 kB] Get:136 http://ftpmaster.internal/ubuntu jammy/universe riscv64 examl riscv64 3.0.22-2 [881 kB] Get:137 http://ftpmaster.internal/ubuntu jammy/universe riscv64 libapache-pom-java all 18-1 [4720 B] Get:138 http://ftpmaster.internal/ubuntu jammy/universe riscv64 libfreemarker-java all 2.3.23-11 [1218 kB] Get:139 http://ftpmaster.internal/ubuntu jammy/universe riscv64 libjoptsimple-java all 5.0.4-4 [73.1 kB] Get:140 http://ftpmaster.internal/ubuntu jammy/universe riscv64 libcommons-parent-java all 43-1 [10.8 kB] Get:141 http://ftpmaster.internal/ubuntu jammy/universe riscv64 libcommons-logging-java all 1.2-2 [60.3 kB] Get:142 http://ftpmaster.internal/ubuntu jammy/universe riscv64 libgoogle-gson-java all 2.8.8-1 [218 kB] Get:143 http://ftpmaster.internal/ubuntu jammy/universe riscv64 libcommons-codec-java all 1.15-1 [291 kB] Get:144 http://ftpmaster.internal/ubuntu jammy/universe riscv64 libhttpcore-java all 4.4.14-2 [606 kB] Get:145 http://ftpmaster.internal/ubuntu jammy/universe riscv64 libhttpclient-java all 4.5.13-3 [1226 kB] Get:146 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Get:193 http://ftpmaster.internal/ubuntu jammy/universe riscv64 python3-ruamel.yaml all 0.17.16-1 [86.3 kB] Get:194 http://ftpmaster.internal/ubuntu jammy-proposed/main riscv64 python3-setuptools all 59.4.0-1 [339 kB] Get:195 http://ftpmaster.internal/ubuntu jammy/universe riscv64 bowtie2 riscv64 2.4.4-1 [1655 kB] Get:196 http://ftpmaster.internal/ubuntu jammy/main riscv64 python3-setproctitle riscv64 1.2.2-2 [15.4 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 99.8 MB in 19s (5292 kB/s) Selecting previously unselected package libpython3.9-minimal:riscv64. (Reading database ... 13362 files and directories currently installed.) Preparing to unpack .../libpython3.9-minimal_3.9.9-1build1_riscv64.deb ... Unpacking libpython3.9-minimal:riscv64 (3.9.9-1build1) ... Selecting previously unselected package libexpat1:riscv64. Preparing to unpack .../libexpat1_2.4.1-3_riscv64.deb ... Unpacking libexpat1:riscv64 (2.4.1-3) ... Selecting previously unselected package python3.9-minimal. Preparing to unpack .../python3.9-minimal_3.9.9-1build1_riscv64.deb ... Unpacking python3.9-minimal (3.9.9-1build1) ... Setting up libpython3.9-minimal:riscv64 (3.9.9-1build1) ... Setting up libexpat1:riscv64 (2.4.1-3) ... Setting up python3.9-minimal (3.9.9-1build1) ... Selecting previously unselected package python3-minimal. (Reading database ... 13655 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.9.7-4_riscv64.deb ... Unpacking python3-minimal (3.9.7-4) ... Selecting previously unselected package media-types. 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Setting up bsdextrautils (2.37.2-4ubuntu1) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up libgatk-native-bindings-java (1.0.0-2.1) ... Setting up java-common (0.72build1) ... Setting up libicu67:riscv64 (67.1-7ubuntu1) ... Setting up libmagic-mgc (1:5.41-2) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglib2.0-0:riscv64 (2.70.2-1) ... No schema files found: doing nothing. Setting up libglvnd0:riscv64 (1.3.4-2) ... Setting up libgoogle-gson-java (2.8.8-1) ... Setting up libdebhelper-perl (13.5.2ubuntu1) ... Setting up libbrotli1:riscv64 (1.0.9-2build4) ... Setting up x11-common (1:7.7+23ubuntu1) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Setting up libsensors-config (1:3.6.0-7build1) ... Setting up libnghttp2-14:riscv64 (1.43.0-1build2) ... Setting up libmagic1:riscv64 (1:5.41-2) ... Setting up libngs-sdk2:riscv64 (2.11.2-1) ... 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Setting up python3-humanfriendly (10.0-1) ... Setting up libxfixes3:riscv64 (1:5.0.3-2build2) ... Setting up python3-setproctitle:riscv64 (1.2.2-2) ... Setting up python3-toml (0.10.2-1) ... Setting up libcups2:riscv64 (2.3.3op2-7ubuntu2) ... Setting up libhttpclient-java (4.5.13-3) ... Setting up liblightcouch-java (0.0.6-1.1) ... Setting up python3-lib2to3 (3.9.9-3) ... Setting up python3-coloredlogs (7.3-2) ... Setting up libhtsjdk-java (2.24.1+dfsg-1) ... Setting up python3-pkg-resources (59.4.0-1) ... Setting up python3-distutils (3.9.9-3) ... Setting up dh-python (5.20211114) ... Setting up python3-more-itertools (8.10.0-2) ... Setting up python3-configargparse (1.5.3-1) ... Setting up python3-iniconfig (1.1.1-1) ... Setting up librdmacm1:riscv64 (38.0-1) ... Setting up python3-attr (20.3.0-1ubuntu1) ... Setting up libhts3:riscv64 (1.13+ds-2build1) ... Setting up libglx-mesa0:riscv64 (21.2.6-1) ... Setting up python3-pysam (0.17.0+ds-2) ... Setting up python3-setuptools (59.4.0-1) ... Setting up libxi6:riscv64 (2:1.8-1) ... Setting up libglx0:riscv64 (1.3.4-2) ... Setting up python3-py (1.10.0-1) ... Setting up libxtst6:riscv64 (2:1.2.3-1build3) ... Setting up liblog4j2-java (2.15.0-1) ... Setting up python3-ruamel.yaml.clib:riscv64 (0.2.6-1) ... Setting up debhelper (13.5.2ubuntu1) ... Setting up python3-zipp (1.0.0-3) ... Setting up libhwloc-plugins:riscv64 (2.6.0-1) ... Setting up python3-packaging (21.3-1) ... Setting up libgl1:riscv64 (1.3.4-2) ... Setting up python3-ruamel.yaml (0.17.16-1) ... Setting up libbarclay-java (2.1.0-3.1) ... Setting up libfabric1 (1.11.0-2) ... Setting up python3-importlib-metadata (4.6.4-1) ... Setting up libpmix2:riscv64 (4.1.0-3ubuntu2) ... Setting up libgkl-java (0.8.7+dfsg-3) ... Setting up libopenmpi3:riscv64 (4.1.0-10ubuntu1) ... Setting up libpicard-java (2.26.6+dfsg-2) ... Setting up python3-pluggy (0.13.0-7.1) ... Setting up openmpi-bin (4.1.0-10ubuntu1) ... update-alternatives: using /usr/bin/mpirun.openmpi to provide /usr/bin/mpirun (mpirun) in auto mode update-alternatives: using /usr/bin/mpicc.openmpi to provide /usr/bin/mpicc (mpi) in auto mode Setting up python3-pytest (6.2.5-1ubuntu1) ... Setting up examl (3.0.22-2) ... Setting up default-jre-headless (2:1.11-72build1) ... Setting up openjdk-11-jre-headless:riscv64 (11.0.13+8-0ubuntu1) ... update-alternatives: using /usr/lib/jvm/java-11-openjdk-riscv64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-riscv64/bin/jjs to provide /usr/bin/jjs (jjs) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-riscv64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-riscv64/bin/rmid to provide /usr/bin/rmid (rmid) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-riscv64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-riscv64/bin/pack200 to provide /usr/bin/pack200 (pack200) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-riscv64/bin/unpack200 to provide /usr/bin/unpack200 (unpack200) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-riscv64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up openjdk-11-jre:riscv64 (11.0.13+8-0ubuntu1) ... Setting up default-jre (2:1.11-72build1) ... Setting up picard-tools (2.26.6+dfsg-2) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Setting up ca-certificates-java (20190909) ... head: cannot open '/etc/ssl/certs/java/cacerts' for reading: No such file or directory Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:ANF_Secure_Server_Root_CA.pem Adding debian:EC-ACC.pem Adding debian:NAVER_Global_Root_Certification_Authority.pem Adding debian:Certum_Trusted_Root_CA.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:Certum_EC-384_CA.pem Adding debian:TrustCor_RootCert_CA-2.pem Adding debian:e-Szigno_Root_CA_2017.pem Adding debian:SwissSign_Silver_CA_-_G2.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:AffirmTrust_Premium.pem Adding debian:Certigna.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:GTS_Root_R2.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:AffirmTrust_Networking.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:GlobalSign_Root_CA_-_R2.pem Adding debian:Hongkong_Post_Root_CA_1.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:GlobalSign_Root_E46.pem Adding debian:ISRG_Root_X1.pem Adding debian:ACCVRAIZ1.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:E-Tugra_Certification_Authority.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:Staat_der_Nederlanden_EV_Root_CA.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:Security_Communication_Root_CA.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:TrustCor_RootCert_CA-1.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:Cybertrust_Global_Root.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Entrust_Root_Certification_Authority_-_G4.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:Network_Solutions_Certificate_Authority.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:SecureSign_RootCA11.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:Certigna_Root_CA.pem Adding debian:Secure_Global_CA.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:GTS_Root_R1.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:emSign_Root_CA_-_G1.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:Trustwave_Global_Certification_Authority.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2011.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:GLOBALTRUST_2020.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:SecureTrust_CA.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:GlobalSign_Root_R46.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:Izenpe.com.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:certSIGN_Root_CA_G2.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:GTS_Root_R3.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:GTS_Root_R4.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:TrustCor_ECA-1.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem done. Processing triggers for libc-bin (2.34-0ubuntu3) ... Processing triggers for ca-certificates (20211016) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. done. +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (riscv64 included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.11.0-1023-generic #24~20.04.1-Ubuntu SMP Mon Nov 15 12:02:12 UTC 2021 riscv64 (riscv64) Toolchain package versions: binutils_2.37-10ubuntu1 dpkg-dev_1.20.9ubuntu3 g++-11_11.2.0-12ubuntu1 gcc-11_11.2.0-12ubuntu1 libc6-dev_2.34-0ubuntu3 libstdc++-11-dev_11.2.0-12ubuntu1 libstdc++6_11.2.0-12ubuntu1 linux-libc-dev_5.15.0-13.13 Package versions: adduser_3.118ubuntu5 advancecomp_2.1-2.1ubuntu1 apt_2.3.13 autoconf_2.71-2 automake_1:1.16.5-1.1 autopoint_0.21-4ubuntu3 autotools-dev_20180224.1+nmu1 base-files_12ubuntu2 base-passwd_3.5.52 bash_5.1-5ubuntu1 binutils_2.37-10ubuntu1 binutils-common_2.37-10ubuntu1 binutils-riscv64-linux-gnu_2.37-10ubuntu1 bowtie2_2.4.4-1 bsdextrautils_2.37.2-4ubuntu1 bsdutils_1:2.37.2-4ubuntu1 build-essential_12.9ubuntu2 bzip2_1.0.8-5 ca-certificates_20211016 ca-certificates-java_20190909 coreutils_8.32-4ubuntu3 cpp_4:11.2.0-1ubuntu1 cpp-11_11.2.0-12ubuntu1 dash_0.5.11+git20210903+057cd650a4ed-3 debconf_1.5.79 debhelper_13.5.2ubuntu1 debianutils_5.5-1ubuntu1 debugedit_1:5.0-3 default-jre_2:1.11-72build1 default-jre-headless_2:1.11-72build1 dh-autoreconf_20 dh-python_5.20211114 dh-strip-nondeterminism_1.12.1-1 diffutils_1:3.8-0ubuntu1 dpkg_1.20.9ubuntu3 dpkg-dev_1.20.9ubuntu3 dwz_0.14-1build1 e2fsprogs_1.46.4-1ubuntu1 examl_3.0.22-2 fakeroot_1.25.3-1.1ubuntu3 file_1:5.41-2 findutils_4.8.0-1ubuntu2 fontconfig-config_2.13.1-4.2ubuntu4 fonts-dejavu-core_2.37-2build1 g++_4:11.2.0-1ubuntu1 g++-11_11.2.0-12ubuntu1 gcc_4:11.2.0-1ubuntu1 gcc-11_11.2.0-12ubuntu1 gcc-11-base_11.2.0-12ubuntu1 gettext_0.21-4ubuntu3 gettext-base_0.21-4ubuntu3 gpg_2.2.27-2ubuntu1 gpg-agent_2.2.27-2ubuntu1 gpgconf_2.2.27-2ubuntu1 gpgv_2.2.27-2ubuntu1 grep_3.7-1 groff-base_1.22.4-7 gzip_1.10-4ubuntu2 hostname_3.23ubuntu1 init_1.61 init-system-helpers_1.61 intltool-debian_0.35.0+20060710.5 java-common_0.72build1 libacl1_2.2.53-10ubuntu2 libapache-pom-java_18-1 libapparmor1_3.0.3-0ubuntu5 libapt-pkg6.0_2.3.13 libarchive-zip-perl_1.68-1 libargon2-1_0~20171227-0.2build22 libasan6_11.2.0-12ubuntu1 libasound2_1.2.5.1-1ubuntu1 libasound2-data_1.2.5.1-1ubuntu1 libassuan0_2.5.5-1 libatomic1_11.2.0-12ubuntu1 libattr1_1:2.5.1-1 libaudit-common_1:3.0-2ubuntu3 libaudit1_1:3.0-2ubuntu3 libavahi-client3_0.8-5ubuntu4 libavahi-common-data_0.8-5ubuntu4 libavahi-common3_0.8-5ubuntu4 libbarclay-java_2.1.0-3.1 libbinutils_2.37-10ubuntu1 libblkid1_2.37.2-4ubuntu1 libbrotli1_1.0.9-2build4 libbsd0_0.11.3-1ubuntu3 libbz2-1.0_1.0.8-5 libc-bin_2.34-0ubuntu3 libc-dev-bin_2.34-0ubuntu3 libc6_2.34-0ubuntu3 libc6-dev_2.34-0ubuntu3 libcap-ng0_0.7.9-2.2build2 libcap2_1:2.44-1build2 libcbor0.6_0.6.0-0ubuntu4 libcc1-0_11.2.0-12ubuntu1 libcom-err2_1.46.4-1ubuntu1 libcommons-codec-java_1.15-1 libcommons-compress-java_1.21-1 libcommons-jexl2-java_2.1.1-5 libcommons-lang3-java_3.11-1 libcommons-logging-java_1.2-2 libcommons-math3-java_3.6.1-3 libcommons-parent-java_43-1 libcrypt-dev_1:4.4.26-1 libcrypt1_1:4.4.26-1 libcryptsetup12_2:2.4.2-1ubuntu4 libctf-nobfd0_2.37-10ubuntu1 libctf0_2.37-10ubuntu1 libcups2_2.3.3op2-7ubuntu2 libcurl3-gnutls_7.74.0-1.3ubuntu3 libdb5.3_5.3.28+dfsg1-0.8ubuntu2 libdbus-1-3_1.12.20-2ubuntu2 libdebconfclient0_0.256ubuntu4 libdebhelper-perl_13.5.2ubuntu1 libdeflate0_1.8-1ubuntu1 libdevmapper1.02.1_2:1.02.175-2.1ubuntu3 libdpkg-perl_1.20.9ubuntu3 libdrm-common_2.4.107-8ubuntu1 libdrm-nouveau2_2.4.107-8ubuntu1 libdrm-radeon1_2.4.107-8ubuntu1 libdrm2_2.4.107-8ubuntu1 libdw1_0.186-1 libedit2_3.1-20210910-1 libelf1_0.186-1 libevent-core-2.1-7_2.1.12-stable-1build2 libevent-pthreads-2.1-7_2.1.12-stable-1build2 libexpat1_2.4.1-3 libext2fs2_1.46.4-1ubuntu1 libfabric1_1.11.0-2 libfakeroot_1.25.3-1.1ubuntu3 libffi8_3.4.2-1ubuntu5 libfido2-1_1.9.0-1build1 libfile-stripnondeterminism-perl_1.12.1-1 libfontconfig1_2.13.1-4.2ubuntu4 libfreemarker-java_2.3.23-11 libfreetype6_2.11.0+dfsg-1 libgatk-native-bindings-java_1.0.0-2.1 libgcc-11-dev_11.2.0-12ubuntu1 libgcc-s1_11.2.0-12ubuntu1 libgcrypt20_1.9.4-3ubuntu2 libgdbm-compat4_1.22-1 libgdbm6_1.22-1 libgif7_5.1.9-2build1 libgkl-java_0.8.7+dfsg-3 libgl1_1.3.4-2 libgl1-mesa-dri_21.2.6-1 libglapi-mesa_21.2.6-1 libglib2.0-0_2.70.2-1 libglvnd0_1.3.4-2 libglx-mesa0_21.2.6-1 libglx0_1.3.4-2 libgmp10_2:6.2.1+dfsg-1ubuntu3 libgnutls30_3.7.2-2ubuntu1 libgomp1_11.2.0-12ubuntu1 libgoogle-gson-java_2.8.8-1 libgpg-error0_1.42-3 libgraphite2-3_1.3.14-1build1 libgssapi-krb5-2_1.19.2-0ubuntu1 libharfbuzz0b_2.7.4-1ubuntu2 libhogweed6_3.7.3-1build1 libhts3_1.13+ds-2build1 libhtscodecs2_1.1.1-3 libhtsjdk-java_2.24.1+dfsg-1 libhttpclient-java_4.5.13-3 libhttpcore-java_4.4.14-2 libhwloc-plugins_2.6.0-1 libhwloc15_2.6.0-1 libibverbs1_38.0-1 libicu67_67.1-7ubuntu1 libidn2-0_2.3.2-2 libip4tc2_1.8.7-1ubuntu4 libisl23_0.24-2 libjoptsimple-java_5.0.4-4 libjpeg-turbo8_2.1.1-0ubuntu1 libjpeg8_8c-2ubuntu8 libjson-c5_0.15-2build3 libjson-simple-java_2.3.0-1 libk5crypto3_1.19.2-0ubuntu1 libkeyutils1_1.6.1-2ubuntu2 libkmod2_28-1ubuntu5 libkrb5-3_1.19.2-0ubuntu1 libkrb5support0_1.19.2-0ubuntu1 liblcms2-2_2.12~rc1-2build1 libldap-2.5-0_2.5.6+dfsg-1~exp1ubuntu1 liblightcouch-java_0.0.6-1.1 liblockfile-bin_1.17-1build1 liblockfile1_1.17-1build1 liblog4j2-java_2.15.0-1 liblz4-1_1.9.3-2build1 liblzma5_5.2.5-2build1 libmagic-mgc_1:5.41-2 libmagic1_1:5.41-2 libmd0_1.0.4-1 libmongodb-java_3.6.3-2 libmount1_2.37.2-4ubuntu1 libmpc3_1.2.1-1 libmpdec3_2.5.1-2build1 libmpfr6_4.1.0-3build2 libncurses6_6.3-1 libncursesw6_6.3-1 libnettle8_3.7.3-1build1 libnghttp2-14_1.43.0-1build2 libngs-java_2.11.2-1 libngs-sdk-dev_2.11.2-1 libngs-sdk2_2.11.2-1 libnl-3-200_3.4.0-1build3 libnl-route-3-200_3.4.0-1build3 libnpth0_1.6-3build1 libnsl-dev_1.3.0-2build1 libnsl2_1.3.0-2build1 libnspr4_2:4.32-3 libnss3_2:3.68-1ubuntu2 libopenmpi3_4.1.0-10ubuntu1 libp11-kit0_0.24.0-6 libpam-modules_1.4.0-10ubuntu2 libpam-modules-bin_1.4.0-10ubuntu2 libpam-runtime_1.4.0-10ubuntu2 libpam0g_1.4.0-10ubuntu2 libpciaccess0_0.16-1build3 libpcre2-8-0_10.39-3 libpcre3_2:8.39-13build4 libpcsclite1_1.9.5-1 libperl5.32_5.32.1-3ubuntu3 libpicard-java_2.26.6+dfsg-2 libpipeline1_1.5.4-1 libpmix2_4.1.0-3ubuntu2 libpng16-16_1.6.37-3build4 libpopt0_1.18-3 libprocps8_2:3.3.17-5ubuntu3 libpsl5_0.21.0-1.2build1 libpython3-stdlib_3.9.7-4 libpython3.9-minimal_3.9.9-1build1 libpython3.9-stdlib_3.9.9-1build1 librdmacm1_38.0-1 libreadline8_8.1-2build1 librtmp1_2.4+20151223.gitfa8646d.1-2build3 libsasl2-2_2.1.27+dfsg2-2build1 libsasl2-modules-db_2.1.27+dfsg2-2build1 libseccomp2_2.5.2-2ubuntu2 libselinux1_3.3-1build1 libsemanage-common_3.3-1build1 libsemanage2_3.3-1build1 libsensors-config_1:3.6.0-7build1 libsensors5_1:3.6.0-7build1 libsepol1_3.1-1ubuntu2 libsepol2_3.3-1 libsigsegv2_2.13-1ubuntu2 libslf4j-java_1.7.32-1 libsmartcols1_2.37.2-4ubuntu1 libsnappy-java_1.1.8.3-1 libsnappy-jni_1.1.8.3-1 libsnappy1v5_1.1.8-1build2 libsqlite3-0_3.36.0-2 libss2_1.46.4-1ubuntu1 libssh-4_0.9.6-1build1 libssl1.1_1.1.1l-1ubuntu1 libssl3_3.0.0-1ubuntu2 libstdc++-11-dev_11.2.0-12ubuntu1 libstdc++6_11.2.0-12ubuntu1 libsub-override-perl_0.09-2 libsystemd0_249.5-2ubuntu2 libtasn1-6_4.18.0-4 libtinfo6_6.3-1 libtirpc-common_1.3.2-2 libtirpc-dev_1.3.2-2 libtirpc3_1.3.2-2 libtool_2.4.6-15build1 libuchardet0_0.0.7-1build1 libudev1_249.5-2ubuntu2 libunistring2_0.9.10-6 libuuid1_2.37.2-4ubuntu1 libvulkan1_1.2.189.0-2 libx11-6_2:1.7.2-2 libx11-data_2:1.7.2-2 libx11-xcb1_2:1.7.2-2 libxau6_1:1.0.9-1build4 libxcb-dri2-0_1.14-3ubuntu2 libxcb-dri3-0_1.14-3ubuntu2 libxcb-glx0_1.14-3ubuntu2 libxcb-present0_1.14-3ubuntu2 libxcb-shm0_1.14-3ubuntu2 libxcb-sync1_1.14-3ubuntu2 libxcb-xfixes0_1.14-3ubuntu2 libxcb1_1.14-3ubuntu2 libxdmcp6_1:1.1.3-0ubuntu4 libxext6_2:1.3.4-1 libxfixes3_1:5.0.3-2build2 libxi6_2:1.8-1 libxml2_2.9.12+dfsg-5 libxnvctrl0_470.57.01-0ubuntu3 libxrender1_1:0.9.10-1build3 libxshmfence1_1.3-1build3 libxtst6_2:1.2.3-1build3 libxxf86vm1_1:1.1.4-1build2 libxxhash0_0.8.0-2build1 libzstd1_1.4.8+dfsg-3 linux-libc-dev_5.15.0-13.13 lockfile-progs_0.1.19 login_1:4.8.1-2ubuntu1 logsave_1.46.4-1ubuntu1 lsb-base_11.1.0ubuntu3 lto-disabled-list_17 m4_1.4.18-5ubuntu1 make_4.3-4ubuntu2 man-db_2.9.4-2build1 mawk_1.3.4.20200120-2build1 media-types_4.0.0 mount_2.37.2-4ubuntu1 ncurses-base_6.3-1 ncurses-bin_6.3-1 ocl-icd-libopencl1_2.2.14-3 openjdk-11-jre_11.0.13+8-0ubuntu1 openjdk-11-jre-headless_11.0.13+8-0ubuntu1 openmpi-bin_4.1.0-10ubuntu1 openmpi-common_4.1.0-10ubuntu1 openssh-client_1:8.7p1-2build1 openssl_3.0.0-1ubuntu2 optipng_0.7.7-2 passwd_1:4.8.1-2ubuntu1 patch_2.7.6-7build1 perl_5.32.1-3ubuntu3 perl-base_5.32.1-3ubuntu3 perl-modules-5.32_5.32.1-3ubuntu3 picard-tools_2.26.6+dfsg-2 pinentry-curses_1.1.1-1build1 pkgbinarymangler_149 po-debconf_1.0.21+nmu1 policyrcd-script-zg2_0.1-3 procps_2:3.3.17-5ubuntu3 python3_3.9.7-4 python3-attr_20.3.0-1ubuntu1 python3-coloredlogs_7.3-2 python3-configargparse_1.5.3-1 python3-distutils_3.9.9-3 python3-humanfriendly_10.0-1 python3-importlib-metadata_4.6.4-1 python3-iniconfig_1.1.1-1 python3-lib2to3_3.9.9-3 python3-minimal_3.9.7-4 python3-more-itertools_8.10.0-2 python3-packaging_21.3-1 python3-pkg-resources_59.4.0-1 python3-pluggy_0.13.0-7.1 python3-py_1.10.0-1 python3-pyparsing_2.4.7-1 python3-pysam_0.17.0+ds-2 python3-pytest_6.2.5-1ubuntu1 python3-ruamel.yaml_0.17.16-1 python3-ruamel.yaml.clib_0.2.6-1 python3-setproctitle_1.2.2-2 python3-setuptools_59.4.0-1 python3-toml_0.10.2-1 python3-zipp_1.0.0-3 python3.9_3.9.9-1build1 python3.9-minimal_3.9.9-1build1 readline-common_8.1-2build1 rpcsvc-proto_1.4.2-0ubuntu5 rsync_3.2.3-8ubuntu2 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.8-1 sensible-utils_0.0.17 systemd_249.5-2ubuntu2 systemd-sysv_249.5-2ubuntu2 systemd-timesyncd_249.5-2ubuntu2 sysvinit-utils_2.96-7ubuntu2 tar_1.34+dfsg-1build2 tzdata_2021e-1ubuntu1 ubuntu-keyring_2021.03.26 ucf_3.0043 usrmerge_25ubuntu2 util-linux_2.37.2-4ubuntu1 x11-common_1:7.7+23ubuntu1 xz-utils_5.2.5-2build1 zlib1g_1:1.2.11.dfsg-2ubuntu7 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: paleomix Binary: paleomix Architecture: any Version: 1.3.6-1 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Étienne Mollier Homepage: https://geogenetics.ku.dk/publications/paleomix Standards-Version: 4.6.0 Vcs-Browser: https://salsa.debian.org/med-team/paleomix Vcs-Git: https://salsa.debian.org/med-team/paleomix.git Testsuite: autopkgtest Testsuite-Triggers: python3-nose, python3-pytest Build-Depends: debhelper-compat (= 13), dh-python, python3, python3-setuptools, python3-pytest , python3-coloredlogs , python3-configargparse , python3-ruamel.yaml , python3-pysam , python3-setproctitle , default-jre-headless , bowtie2, rsync, examl, picard-tools Package-List: paleomix deb science optional arch=any Checksums-Sha1: 84421f3a1df858dc93e864ca0fbd976d1bb4708b 1136764 paleomix_1.3.6.orig.tar.gz c2f27c8225a2e77694e04eccb07984c6b35ee51d 10376 paleomix_1.3.6-1.debian.tar.xz Checksums-Sha256: 34772d73c773c652836870a69f0d3b938a63340378a6f331a39dd0c14b34199f 1136764 paleomix_1.3.6.orig.tar.gz f2fd7d471ae4a2746e1f4daa8d298a74f020007f51fe5677c55ceb0779ad81ac 10376 paleomix_1.3.6-1.debian.tar.xz Files: 28088c747e5b0c2f97f8ee2e16d91d70 1136764 paleomix_1.3.6.orig.tar.gz d9749cb59faf8b68664d03491368a0da 10376 paleomix_1.3.6-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmG1C3AUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdo3jg//TQvlGYXP9mlFTdnL3hXPV4ZePCuW nk2TPWharL+yWOGf0hzRYPuwI7+P5mPC8lq+FnFLH4e4wjz2IJQMSdB+VkWrqsqF 2fGum8/JHu+f5lr2BNJKHE171+YTQ3SmBOP0SOhcHNTTFUQfVu9Lab9di49jNhD4 OZE65dyA7SzJNKWLD940KsStDVXRlDz1TSnx5vGnDlcotkJdDl3/2IpYmOq8g1Th CV3vvkrcYBhzWSjOAzqHCwBsgohVxTwt1bOQIvOHvyjagE+x2MlzTtznzDZg8W4q CZxiVbtT6y0MlEiil/tXn8oELaCB/hU8fc2FINvs87d31NzNPLFDfD/4pztL2+4S w2oYwi7M45AE9i9139jKrC51hN6XsJfqxn+9KUQhIiASqcMiQqtMHwj3YxlcFgUm QpVhHFqkQrKSTtOL7m6bv7Hv1ZpuuMbIhxWwApVF12wDsUoL/4mbdusrEz4eyUla +AqHGUUh9fHXOtTN3z5UOpTXrenCL66L6hnWRlx0MXHGlJO4RrPS9rHxn4ZgCb2o 4IjkDh0X6MGgfPwg5aVE4z+fbzLwh4OfTxyn5mnCsna4LtANEImBYAG/60X652CS MKPJ3mLLn8WXU0sBa5+pgPZLYIEvW2A28KYHLkHvYID1C90T3yLmig3sM0o8TL1v vnavwlUlVMnMthA= =zKJi -----END PGP SIGNATURE----- gpgv: Signature made Sat Dec 11 20:34:56 2021 UTC gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: issuer "emollier@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./paleomix_1.3.6-1.dsc dpkg-source: info: extracting paleomix in /<> dpkg-source: info: unpacking paleomix_1.3.6.orig.tar.gz dpkg-source: info: unpacking paleomix_1.3.6-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying xfail_command_tests.patch Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=8 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-22617012 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-22617012 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-22617012 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- Command: dpkg-buildpackage -us -uc -mLaunchpad Build Daemon -B -rfakeroot dpkg-buildpackage: info: source package paleomix dpkg-buildpackage: info: source version 1.3.6-1 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build . dpkg-buildpackage: info: host architecture riscv64 debian/rules clean dh clean --with python3 --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild I: pybuild base:237: python3.9 setup.py clean running clean removing '/<>/.pybuild/cpython3_3.9/build' (and everything under it) 'build/bdist.linux-riscv64' does not exist -- can't clean it 'build/scripts-3.9' does not exist -- can't clean it dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary-arch dh binary-arch --with python3 --buildsystem=pybuild dh_update_autotools_config -a -O--buildsystem=pybuild dh_autoreconf -a -O--buildsystem=pybuild dh_auto_configure -a -O--buildsystem=pybuild I: pybuild base:237: python3.9 setup.py config running config dh_auto_build -a -O--buildsystem=pybuild I: pybuild base:237: /usr/bin/python3 setup.py build running build running build_py creating /<>/.pybuild/cpython3_3.9/build/paleomix copying paleomix/__init__.py -> /<>/.pybuild/cpython3_3.9/build/paleomix copying paleomix/node.py -> /<>/.pybuild/cpython3_3.9/build/paleomix copying paleomix/yaml.py -> /<>/.pybuild/cpython3_3.9/build/paleomix copying paleomix/nodegraph.py -> /<>/.pybuild/cpython3_3.9/build/paleomix copying paleomix/pipeline.py -> /<>/.pybuild/cpython3_3.9/build/paleomix copying paleomix/main.py -> /<>/.pybuild/cpython3_3.9/build/paleomix creating /<>/.pybuild/cpython3_3.9/build/paleomix/resources copying paleomix/resources/__init__.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources creating /<>/.pybuild/cpython3_3.9/build/paleomix/common copying paleomix/common/__init__.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/common copying paleomix/common/versions.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/common copying paleomix/common/testing.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/common copying paleomix/common/fileutils.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/common copying paleomix/common/vcffilter.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/common copying paleomix/common/procs.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/common copying paleomix/common/logging.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/common copying paleomix/common/makefile.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/common copying paleomix/common/bedtools.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/common copying paleomix/common/bamfiles.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/common copying paleomix/common/text.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/common copying paleomix/common/sampling.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/common copying paleomix/common/utilities.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/common copying paleomix/common/argparse.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/common copying paleomix/common/system.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/common copying paleomix/common/sequences.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/common copying paleomix/common/vcfwrap.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/common copying paleomix/common/timer.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/common copying paleomix/common/rtools.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/common creating /<>/.pybuild/cpython3_3.9/build/paleomix/nodes copying paleomix/nodes/__init__.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/nodes copying paleomix/nodes/bowtie2.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/nodes copying paleomix/nodes/newick.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/nodes copying paleomix/nodes/formats.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/nodes copying paleomix/nodes/bwa.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/nodes copying paleomix/nodes/commands.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/nodes copying paleomix/nodes/raxml.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/nodes copying paleomix/nodes/samtools.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/nodes copying paleomix/nodes/phylip.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/nodes copying paleomix/nodes/bedtools.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/nodes copying paleomix/nodes/validation.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/nodes copying paleomix/nodes/adapterremoval.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/nodes copying paleomix/nodes/sequences.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/nodes copying paleomix/nodes/picard.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/nodes copying paleomix/nodes/mafft.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/nodes copying paleomix/nodes/mapdamage.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/nodes copying paleomix/nodes/examl.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/nodes creating /<>/.pybuild/cpython3_3.9/build/paleomix/atomiccmd copying paleomix/atomiccmd/__init__.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/atomiccmd copying paleomix/atomiccmd/builder.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/atomiccmd copying paleomix/atomiccmd/command.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/atomiccmd copying paleomix/atomiccmd/pprint.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/atomiccmd copying paleomix/atomiccmd/sets.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/atomiccmd creating /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines copying paleomix/pipelines/__init__.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines creating /<>/.pybuild/cpython3_3.9/build/paleomix/tools copying paleomix/tools/coverage.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/tools copying paleomix/tools/dupcheck.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/tools copying paleomix/tools/__init__.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/tools copying paleomix/tools/depths.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/tools copying paleomix/tools/cleanup.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/tools copying paleomix/tools/factory.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/tools copying paleomix/tools/gtf_to_bed.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/tools copying paleomix/tools/vcf_filter.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/tools copying paleomix/tools/rmdup_collapsed.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/tools copying paleomix/tools/vcf_to_fasta.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/tools copying paleomix/tools/validate_fastq.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/tools creating /<>/.pybuild/cpython3_3.9/build/paleomix/common/formats copying paleomix/common/formats/__init__.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/common/formats copying paleomix/common/formats/newick.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/common/formats copying paleomix/common/formats/_common.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/common/formats copying paleomix/common/formats/phylip.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/common/formats copying paleomix/common/formats/_graph.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/common/formats copying paleomix/common/formats/msa.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/common/formats copying paleomix/common/formats/fastq.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/common/formats copying paleomix/common/formats/fasta.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/common/formats creating /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/phylo copying paleomix/pipelines/phylo/__init__.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/phylo copying paleomix/pipelines/phylo/makefile.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/phylo copying paleomix/pipelines/phylo/config.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/phylo copying paleomix/pipelines/phylo/example.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/phylo copying paleomix/pipelines/phylo/pipeline.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/phylo copying paleomix/pipelines/phylo/mkfile.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/phylo creating /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam copying paleomix/pipelines/bam/__init__.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam copying paleomix/pipelines/bam/trim_pipeline.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam copying paleomix/pipelines/bam/makefile.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam copying paleomix/pipelines/bam/config.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam copying paleomix/pipelines/bam/nodes.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam copying paleomix/pipelines/bam/pipeline.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam copying paleomix/pipelines/bam/mkfile.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam copying paleomix/pipelines/bam/paths.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam creating /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey copying paleomix/pipelines/zonkey/__init__.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey copying paleomix/pipelines/zonkey/build_mito.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey copying paleomix/pipelines/zonkey/build_tped.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey copying paleomix/pipelines/zonkey/config.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey copying paleomix/pipelines/zonkey/database.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey copying paleomix/pipelines/zonkey/common.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey copying paleomix/pipelines/zonkey/pipeline.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey copying paleomix/pipelines/zonkey/build_db.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey creating /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/phylo/parts copying paleomix/pipelines/phylo/parts/__init__.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/phylo/parts copying paleomix/pipelines/phylo/parts/phylo.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/phylo/parts copying paleomix/pipelines/phylo/parts/genotype.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/phylo/parts copying paleomix/pipelines/phylo/parts/msa.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/phylo/parts creating /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam/parts copying paleomix/pipelines/bam/parts/__init__.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam/parts copying paleomix/pipelines/bam/parts/library.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam/parts copying paleomix/pipelines/bam/parts/prefix.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam/parts copying paleomix/pipelines/bam/parts/target.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam/parts copying paleomix/pipelines/bam/parts/lane.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam/parts copying paleomix/pipelines/bam/parts/summary.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam/parts copying paleomix/pipelines/bam/parts/sample.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam/parts copying paleomix/pipelines/bam/parts/statistics.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam/parts copying paleomix/pipelines/bam/parts/reads.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam/parts creating /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey/parts copying paleomix/pipelines/zonkey/parts/__init__.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey/parts copying paleomix/pipelines/zonkey/parts/nuclear.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey/parts copying paleomix/pipelines/zonkey/parts/common.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey/parts copying paleomix/pipelines/zonkey/parts/mitochondria.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey/parts copying paleomix/pipelines/zonkey/parts/summary.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey/parts copying paleomix/pipelines/zonkey/parts/report.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey/parts copying paleomix/pipelines/zonkey/parts/admixture.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey/parts creating /<>/.pybuild/cpython3_3.9/build/paleomix/tools/bam_stats copying paleomix/tools/bam_stats/coverage.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/tools/bam_stats copying paleomix/tools/bam_stats/__init__.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/tools/bam_stats copying paleomix/tools/bam_stats/common.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/tools/bam_stats running egg_info creating paleomix.egg-info writing paleomix.egg-info/PKG-INFO writing dependency_links to paleomix.egg-info/dependency_links.txt writing entry points to paleomix.egg-info/entry_points.txt writing requirements to paleomix.egg-info/requires.txt writing top-level names to paleomix.egg-info/top_level.txt writing manifest file 'paleomix.egg-info/SOURCES.txt' reading manifest file 'paleomix.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'paleomix/yaml/CHANGES' warning: no files found matching 'paleomix/yaml/LICENSE' warning: no files found matching 'paleomix/yaml/PKG-INFO' warning: no files found matching 'paleomix/yaml/README' warning: no files found matching 'pylint.conf' adding license file 'LICENSE' writing manifest file 'paleomix.egg-info/SOURCES.txt' creating /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples creating /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline copying paleomix/resources/examples/bam_pipeline/makefile.yaml -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline creating /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data copying paleomix/resources/examples/bam_pipeline/data/ACGATA_L1_R1_01.fastq.gz -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data copying paleomix/resources/examples/bam_pipeline/data/ACGATA_L1_R1_02.fastq.gz -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data copying paleomix/resources/examples/bam_pipeline/data/ACGATA_L1_R1_03.fastq.gz -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data copying paleomix/resources/examples/bam_pipeline/data/ACGATA_L1_R1_04.fastq.gz -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data copying paleomix/resources/examples/bam_pipeline/data/ACGATA_L1_R2_01.fastq.gz -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data copying paleomix/resources/examples/bam_pipeline/data/ACGATA_L1_R2_02.fastq.gz -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data copying paleomix/resources/examples/bam_pipeline/data/ACGATA_L1_R2_03.fastq.gz -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data copying paleomix/resources/examples/bam_pipeline/data/ACGATA_L1_R2_04.fastq.gz -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data copying paleomix/resources/examples/bam_pipeline/data/GCTCTG_L1_R1_01.fastq.gz -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data copying paleomix/resources/examples/bam_pipeline/data/GCTCTG_L1_R1_02.fastq.gz -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data copying paleomix/resources/examples/bam_pipeline/data/GCTCTG_L1_R1_03.fastq.gz -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data copying paleomix/resources/examples/bam_pipeline/data/TGCTCA_L1_R1_01.fastq.gz -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data copying paleomix/resources/examples/bam_pipeline/data/TGCTCA_L1_R1_02.fastq.gz -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data copying paleomix/resources/examples/bam_pipeline/data/TGCTCA_L1_R1_03.fastq.gz -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data copying paleomix/resources/examples/bam_pipeline/data/TGCTCA_L2_R1_01.fastq.gz -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data copying paleomix/resources/examples/bam_pipeline/data/TGCTCA_L2_R1_02.fastq.gz -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data copying paleomix/resources/examples/bam_pipeline/data/TGCTCA_L2_R1_03.fastq.gz -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data copying paleomix/resources/examples/bam_pipeline/data/TGCTCA_L2_R2_01.fastq.gz -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data copying paleomix/resources/examples/bam_pipeline/data/TGCTCA_L2_R2_02.fastq.gz -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data copying paleomix/resources/examples/bam_pipeline/data/TGCTCA_L2_R2_03.fastq.gz -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data creating /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data/ACGATA_L2 copying paleomix/resources/examples/bam_pipeline/data/ACGATA_L2/reads.collapsed.gz -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data/ACGATA_L2 copying paleomix/resources/examples/bam_pipeline/data/ACGATA_L2/reads.collapsed.truncated.gz -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data/ACGATA_L2 copying paleomix/resources/examples/bam_pipeline/data/ACGATA_L2/reads.singleton.truncated.gz -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data/ACGATA_L2 creating /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/prefixes copying paleomix/resources/examples/bam_pipeline/prefixes/rCRS.fasta -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/prefixes creating /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline copying paleomix/resources/examples/phylo_pipeline/setup.sh -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline copying paleomix/resources/examples/phylo_pipeline/synthesize_reads.py -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline creating /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/alignment copying paleomix/resources/examples/phylo_pipeline/alignment/makefile.yaml -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/alignment copying paleomix/resources/examples/phylo_pipeline/alignment/setup.sh -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/alignment creating /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/alignment/prefixes copying paleomix/resources/examples/phylo_pipeline/alignment/prefixes/bonobo.fasta -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/alignment/prefixes copying paleomix/resources/examples/phylo_pipeline/alignment/prefixes/chimpanzee.fasta -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/alignment/prefixes copying paleomix/resources/examples/phylo_pipeline/alignment/prefixes/gorilla.fasta -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/alignment/prefixes copying paleomix/resources/examples/phylo_pipeline/alignment/prefixes/rCRS.fasta -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/alignment/prefixes copying paleomix/resources/examples/phylo_pipeline/alignment/prefixes/rCRS.fasta.fai -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/alignment/prefixes copying paleomix/resources/examples/phylo_pipeline/alignment/prefixes/sumatran_orangutan.fasta -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/alignment/prefixes copying paleomix/resources/examples/phylo_pipeline/alignment/prefixes/white_handed_gibbon.fasta -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/alignment/prefixes creating /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/phylogeny copying paleomix/resources/examples/phylo_pipeline/phylogeny/makefile.yaml -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/phylogeny creating /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/phylogeny/data creating /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/phylogeny/data/regions copying paleomix/resources/examples/phylo_pipeline/phylogeny/data/regions/rCRS.non_coding.bed -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/phylogeny/data/regions copying paleomix/resources/examples/phylo_pipeline/phylogeny/data/regions/rCRS.protein_coding.CDS.bed -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/phylogeny/data/regions creating /<>/.pybuild/cpython3_3.9/build/paleomix/resources/reports creating /<>/.pybuild/cpython3_3.9/build/paleomix/resources/reports/zonkey copying paleomix/resources/reports/zonkey/report.css -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/reports/zonkey creating /<>/.pybuild/cpython3_3.9/build/paleomix/resources/rscripts creating /<>/.pybuild/cpython3_3.9/build/paleomix/resources/rscripts/common copying paleomix/resources/rscripts/common/requires.r -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/rscripts/common creating /<>/.pybuild/cpython3_3.9/build/paleomix/resources/rscripts/zonkey copying paleomix/resources/rscripts/zonkey/admixture.r -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/rscripts/zonkey copying paleomix/resources/rscripts/zonkey/coverage.r -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/rscripts/zonkey copying paleomix/resources/rscripts/zonkey/pca.r -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/rscripts/zonkey copying paleomix/resources/rscripts/zonkey/tinytree.r -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/rscripts/zonkey copying paleomix/resources/rscripts/zonkey/treemix.r -> /<>/.pybuild/cpython3_3.9/build/paleomix/resources/rscripts/zonkey create-stamp debian/debhelper-build-stamp dh_testroot -a -O--buildsystem=pybuild dh_prep -a -O--buildsystem=pybuild dh_auto_install --destdir=debian/paleomix/ -a -O--buildsystem=pybuild I: pybuild base:237: /usr/bin/python3 setup.py install --root /<>/debian/paleomix running install /usr/lib/python3/dist-packages/setuptools/command/install.py:34: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools. warnings.warn( running build running build_py running egg_info writing paleomix.egg-info/PKG-INFO writing dependency_links to paleomix.egg-info/dependency_links.txt writing entry points to paleomix.egg-info/entry_points.txt writing requirements to paleomix.egg-info/requires.txt writing top-level names to paleomix.egg-info/top_level.txt reading manifest file 'paleomix.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'paleomix/yaml/CHANGES' warning: no files found matching 'paleomix/yaml/LICENSE' warning: no files found matching 'paleomix/yaml/PKG-INFO' warning: no files found matching 'paleomix/yaml/README' warning: no files found matching 'pylint.conf' adding license file 'LICENSE' writing manifest file 'paleomix.egg-info/SOURCES.txt' running install_lib creating /<>/debian/paleomix/usr creating /<>/debian/paleomix/usr/lib creating /<>/debian/paleomix/usr/lib/python3.9 creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/__init__.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/phylo_pipeline copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/synthesize_reads.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/phylo_pipeline creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/phylo_pipeline/phylogeny creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/phylo_pipeline/phylogeny/data creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/phylo_pipeline/phylogeny/data/regions copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/phylogeny/data/regions/rCRS.non_coding.bed -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/phylo_pipeline/phylogeny/data/regions copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/phylogeny/data/regions/rCRS.protein_coding.CDS.bed -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/phylo_pipeline/phylogeny/data/regions copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/phylogeny/makefile.yaml -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/phylo_pipeline/phylogeny creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/phylo_pipeline/alignment creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/phylo_pipeline/alignment/prefixes copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/alignment/prefixes/rCRS.fasta -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/phylo_pipeline/alignment/prefixes copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/alignment/prefixes/sumatran_orangutan.fasta -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/phylo_pipeline/alignment/prefixes copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/alignment/prefixes/chimpanzee.fasta -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/phylo_pipeline/alignment/prefixes copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/alignment/prefixes/gorilla.fasta -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/phylo_pipeline/alignment/prefixes copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/alignment/prefixes/white_handed_gibbon.fasta -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/phylo_pipeline/alignment/prefixes copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/alignment/prefixes/rCRS.fasta.fai -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/phylo_pipeline/alignment/prefixes copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/alignment/prefixes/bonobo.fasta -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/phylo_pipeline/alignment/prefixes copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/alignment/makefile.yaml -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/phylo_pipeline/alignment copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/alignment/setup.sh -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/phylo_pipeline/alignment copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/phylo_pipeline/setup.sh -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/phylo_pipeline creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline/data copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data/TGCTCA_L1_R1_03.fastq.gz -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline/data copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data/ACGATA_L1_R2_02.fastq.gz -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline/data copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data/TGCTCA_L1_R1_02.fastq.gz -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline/data copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data/ACGATA_L1_R1_02.fastq.gz -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline/data copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data/TGCTCA_L2_R1_03.fastq.gz -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline/data copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data/ACGATA_L1_R2_01.fastq.gz -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline/data copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data/TGCTCA_L2_R2_01.fastq.gz -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline/data copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data/TGCTCA_L2_R1_01.fastq.gz -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline/data copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data/GCTCTG_L1_R1_01.fastq.gz -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline/data copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data/TGCTCA_L2_R1_02.fastq.gz -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline/data copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data/GCTCTG_L1_R1_02.fastq.gz -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline/data copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data/TGCTCA_L2_R2_02.fastq.gz -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline/data copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data/ACGATA_L1_R1_04.fastq.gz -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline/data creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline/data/ACGATA_L2 copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data/ACGATA_L2/reads.collapsed.gz -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline/data/ACGATA_L2 copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data/ACGATA_L2/reads.collapsed.truncated.gz -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline/data/ACGATA_L2 copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data/ACGATA_L2/reads.singleton.truncated.gz -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline/data/ACGATA_L2 copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data/ACGATA_L1_R2_04.fastq.gz -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline/data copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data/TGCTCA_L2_R2_03.fastq.gz -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline/data copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data/ACGATA_L1_R1_01.fastq.gz -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline/data copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data/GCTCTG_L1_R1_03.fastq.gz -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline/data copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data/ACGATA_L1_R1_03.fastq.gz -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline/data copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data/TGCTCA_L1_R1_01.fastq.gz -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline/data copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/data/ACGATA_L1_R2_03.fastq.gz -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline/data creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline/prefixes copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/prefixes/rCRS.fasta -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline/prefixes copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/examples/bam_pipeline/makefile.yaml -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/bam_pipeline creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/rscripts creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/rscripts/common copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/rscripts/common/requires.r -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/rscripts/common creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/rscripts/zonkey copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/rscripts/zonkey/admixture.r -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/rscripts/zonkey copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/rscripts/zonkey/coverage.r -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/rscripts/zonkey copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/rscripts/zonkey/pca.r -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/rscripts/zonkey copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/rscripts/zonkey/treemix.r -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/rscripts/zonkey copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/rscripts/zonkey/tinytree.r -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/rscripts/zonkey creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/reports creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/reports/zonkey copying /<>/.pybuild/cpython3_3.9/build/paleomix/resources/reports/zonkey/report.css -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/reports/zonkey copying /<>/.pybuild/cpython3_3.9/build/paleomix/__init__.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common copying /<>/.pybuild/cpython3_3.9/build/paleomix/common/__init__.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common copying /<>/.pybuild/cpython3_3.9/build/paleomix/common/versions.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common copying /<>/.pybuild/cpython3_3.9/build/paleomix/common/testing.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common copying /<>/.pybuild/cpython3_3.9/build/paleomix/common/fileutils.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common copying /<>/.pybuild/cpython3_3.9/build/paleomix/common/vcffilter.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common copying /<>/.pybuild/cpython3_3.9/build/paleomix/common/procs.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common copying /<>/.pybuild/cpython3_3.9/build/paleomix/common/logging.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common copying /<>/.pybuild/cpython3_3.9/build/paleomix/common/makefile.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common copying /<>/.pybuild/cpython3_3.9/build/paleomix/common/bedtools.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common copying /<>/.pybuild/cpython3_3.9/build/paleomix/common/bamfiles.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common copying /<>/.pybuild/cpython3_3.9/build/paleomix/common/text.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common copying /<>/.pybuild/cpython3_3.9/build/paleomix/common/sampling.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common copying /<>/.pybuild/cpython3_3.9/build/paleomix/common/utilities.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common copying /<>/.pybuild/cpython3_3.9/build/paleomix/common/argparse.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common copying /<>/.pybuild/cpython3_3.9/build/paleomix/common/system.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common copying /<>/.pybuild/cpython3_3.9/build/paleomix/common/sequences.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/formats copying /<>/.pybuild/cpython3_3.9/build/paleomix/common/formats/__init__.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/formats copying /<>/.pybuild/cpython3_3.9/build/paleomix/common/formats/newick.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/formats copying /<>/.pybuild/cpython3_3.9/build/paleomix/common/formats/_common.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/formats copying /<>/.pybuild/cpython3_3.9/build/paleomix/common/formats/phylip.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/formats copying /<>/.pybuild/cpython3_3.9/build/paleomix/common/formats/_graph.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/formats copying /<>/.pybuild/cpython3_3.9/build/paleomix/common/formats/msa.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/formats copying /<>/.pybuild/cpython3_3.9/build/paleomix/common/formats/fastq.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/formats copying /<>/.pybuild/cpython3_3.9/build/paleomix/common/formats/fasta.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/formats copying /<>/.pybuild/cpython3_3.9/build/paleomix/common/vcfwrap.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common copying /<>/.pybuild/cpython3_3.9/build/paleomix/common/timer.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common copying /<>/.pybuild/cpython3_3.9/build/paleomix/common/rtools.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common copying /<>/.pybuild/cpython3_3.9/build/paleomix/node.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes copying /<>/.pybuild/cpython3_3.9/build/paleomix/nodes/__init__.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes copying /<>/.pybuild/cpython3_3.9/build/paleomix/nodes/bowtie2.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes copying /<>/.pybuild/cpython3_3.9/build/paleomix/nodes/newick.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes copying /<>/.pybuild/cpython3_3.9/build/paleomix/nodes/formats.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes copying /<>/.pybuild/cpython3_3.9/build/paleomix/nodes/bwa.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes copying /<>/.pybuild/cpython3_3.9/build/paleomix/nodes/commands.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes copying /<>/.pybuild/cpython3_3.9/build/paleomix/nodes/raxml.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes copying /<>/.pybuild/cpython3_3.9/build/paleomix/nodes/samtools.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes copying /<>/.pybuild/cpython3_3.9/build/paleomix/nodes/phylip.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes copying /<>/.pybuild/cpython3_3.9/build/paleomix/nodes/bedtools.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes copying /<>/.pybuild/cpython3_3.9/build/paleomix/nodes/validation.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes copying /<>/.pybuild/cpython3_3.9/build/paleomix/nodes/adapterremoval.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes copying /<>/.pybuild/cpython3_3.9/build/paleomix/nodes/sequences.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes copying /<>/.pybuild/cpython3_3.9/build/paleomix/nodes/picard.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes copying /<>/.pybuild/cpython3_3.9/build/paleomix/nodes/mafft.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes copying /<>/.pybuild/cpython3_3.9/build/paleomix/nodes/mapdamage.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes copying /<>/.pybuild/cpython3_3.9/build/paleomix/nodes/examl.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/atomiccmd copying /<>/.pybuild/cpython3_3.9/build/paleomix/atomiccmd/__init__.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/atomiccmd copying /<>/.pybuild/cpython3_3.9/build/paleomix/atomiccmd/builder.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/atomiccmd copying /<>/.pybuild/cpython3_3.9/build/paleomix/atomiccmd/command.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/atomiccmd copying /<>/.pybuild/cpython3_3.9/build/paleomix/atomiccmd/pprint.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/atomiccmd copying /<>/.pybuild/cpython3_3.9/build/paleomix/atomiccmd/sets.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/atomiccmd copying /<>/.pybuild/cpython3_3.9/build/paleomix/yaml.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/__init__.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/phylo copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/phylo/__init__.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/phylo copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/phylo/makefile.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/phylo copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/phylo/config.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/phylo copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/phylo/example.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/phylo creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/phylo/parts copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/phylo/parts/__init__.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/phylo/parts copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/phylo/parts/phylo.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/phylo/parts copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/phylo/parts/genotype.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/phylo/parts copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/phylo/parts/msa.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/phylo/parts copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/phylo/pipeline.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/phylo copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/phylo/mkfile.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/phylo creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam/__init__.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam/trim_pipeline.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam/makefile.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam/config.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam/nodes.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam/parts copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam/parts/__init__.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam/parts copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam/parts/library.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam/parts copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam/parts/prefix.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam/parts copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam/parts/target.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam/parts copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam/parts/lane.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam/parts copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam/parts/summary.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam/parts copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam/parts/sample.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam/parts copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam/parts/statistics.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam/parts copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam/parts/reads.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam/parts copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam/pipeline.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam/mkfile.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/bam/paths.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey/__init__.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey/build_mito.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey/build_tped.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey/config.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey/database.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey/parts copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey/parts/__init__.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey/parts copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey/parts/nuclear.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey/parts copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey/parts/common.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey/parts copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey/parts/mitochondria.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey/parts copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey/parts/summary.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey/parts copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey/parts/report.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey/parts copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey/parts/admixture.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey/parts copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey/common.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey/pipeline.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipelines/zonkey/build_db.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey copying /<>/.pybuild/cpython3_3.9/build/paleomix/nodegraph.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools copying /<>/.pybuild/cpython3_3.9/build/paleomix/tools/coverage.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools copying /<>/.pybuild/cpython3_3.9/build/paleomix/tools/dupcheck.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools copying /<>/.pybuild/cpython3_3.9/build/paleomix/tools/__init__.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools copying /<>/.pybuild/cpython3_3.9/build/paleomix/tools/depths.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools copying /<>/.pybuild/cpython3_3.9/build/paleomix/tools/cleanup.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools creating /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools/bam_stats copying /<>/.pybuild/cpython3_3.9/build/paleomix/tools/bam_stats/coverage.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools/bam_stats copying /<>/.pybuild/cpython3_3.9/build/paleomix/tools/bam_stats/__init__.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools/bam_stats copying /<>/.pybuild/cpython3_3.9/build/paleomix/tools/bam_stats/common.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools/bam_stats copying /<>/.pybuild/cpython3_3.9/build/paleomix/tools/factory.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools copying /<>/.pybuild/cpython3_3.9/build/paleomix/tools/gtf_to_bed.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools copying /<>/.pybuild/cpython3_3.9/build/paleomix/tools/vcf_filter.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools copying /<>/.pybuild/cpython3_3.9/build/paleomix/tools/rmdup_collapsed.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools copying /<>/.pybuild/cpython3_3.9/build/paleomix/tools/vcf_to_fasta.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools copying /<>/.pybuild/cpython3_3.9/build/paleomix/tools/validate_fastq.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools copying /<>/.pybuild/cpython3_3.9/build/paleomix/pipeline.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix copying /<>/.pybuild/cpython3_3.9/build/paleomix/main.py -> /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/resources/examples/phylo_pipeline/synthesize_reads.py to synthesize_reads.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/versions.py to versions.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/testing.py to testing.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/fileutils.py to fileutils.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/vcffilter.py to vcffilter.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/procs.py to procs.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/logging.py to logging.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/makefile.py to makefile.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/bedtools.py to bedtools.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/bamfiles.py to bamfiles.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/text.py to text.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/sampling.py to sampling.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/utilities.py to utilities.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/argparse.py to argparse.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/system.py to system.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/sequences.py to sequences.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/formats/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/formats/newick.py to newick.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/formats/_common.py to _common.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/formats/phylip.py to phylip.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/formats/_graph.py to _graph.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/formats/msa.py to msa.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/formats/fastq.py to fastq.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/formats/fasta.py to fasta.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/vcfwrap.py to vcfwrap.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/timer.py to timer.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/common/rtools.py to rtools.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/node.py to node.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes/bowtie2.py to bowtie2.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes/newick.py to newick.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes/formats.py to formats.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes/bwa.py to bwa.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes/commands.py to commands.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes/raxml.py to raxml.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes/samtools.py to samtools.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes/phylip.py to phylip.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes/bedtools.py to bedtools.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes/validation.py to validation.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes/adapterremoval.py to adapterremoval.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes/sequences.py to sequences.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes/picard.py to picard.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes/mafft.py to mafft.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes/mapdamage.py to mapdamage.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodes/examl.py to examl.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/atomiccmd/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/atomiccmd/builder.py to builder.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/atomiccmd/command.py to command.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/atomiccmd/pprint.py to pprint.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/atomiccmd/sets.py to sets.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/yaml.py to yaml.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/phylo/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/phylo/makefile.py to makefile.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/phylo/config.py to config.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/phylo/example.py to example.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/phylo/parts/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/phylo/parts/phylo.py to phylo.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/phylo/parts/genotype.py to genotype.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/phylo/parts/msa.py to msa.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/phylo/pipeline.py to pipeline.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/phylo/mkfile.py to mkfile.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam/trim_pipeline.py to trim_pipeline.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam/makefile.py to makefile.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam/config.py to config.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam/nodes.py to nodes.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam/parts/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam/parts/library.py to library.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam/parts/prefix.py to prefix.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam/parts/target.py to target.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam/parts/lane.py to lane.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam/parts/summary.py to summary.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam/parts/sample.py to sample.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam/parts/statistics.py to statistics.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam/parts/reads.py to reads.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam/pipeline.py to pipeline.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam/mkfile.py to mkfile.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/bam/paths.py to paths.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey/build_mito.py to build_mito.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey/build_tped.py to build_tped.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey/config.py to config.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey/database.py to database.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey/parts/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey/parts/nuclear.py to nuclear.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey/parts/common.py to common.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey/parts/mitochondria.py to mitochondria.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey/parts/summary.py to summary.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey/parts/report.py to report.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey/parts/admixture.py to admixture.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey/common.py to common.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey/pipeline.py to pipeline.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipelines/zonkey/build_db.py to build_db.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/nodegraph.py to nodegraph.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools/coverage.py to coverage.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools/dupcheck.py to dupcheck.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools/depths.py to depths.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools/cleanup.py to cleanup.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools/bam_stats/coverage.py to coverage.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools/bam_stats/__init__.py to __init__.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools/bam_stats/common.py to common.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools/factory.py to factory.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools/gtf_to_bed.py to gtf_to_bed.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools/vcf_filter.py to vcf_filter.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools/rmdup_collapsed.py to rmdup_collapsed.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools/vcf_to_fasta.py to vcf_to_fasta.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/tools/validate_fastq.py to validate_fastq.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/pipeline.py to pipeline.cpython-39.pyc byte-compiling /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix/main.py to main.cpython-39.pyc running install_egg_info Copying paleomix.egg-info to /<>/debian/paleomix/usr/lib/python3.9/dist-packages/paleomix-1.3.6.egg-info Skipping SOURCES.txt running install_scripts Installing paleomix script to /<>/debian/paleomix/usr/bin debian/rules override_dh_install make[1]: Entering directory '/<>' dh_install find debian -name LICENSE -delete find debian -name README.rst -delete make[1]: Leaving directory '/<>' debian/rules override_dh_installdocs make[1]: Entering directory '/<>' dh_installdocs # since tests dir contains empty files which are used afterwards for # testing and dh_installdocs is ignoring empty files we need to make # sure all files are really copied rsync -a -v tests debian/paleomix/usr/share/doc/paleomix sending incremental file list tests/atomiccmd_test/ tests/common_tests/ tests/common_tests/formats_tests/ tests/data/ tests/data/empty_file_1 tests/data/empty_file_2 sent 949 bytes received 76 bytes 2,050.00 bytes/sec total size is 334,736 speedup is 326.57 # test runner is seeking for paleomix modules in source - we use inside the installed package ### sed -i 's:(find paleomix -mindepth 1:(find /usr/lib/python*/dist-packages/paleomix -mindepth 1:' debian/*/usr/share/doc/*/tests/run #echo "====== Also empty files belong to the docs ======" #find debian -name "empty_file*" #find debian -name "timestamp_*" #echo "====== Hope something was printed between these lines ====" # # This test tries to execute setup.sh which does not work outside source directory find debian/paleomix/usr/share/doc/ -name fileutils_test.py -delete find debian/paleomix/usr/share/doc/ -name setup.h -delete make[1]: Leaving directory '/<>' dh_installchangelogs -a -O--buildsystem=pybuild dh_installman -a -O--buildsystem=pybuild debian/rules override_dh_python3 make[1]: Entering directory '/<>' dh_python3 --verbose --shebang=/usr/bin/python3 D: dh_python3 dh_python3:161: version: 5.20211114 D: dh_python3 dh_python3:162: argv: ['/usr/bin/dh_python3', '--verbose', '--shebang=/usr/bin/python3'] D: dh_python3 dh_python3:163: options: {'guess_deps': True, 'skip_private': False, 'verbose': True, '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': '/usr/bin/python3', 'ignore_shebangs': False, 'clean_dbg_pkg': True, 'no_ext_rename': False, 'no_shebang_rewrite': False, 'O': None} D: dh_python3 dh_python3:164: args: [] D: dh_python3 dh_python3:165: supported Python versions: 3.9,3.10 (default=3.9) D: dh_python3 debhelper:157: source=paleomix, binary packages=['paleomix'] D: dh_python3 dh_python3:183: processing package paleomix... D: dh_python3 fs:49: moving files from debian/paleomix/usr/lib/python3.9/dist-packages to debian/paleomix/usr/lib/python3/dist-packages/ I: dh_python3 tools:114: replacing shebang in debian/paleomix/usr/bin/paleomix D: dh_python3 fs:265: package paleomix details = {'requires.txt': {'debian/paleomix/usr/lib/python3/dist-packages/paleomix-1.3.6.egg-info/requires.txt'}, 'egg-info': set(), 'dist-info': set(), 'nsp.txt': set(), 'shebangs': {/usr/bin/python3}, 'public_vers': {Version('3')}, 'private_dirs': {}, 'compile': True, 'ext_vers': set(), 'ext_no_version': set()} D: dh_python3 depends:118: generating dependencies for package paleomix D: dh_python3 pydist:142: trying to find dependency for coloredlogs>=10.0 (python=None) D: dh_python3 pydist:142: trying to find dependency for configargparse>=0.13.0 (python=None) D: dh_python3 pydist:142: trying to find dependency for pysam>=0.10.0 (python=None) D: dh_python3 pydist:142: trying to find dependency for ruamel.yaml>=0.16.0 (python=None) D: dh_python3 pydist:142: trying to find dependency for setproctitle>=1.1.0 (python=None) D: dh_python3 depends:282: D={'python3:any', 'python3-setproctitle', 'python3-configargparse', 'python3-coloredlogs', 'python3-pysam', 'python3-ruamel.yaml'}; R=[]; S=[]; E=[], B=[]; RT=[] make[1]: Leaving directory '/<>' dh_installsystemduser -a -O--buildsystem=pybuild dh_lintian -a -O--buildsystem=pybuild dh_perl -a -O--buildsystem=pybuild dh_link -a -O--buildsystem=pybuild dh_strip_nondeterminism -a -O--buildsystem=pybuild dh_compress -a -O--buildsystem=pybuild debian/rules override_dh_fixperms make[1]: Entering directory '/<>' dh_fixperms for rs in `find debian -iname "*.r"` ; do \ if head -n 1 $rs | grep -q '^#!/usr/bin/.*Rscript' ; then \ chmod +x $rs ; \ else \ chmod -x $rs ; \ fi ; \ done make[1]: Leaving directory '/<>' dh_missing -a -O--buildsystem=pybuild dh_dwz -a -O--buildsystem=pybuild dh_strip -a -O--buildsystem=pybuild dh_makeshlibs -a -O--buildsystem=pybuild dh_shlibdeps -a -O--buildsystem=pybuild dh_installdeb -a -O--buildsystem=pybuild dh_gencontrol -a -O--buildsystem=pybuild dh_md5sums -a -O--buildsystem=pybuild dh_builddeb -a -O--buildsystem=pybuild INFO: pkgstriptranslations version 149 pkgstriptranslations: processing paleomix (in debian/paleomix); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/paleomix/DEBIAN/control, package paleomix, directory debian/paleomix pkgstripfiles: Truncating usr/share/doc/paleomix/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 8 cpus) for package paleomix ... pkgstripfiles: No PNG files. dpkg-deb: building package 'paleomix' in '../paleomix_1.3.6-1_riscv64.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any -mLaunchpad Build Daemon >../paleomix_1.3.6-1_riscv64.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2021-12-12T05:40:35Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ paleomix_1.3.6-1_riscv64.changes: --------------------------------- Format: 1.8 Date: Sat, 11 Dec 2021 21:23:21 +0100 Source: paleomix Binary: paleomix Built-For-Profiles: noudeb Architecture: riscv64 Version: 1.3.6-1 Distribution: jammy-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Étienne Mollier Description: paleomix - pipelines and tools for the processing of ancient and modern HTS Changes: paleomix (1.3.6-1) unstable; urgency=medium . * New upstream version Checksums-Sha1: 54e0330da8f841c7e758f4ab773d23b7df9e2d19 11151 paleomix_1.3.6-1_riscv64.buildinfo de7de570108efecf1544b6f2879163a975c141b8 971660 paleomix_1.3.6-1_riscv64.deb Checksums-Sha256: 641d765697919d6092adf0e954124fc5acb61f5164ae0ccc60a4dc12fec63a5d 11151 paleomix_1.3.6-1_riscv64.buildinfo 54ee9e6ddc282daaf1aea02390b76924cff230ed62042a67cd337a1c48cdbbf4 971660 paleomix_1.3.6-1_riscv64.deb Files: 3eaf26bdbe0fa3771871214903505230 11151 science optional paleomix_1.3.6-1_riscv64.buildinfo 9f3daa7f7bd5064d1608cd0998a02332 971660 science optional paleomix_1.3.6-1_riscv64.deb /<>/paleomix_1.3.6-1_riscv64.changes.new could not be renamed to /<>/paleomix_1.3.6-1_riscv64.changes: Illegal seek Distribution field may be wrong!!! +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: paleomix Binary: paleomix Architecture: riscv64 Version: 1.3.6-1 Checksums-Md5: 9f3daa7f7bd5064d1608cd0998a02332 971660 paleomix_1.3.6-1_riscv64.deb Checksums-Sha1: de7de570108efecf1544b6f2879163a975c141b8 971660 paleomix_1.3.6-1_riscv64.deb Checksums-Sha256: 54ee9e6ddc282daaf1aea02390b76924cff230ed62042a67cd337a1c48cdbbf4 971660 paleomix_1.3.6-1_riscv64.deb Build-Origin: Ubuntu Build-Architecture: riscv64 Build-Date: Sun, 12 Dec 2021 05:40:28 +0000 Build-Path: /<> Build-Tainted-By: merged-usr-via-aliased-dirs usr-local-has-programs Installed-Build-Depends: adduser (= 3.118ubuntu5), autoconf (= 2.71-2), automake (= 1:1.16.5-1.1), autopoint (= 0.21-4ubuntu3), autotools-dev (= 20180224.1+nmu1), base-files (= 12ubuntu2), base-passwd (= 3.5.52), bash (= 5.1-5ubuntu1), binutils (= 2.37-10ubuntu1), binutils-common (= 2.37-10ubuntu1), binutils-riscv64-linux-gnu (= 2.37-10ubuntu1), bowtie2 (= 2.4.4-1), bsdextrautils (= 2.37.2-4ubuntu1), bsdutils (= 1:2.37.2-4ubuntu1), build-essential (= 12.9ubuntu2), bzip2 (= 1.0.8-5), ca-certificates (= 20211016), ca-certificates-java (= 20190909), coreutils (= 8.32-4ubuntu3), cpp (= 4:11.2.0-1ubuntu1), cpp-11 (= 11.2.0-12ubuntu1), dash (= 0.5.11+git20210903+057cd650a4ed-3), debconf (= 1.5.79), debhelper (= 13.5.2ubuntu1), debianutils (= 5.5-1ubuntu1), debugedit (= 1:5.0-3), default-jre (= 2:1.11-72build1), default-jre-headless (= 2:1.11-72build1), dh-autoreconf (= 20), dh-python (= 5.20211114), dh-strip-nondeterminism (= 1.12.1-1), diffutils (= 1:3.8-0ubuntu1), dpkg (= 1.20.9ubuntu3), dpkg-dev (= 1.20.9ubuntu3), dwz (= 0.14-1build1), examl (= 3.0.22-2), file (= 1:5.41-2), findutils (= 4.8.0-1ubuntu2), fontconfig-config (= 2.13.1-4.2ubuntu4), fonts-dejavu-core (= 2.37-2build1), g++ (= 4:11.2.0-1ubuntu1), g++-11 (= 11.2.0-12ubuntu1), gcc (= 4:11.2.0-1ubuntu1), gcc-11 (= 11.2.0-12ubuntu1), gcc-11-base (= 11.2.0-12ubuntu1), gettext (= 0.21-4ubuntu3), gettext-base (= 0.21-4ubuntu3), grep (= 3.7-1), groff-base (= 1.22.4-7), gzip (= 1.10-4ubuntu2), hostname (= 3.23ubuntu1), init-system-helpers (= 1.61), intltool-debian (= 0.35.0+20060710.5), java-common (= 0.72build1), libacl1 (= 2.2.53-10ubuntu2), libapache-pom-java (= 18-1), libarchive-zip-perl (= 1.68-1), libasan6 (= 11.2.0-12ubuntu1), libasound2 (= 1.2.5.1-1ubuntu1), libasound2-data (= 1.2.5.1-1ubuntu1), libatomic1 (= 11.2.0-12ubuntu1), libattr1 (= 1:2.5.1-1), libaudit-common (= 1:3.0-2ubuntu3), libaudit1 (= 1:3.0-2ubuntu3), libavahi-client3 (= 0.8-5ubuntu4), libavahi-common-data (= 0.8-5ubuntu4), libavahi-common3 (= 0.8-5ubuntu4), libbarclay-java (= 2.1.0-3.1), libbinutils (= 2.37-10ubuntu1), libblkid1 (= 2.37.2-4ubuntu1), libbrotli1 (= 1.0.9-2build4), libbsd0 (= 0.11.3-1ubuntu3), libbz2-1.0 (= 1.0.8-5), libc-bin (= 2.34-0ubuntu3), libc-dev-bin (= 2.34-0ubuntu3), libc6 (= 2.34-0ubuntu3), libc6-dev (= 2.34-0ubuntu3), libcap-ng0 (= 0.7.9-2.2build2), libcap2 (= 1:2.44-1build2), libcbor0.6 (= 0.6.0-0ubuntu4), libcc1-0 (= 11.2.0-12ubuntu1), libcom-err2 (= 1.46.4-1ubuntu1), libcommons-codec-java (= 1.15-1), libcommons-compress-java (= 1.21-1), libcommons-jexl2-java (= 2.1.1-5), libcommons-lang3-java (= 3.11-1), libcommons-logging-java (= 1.2-2), libcommons-math3-java (= 3.6.1-3), libcommons-parent-java (= 43-1), libcrypt-dev (= 1:4.4.26-1), libcrypt1 (= 1:4.4.26-1), libctf-nobfd0 (= 2.37-10ubuntu1), libctf0 (= 2.37-10ubuntu1), libcups2 (= 2.3.3op2-7ubuntu2), libcurl3-gnutls (= 7.74.0-1.3ubuntu3), libdb5.3 (= 5.3.28+dfsg1-0.8ubuntu2), libdbus-1-3 (= 1.12.20-2ubuntu2), libdebconfclient0 (= 0.256ubuntu4), libdebhelper-perl (= 13.5.2ubuntu1), libdeflate0 (= 1.8-1ubuntu1), libdpkg-perl (= 1.20.9ubuntu3), libdrm-common (= 2.4.107-8ubuntu1), libdrm-nouveau2 (= 2.4.107-8ubuntu1), libdrm-radeon1 (= 2.4.107-8ubuntu1), libdrm2 (= 2.4.107-8ubuntu1), libdw1 (= 0.186-1), libedit2 (= 3.1-20210910-1), libelf1 (= 0.186-1), libevent-core-2.1-7 (= 2.1.12-stable-1build2), libevent-pthreads-2.1-7 (= 2.1.12-stable-1build2), libexpat1 (= 2.4.1-3), libfabric1 (= 1.11.0-2), libffi8 (= 3.4.2-1ubuntu5), libfido2-1 (= 1.9.0-1build1), libfile-stripnondeterminism-perl (= 1.12.1-1), libfontconfig1 (= 2.13.1-4.2ubuntu4), libfreemarker-java (= 2.3.23-11), libfreetype6 (= 2.11.0+dfsg-1), libgatk-native-bindings-java (= 1.0.0-2.1), libgcc-11-dev (= 11.2.0-12ubuntu1), libgcc-s1 (= 11.2.0-12ubuntu1), libgcrypt20 (= 1.9.4-3ubuntu2), libgdbm-compat4 (= 1.22-1), libgdbm6 (= 1.22-1), libgif7 (= 5.1.9-2build1), libgkl-java (= 0.8.7+dfsg-3), libgl1 (= 1.3.4-2), libgl1-mesa-dri (= 21.2.6-1), libglapi-mesa (= 21.2.6-1), libglib2.0-0 (= 2.70.2-1), libglvnd0 (= 1.3.4-2), libglx-mesa0 (= 21.2.6-1), libglx0 (= 1.3.4-2), libgmp10 (= 2:6.2.1+dfsg-1ubuntu3), libgnutls30 (= 3.7.2-2ubuntu1), libgomp1 (= 11.2.0-12ubuntu1), libgoogle-gson-java (= 2.8.8-1), libgpg-error0 (= 1.42-3), libgraphite2-3 (= 1.3.14-1build1), libgssapi-krb5-2 (= 1.19.2-0ubuntu1), libharfbuzz0b (= 2.7.4-1ubuntu2), libhogweed6 (= 3.7.3-1build1), libhts3 (= 1.13+ds-2build1), libhtscodecs2 (= 1.1.1-3), libhtsjdk-java (= 2.24.1+dfsg-1), libhttpclient-java (= 4.5.13-3), libhttpcore-java (= 4.4.14-2), libhwloc-plugins (= 2.6.0-1), libhwloc15 (= 2.6.0-1), libibverbs1 (= 38.0-1), libicu67 (= 67.1-7ubuntu1), libidn2-0 (= 2.3.2-2), libisl23 (= 0.24-2), libjoptsimple-java (= 5.0.4-4), libjpeg-turbo8 (= 2.1.1-0ubuntu1), libjpeg8 (= 8c-2ubuntu8), libjson-simple-java (= 2.3.0-1), libk5crypto3 (= 1.19.2-0ubuntu1), libkeyutils1 (= 1.6.1-2ubuntu2), libkrb5-3 (= 1.19.2-0ubuntu1), libkrb5support0 (= 1.19.2-0ubuntu1), liblcms2-2 (= 2.12~rc1-2build1), libldap-2.5-0 (= 2.5.6+dfsg-1~exp1ubuntu1), liblightcouch-java (= 0.0.6-1.1), liblog4j2-java (= 2.15.0-1), liblz4-1 (= 1.9.3-2build1), liblzma5 (= 5.2.5-2build1), libmagic-mgc (= 1:5.41-2), libmagic1 (= 1:5.41-2), libmd0 (= 1.0.4-1), libmongodb-java (= 3.6.3-2), libmount1 (= 2.37.2-4ubuntu1), libmpc3 (= 1.2.1-1), libmpdec3 (= 2.5.1-2build1), libmpfr6 (= 4.1.0-3build2), libncursesw6 (= 6.3-1), libnettle8 (= 3.7.3-1build1), libnghttp2-14 (= 1.43.0-1build2), libngs-java (= 2.11.2-1), libngs-sdk-dev (= 2.11.2-1), libngs-sdk2 (= 2.11.2-1), libnl-3-200 (= 3.4.0-1build3), 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control archive=6606 bytes. 1662 bytes, 27 lines control 20972 bytes, 205 lines md5sums 257 bytes, 12 lines * postinst #!/bin/sh 406 bytes, 12 lines * prerm #!/bin/sh Package: paleomix Version: 1.3.6-1 Architecture: riscv64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 1992 Depends: python3-coloredlogs, python3-configargparse, python3-pysam, python3-ruamel.yaml, python3-setproctitle, python3:any, adapterremoval, bedtools, bowtie2, bwa, bcftools, examl, mafft, mapdamage, phylip, picard-tools, r-base-core, radiant, raxml, samtools Section: science Priority: optional Homepage: https://geogenetics.ku.dk/publications/paleomix Description: pipelines and tools for the processing of ancient and modern HTS data The PALEOMIX pipelines are a set of pipelines and tools designed to aid the rapid processing of High-Throughput Sequencing (HTS) data: The BAM pipeline processes de-multiplexed reads from one or more samples, through sequence processing and alignment, to generate BAM alignment files useful in downstream analyses; the Phylogenetic pipeline carries out genotyping and phylogenetic inference on BAM alignment files, either produced using the BAM pipeline or generated elsewhere; and the Zonkey pipeline carries out a suite of analyses on low coverage equine alignments, in order to detect the presence of F1-hybrids in archaeological assemblages. In addition, PALEOMIX aids in metagenomic analysis of the extracts. . 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+------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: riscv64 Build Type: any Build-Space: 9112 Build-Time: 244 Distribution: jammy-proposed Host Architecture: riscv64 Install-Time: 588 Job: paleomix_1.3.6-1.dsc Machine Architecture: riscv64 Package: paleomix Package-Time: 861 Source-Version: 1.3.6-1 Space: 9112 Status: successful Version: 1.3.6-1 -------------------------------------------------------------------------------- Finished at 2021-12-12T05:40:35Z Build needed 00:14:21, 9112k disk space Adding user buildd to group lxd RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=jammy --arch=riscv64 PACKAGEBUILD-22617012 Scanning for processes to kill in build PACKAGEBUILD-22617012 RUN: /usr/share/launchpad-buildd/bin/in-target umount-chroot --backend=chroot --series=jammy --arch=riscv64 PACKAGEBUILD-22617012 Stopping target for build PACKAGEBUILD-22617012 RUN: /usr/share/launchpad-buildd/bin/in-target remove-build --backend=chroot --series=jammy --arch=riscv64 PACKAGEBUILD-22617012 Removing build PACKAGEBUILD-22617012