https://launchpad.net/ubuntu/+source/snakemake/5.5.3-1/+build/17266229 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux lgw01-amd64-003 4.4.0-155-generic #182-Ubuntu SMP Tue Jul 2 14:43:15 UTC 2019 x86_64 Buildd toolchain package versions: launchpad-buildd_176 python-lpbuildd_176 sbuild_0.67.0-2ubuntu7.1 bzr-builder_0.7.3+bzr174~ppa13~ubuntu14.10.1 bzr_2.7.0-2ubuntu3.1 git-build-recipe_0.3.6~git201906051340.ff11471~ubuntu16.04.1 git_1:2.7.4-0ubuntu1.6 dpkg-dev_1.18.4ubuntu1.5 python-debian_0.1.27ubuntu2. Syncing the system clock with the buildd NTP service... 13 Jul 23:09:05 ntpdate[1935]: adjust time server 10.211.37.1 offset -0.003569 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=eoan --arch=amd64 PACKAGEBUILD-17266229 --image-type chroot /home/buildd/filecache-default/020b0022f770b890c357907d03d82568c584d50e Creating target for build PACKAGEBUILD-17266229 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=eoan --arch=amd64 PACKAGEBUILD-17266229 Starting target for build PACKAGEBUILD-17266229 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=eoan --arch=amd64 PACKAGEBUILD-17266229 'deb http://ftpmaster.internal/ubuntu eoan main universe' 'deb http://ftpmaster.internal/ubuntu eoan-security main universe' 'deb http://ftpmaster.internal/ubuntu eoan-updates main universe' 'deb http://ftpmaster.internal/ubuntu eoan-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-17266229 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=eoan --arch=amd64 PACKAGEBUILD-17266229 Updating target for build PACKAGEBUILD-17266229 Get:1 http://ftpmaster.internal/ubuntu eoan InRelease [255 kB] Get:2 http://ftpmaster.internal/ubuntu eoan-security InRelease [79.7 kB] Get:3 http://ftpmaster.internal/ubuntu eoan-updates InRelease [79.7 kB] Get:4 http://ftpmaster.internal/ubuntu eoan-proposed InRelease [107 kB] Get:5 http://ftpmaster.internal/ubuntu eoan/main amd64 Packages [963 kB] Get:6 http://ftpmaster.internal/ubuntu eoan/main Translation-en [501 kB] Get:7 http://ftpmaster.internal/ubuntu eoan/universe amd64 Packages [9053 kB] Get:8 http://ftpmaster.internal/ubuntu eoan/universe Translation-en [5297 kB] Get:9 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 Packages [76.6 kB] Get:10 http://ftpmaster.internal/ubuntu eoan-proposed/main Translation-en [42.2 kB] Get:11 http://ftpmaster.internal/ubuntu eoan-proposed/universe amd64 Packages [197 kB] Get:12 http://ftpmaster.internal/ubuntu eoan-proposed/universe Translation-en [166 kB] Fetched 16.8 MB in 3s (6479 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: g++-8 libapt-pkg5.0 libisl19 libjson-c3 libreadline7 libstdc++-8-dev Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: cpp-9 g++-9 gcc-9 gcc-9-base libapt-pkg5.90 libgcc-9-dev libisl21 libjson-c4 libpcre2-8-0 libreadline8 libstdc++-9-dev The following packages will be upgraded: adduser advancecomp apt base-files base-passwd bash binutils binutils-common binutils-x86-64-linux-gnu bsdutils build-essential bzip2 ca-certificates coreutils cpp cpp-8 dash debconf debianutils diffutils dmsetup dpkg dpkg-dev e2fslibs e2fsprogs fdisk findutils g++ g++-8 gcc gcc-8 gcc-8-base gpg gpg-agent gpgconf gpgv grep gzip init init-system-helpers libacl1 libapparmor1 libargon2-1 libasan5 libassuan0 libatomic1 libattr1 libaudit-common libaudit1 libbinutils libblkid1 libbz2-1.0 libc-bin libc-dev-bin libc6 libc6-dev libcap-ng0 libcap2 libcc1-0 libcom-err2 libcomerr2 libcryptsetup12 libdb5.3 libdebconfclient0 libdevmapper1.02.1 libdpkg-perl libext2fs2 libfdisk1 libgcc-8-dev libgcc1 libgcrypt20 libgdbm-compat4 libgdbm6 libgnutls30 libgomp1 libgpg-error0 libhogweed4 libidn11 libitm1 libkmod2 liblsan0 liblz4-1 liblzma5 libmount1 libmpfr6 libmpx2 libncurses6 libncursesw6 libnettle6 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpcre3 libperl5.28 libpng16-16 libprocps7 libquadmath0 libseccomp2 libselinux1 libsemanage-common libsemanage1 libsepol1 libslang2 libsmartcols1 libsqlite3-0 libss2 libssl1.1 libstdc++-8-dev libstdc++6 libsystemd0 libtasn1-6 libtinfo6 libtsan0 libubsan1 libudev1 libunistring2 libuuid1 libzstd1 linux-libc-dev login lsb-base mount multiarch-support ncurses-base ncurses-bin openssl optipng passwd patch perl perl-base perl-modules-5.28 pinentry-curses pkgbinarymangler procps readline-common sed systemd systemd-sysv sysvinit-utils tar tzdata util-linux xz-utils zlib1g 147 upgraded, 11 newly installed, 0 to remove and 0 not upgraded. Need to get 114 MB of archives. After this operation, 131 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 libc6-dev amd64 2.29-0ubuntu3 [2556 kB] Get:2 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 libc-dev-bin amd64 2.29-0ubuntu3 [71.5 kB] Get:3 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 linux-libc-dev amd64 5.2.0-8.9 [1059 kB] Get:4 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 libc6 amd64 2.29-0ubuntu3 [2712 kB] Get:5 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 libc-bin amd64 2.29-0ubuntu3 [629 kB] Get:6 http://ftpmaster.internal/ubuntu eoan/main amd64 gcc-9-base amd64 9.1.0-8ubuntu1 [17.7 kB] Get:7 http://ftpmaster.internal/ubuntu eoan/main amd64 libgcc1 amd64 1:9.1.0-8ubuntu1 [40.8 kB] Get:8 http://ftpmaster.internal/ubuntu eoan/main amd64 base-files amd64 10.2ubuntu4 [60.5 kB] Get:9 http://ftpmaster.internal/ubuntu eoan/main amd64 debianutils amd64 4.8.6.2 [85.5 kB] Get:10 http://ftpmaster.internal/ubuntu eoan/main amd64 bash amd64 5.0-4ubuntu1 [635 kB] Get:11 http://ftpmaster.internal/ubuntu eoan/main amd64 bsdutils amd64 1:2.33.1-0.1ubuntu2 [63.8 kB] Get:12 http://ftpmaster.internal/ubuntu eoan/main amd64 coreutils amd64 8.30-3ubuntu1 [1243 kB] Get:13 http://ftpmaster.internal/ubuntu eoan/main amd64 lsb-base all 10.2019051400ubuntu1 [12.4 kB] Get:14 http://ftpmaster.internal/ubuntu eoan/main amd64 tar amd64 1.30+dfsg-6 [243 kB] Get:15 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 dpkg amd64 1.19.7ubuntu1 [1130 kB] Get:16 http://ftpmaster.internal/ubuntu eoan/main amd64 libperl5.28 amd64 5.28.1-6 [3827 kB] Get:17 http://ftpmaster.internal/ubuntu eoan/main amd64 perl amd64 5.28.1-6 [204 kB] Get:18 http://ftpmaster.internal/ubuntu eoan/main amd64 perl-base amd64 5.28.1-6 [1511 kB] Get:19 http://ftpmaster.internal/ubuntu eoan/main amd64 perl-modules-5.28 all 5.28.1-6 [2818 kB] Get:20 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 bzip2 amd64 1.0.6-9.2 [33.9 kB] Get:21 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 libbz2-1.0 amd64 1.0.6-9.2 [32.2 kB] Get:22 http://ftpmaster.internal/ubuntu eoan/main amd64 libdb5.3 amd64 5.3.28+dfsg1-0.6ubuntu1 [672 kB] Get:23 http://ftpmaster.internal/ubuntu eoan/main amd64 libgdbm6 amd64 1.18.1-4 [27.4 kB] Get:24 http://ftpmaster.internal/ubuntu eoan/main amd64 libgdbm-compat4 amd64 1.18.1-4 [6152 B] Get:25 http://ftpmaster.internal/ubuntu eoan/main amd64 zlib1g amd64 1:1.2.11.dfsg-1ubuntu2 [54.0 kB] Get:26 http://ftpmaster.internal/ubuntu eoan/main amd64 debconf all 1.5.72 [122 kB] Get:27 http://ftpmaster.internal/ubuntu eoan/main amd64 dash amd64 0.5.10.2-5 [85.9 kB] Get:28 http://ftpmaster.internal/ubuntu eoan/main amd64 diffutils amd64 1:3.7-3 [200 kB] Get:29 http://ftpmaster.internal/ubuntu eoan/main amd64 findutils amd64 4.6.0+git+20190209-2ubuntu1 [328 kB] Get:30 http://ftpmaster.internal/ubuntu eoan/main amd64 grep amd64 3.3-1 [149 kB] Get:31 http://ftpmaster.internal/ubuntu eoan/main amd64 gzip amd64 1.10-0ubuntu1 [94.4 kB] Get:32 http://ftpmaster.internal/ubuntu eoan/main amd64 libsmartcols1 amd64 2.33.1-0.1ubuntu2 [92.1 kB] Get:33 http://ftpmaster.internal/ubuntu eoan/main amd64 libuuid1 amd64 2.33.1-0.1ubuntu2 [21.0 kB] Get:34 http://ftpmaster.internal/ubuntu eoan/main amd64 libblkid1 amd64 2.33.1-0.1ubuntu2 [134 kB] Get:35 http://ftpmaster.internal/ubuntu eoan/main amd64 libfdisk1 amd64 2.33.1-0.1ubuntu2 [173 kB] Get:36 http://ftpmaster.internal/ubuntu eoan/main amd64 libpcre2-8-0 amd64 10.32-5 [180 kB] Get:37 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 libselinux1 amd64 2.9-2 [69.7 kB] Get:38 http://ftpmaster.internal/ubuntu eoan/main amd64 libmount1 amd64 2.33.1-0.1ubuntu2 [145 kB] Get:39 http://ftpmaster.internal/ubuntu eoan/main amd64 libncurses6 amd64 6.1+20181013-2ubuntu2 [101 kB] Get:40 http://ftpmaster.internal/ubuntu eoan/main amd64 libtinfo6 amd64 6.1+20181013-2ubuntu2 [83.8 kB] Get:41 http://ftpmaster.internal/ubuntu eoan/main amd64 libncursesw6 amd64 6.1+20181013-2ubuntu2 [131 kB] Get:42 http://ftpmaster.internal/ubuntu eoan/main amd64 fdisk amd64 2.33.1-0.1ubuntu2 [119 kB] Get:43 http://ftpmaster.internal/ubuntu eoan/main amd64 login amd64 1:4.5-1.1ubuntu2 [264 kB] Get:44 http://ftpmaster.internal/ubuntu eoan/main amd64 util-linux amd64 2.33.1-0.1ubuntu2 [1002 kB] Get:45 http://ftpmaster.internal/ubuntu eoan/main amd64 ncurses-bin amd64 6.1+20181013-2ubuntu2 [164 kB] Get:46 http://ftpmaster.internal/ubuntu eoan/main amd64 sed amd64 4.7-1 [190 kB] Get:47 http://ftpmaster.internal/ubuntu eoan/main amd64 libdebconfclient0 amd64 0.249ubuntu1 [6388 B] Get:48 http://ftpmaster.internal/ubuntu eoan/main amd64 base-passwd amd64 3.5.46 [47.4 kB] Get:49 http://ftpmaster.internal/ubuntu eoan/main amd64 init-system-helpers all 1.57 [38.3 kB] Get:50 http://ftpmaster.internal/ubuntu eoan/main amd64 ncurses-base all 6.1+20181013-2ubuntu2 [17.9 kB] Get:51 http://ftpmaster.internal/ubuntu eoan/main amd64 sysvinit-utils amd64 2.93-8ubuntu1 [19.4 kB] Get:52 http://ftpmaster.internal/ubuntu eoan/main amd64 liblz4-1 amd64 1.9.1-1 [54.6 kB] Get:53 http://ftpmaster.internal/ubuntu eoan/main amd64 liblzma5 amd64 5.2.4-1 [92.4 kB] Get:54 http://ftpmaster.internal/ubuntu eoan/main amd64 libstdc++6 amd64 9.1.0-8ubuntu1 [511 kB] Get:55 http://ftpmaster.internal/ubuntu eoan/main amd64 libnettle6 amd64 3.4.1-1 [110 kB] Get:56 http://ftpmaster.internal/ubuntu eoan/main amd64 libhogweed4 amd64 3.4.1-1 [140 kB] Get:57 http://ftpmaster.internal/ubuntu eoan/main amd64 libp11-kit0 amd64 0.23.15-2 [184 kB] Get:58 http://ftpmaster.internal/ubuntu eoan/main amd64 libtasn1-6 amd64 4.13-4 [36.3 kB] Get:59 http://ftpmaster.internal/ubuntu eoan/main amd64 libunistring2 amd64 0.9.10-2 [368 kB] Get:60 http://ftpmaster.internal/ubuntu eoan/main amd64 libgnutls30 amd64 3.6.7-4ubuntu1 [771 kB] Get:61 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 systemd-sysv amd64 240-6ubuntu10 [9380 B] Get:62 http://ftpmaster.internal/ubuntu eoan/main amd64 libacl1 amd64 2.2.53-4 [18.3 kB] Get:63 http://ftpmaster.internal/ubuntu eoan/main amd64 libapparmor1 amd64 2.13.2-9ubuntu7 [34.6 kB] Get:64 http://ftpmaster.internal/ubuntu eoan/main amd64 libaudit-common all 1:2.8.4-3ubuntu1 [4200 B] Get:65 http://ftpmaster.internal/ubuntu eoan/main amd64 libcap-ng0 amd64 0.7.9-2 [11.0 kB] Get:66 http://ftpmaster.internal/ubuntu eoan/main amd64 libaudit1 amd64 1:2.8.4-3ubuntu1 [38.9 kB] Get:67 http://ftpmaster.internal/ubuntu eoan/main amd64 libcap2 amd64 1:2.25-2 [13.3 kB] Get:68 http://ftpmaster.internal/ubuntu eoan/main amd64 libjson-c4 amd64 0.13.1+dfsg-2 [28.8 kB] Get:69 http://ftpmaster.internal/ubuntu eoan/main amd64 libargon2-1 amd64 0~20171227-0.2 [19.2 kB] Get:70 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 libudev1 amd64 240-6ubuntu10 [68.1 kB] Get:71 http://ftpmaster.internal/ubuntu eoan/main amd64 libdevmapper1.02.1 amd64 2:1.02.155-2ubuntu4 [127 kB] Get:72 http://ftpmaster.internal/ubuntu eoan/main amd64 libssl1.1 amd64 1.1.1c-1ubuntu3 [1312 kB] Get:73 http://ftpmaster.internal/ubuntu eoan/main amd64 libcryptsetup12 amd64 2:2.1.0-5ubuntu2 [148 kB] Get:74 http://ftpmaster.internal/ubuntu eoan/main amd64 libgpg-error0 amd64 1.36-2 [57.9 kB] Get:75 http://ftpmaster.internal/ubuntu eoan/main amd64 libidn11 amd64 1.33-2.2ubuntu2 [46.2 kB] Get:76 http://ftpmaster.internal/ubuntu eoan/main amd64 libkmod2 amd64 26-1ubuntu1 [42.8 kB] Get:77 http://ftpmaster.internal/ubuntu eoan/main amd64 libpam0g amd64 1.3.1-5ubuntu1 [56.2 kB] Get:78 http://ftpmaster.internal/ubuntu eoan/main amd64 libseccomp2 amd64 2.4.1-0ubuntu0.19.10.3 [39.0 kB] Get:79 http://ftpmaster.internal/ubuntu eoan/main amd64 mount amd64 2.33.1-0.1ubuntu2 [113 kB] Get:80 http://ftpmaster.internal/ubuntu eoan/main amd64 libsepol1 amd64 2.9-2 [254 kB] Get:81 http://ftpmaster.internal/ubuntu eoan/main amd64 libsemanage-common all 2.9-2 [9784 B] Get:82 http://ftpmaster.internal/ubuntu eoan/main amd64 libsemanage1 amd64 2.9-2 [85.5 kB] Get:83 http://ftpmaster.internal/ubuntu eoan/main amd64 libpam-modules-bin amd64 1.3.1-5ubuntu1 [38.1 kB] Get:84 http://ftpmaster.internal/ubuntu eoan/main amd64 libpam-modules amd64 1.3.1-5ubuntu1 [248 kB] Get:85 http://ftpmaster.internal/ubuntu eoan/main amd64 passwd amd64 1:4.5-1.1ubuntu2 [816 kB] Get:86 http://ftpmaster.internal/ubuntu eoan/main amd64 adduser all 3.118ubuntu1 [163 kB] Get:87 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 systemd amd64 240-6ubuntu10 [3327 kB] Get:88 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 libsystemd0 amd64 240-6ubuntu10 [251 kB] Get:89 http://ftpmaster.internal/ubuntu eoan/main amd64 libzstd1 amd64 1.3.8+dfsg-3 [226 kB] Get:90 http://ftpmaster.internal/ubuntu eoan/main amd64 libapt-pkg5.90 amd64 1.9.1 [825 kB] Get:91 http://ftpmaster.internal/ubuntu eoan/main amd64 libgcrypt20 amd64 1.8.4-5ubuntu1 [419 kB] Get:92 http://ftpmaster.internal/ubuntu eoan/main amd64 gpgv amd64 2.2.12-1ubuntu3 [197 kB] Get:93 http://ftpmaster.internal/ubuntu eoan/main amd64 apt amd64 1.9.1 [1276 kB] Get:94 http://ftpmaster.internal/ubuntu eoan/main amd64 libext2fs2 amd64 1.45.2-1ubuntu1 [184 kB] Get:95 http://ftpmaster.internal/ubuntu eoan/main amd64 e2fsprogs amd64 1.45.2-1ubuntu1 [534 kB] Get:96 http://ftpmaster.internal/ubuntu eoan/main amd64 init amd64 1.57 [6088 B] Get:97 http://ftpmaster.internal/ubuntu eoan/main amd64 libattr1 amd64 1:2.4.48-4 [12.6 kB] Get:98 http://ftpmaster.internal/ubuntu eoan/main amd64 libpam-runtime all 1.3.1-5ubuntu1 [37.3 kB] Get:99 http://ftpmaster.internal/ubuntu eoan/main amd64 libpcre3 amd64 2:8.39-12 [231 kB] Get:100 http://ftpmaster.internal/ubuntu eoan/main amd64 libcom-err2 amd64 1.45.2-1ubuntu1 [9920 B] Get:101 http://ftpmaster.internal/ubuntu eoan/main amd64 libprocps7 amd64 2:3.3.15-2ubuntu2 [32.8 kB] Get:102 http://ftpmaster.internal/ubuntu eoan/main amd64 libss2 amd64 1.45.2-1ubuntu1 [11.3 kB] Get:103 http://ftpmaster.internal/ubuntu eoan/main amd64 procps amd64 2:3.3.15-2ubuntu2 [231 kB] Get:104 http://ftpmaster.internal/ubuntu eoan/main amd64 openssl amd64 1.1.1c-1ubuntu3 [621 kB] Get:105 http://ftpmaster.internal/ubuntu eoan/main amd64 ca-certificates all 20190110 [146 kB] Get:106 http://ftpmaster.internal/ubuntu eoan/main amd64 dmsetup amd64 2:1.02.155-2ubuntu4 [75.2 kB] Get:107 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 readline-common all 8.0-2 [53.4 kB] Get:108 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 libreadline8 amd64 8.0-2 [130 kB] Get:109 http://ftpmaster.internal/ubuntu eoan/main amd64 libslang2 amd64 2.3.2-3 [427 kB] Get:110 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 libsqlite3-0 amd64 3.29.0-1 [536 kB] Get:111 http://ftpmaster.internal/ubuntu eoan/main amd64 tzdata all 2019b-1 [187 kB] Get:112 http://ftpmaster.internal/ubuntu eoan/main amd64 xz-utils amd64 5.2.4-1 [82.5 kB] Get:113 http://ftpmaster.internal/ubuntu eoan/main amd64 libpng16-16 amd64 1.6.37-1 [179 kB] Get:114 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 multiarch-support amd64 2.29-0ubuntu3 [6924 B] Get:115 http://ftpmaster.internal/ubuntu eoan/main amd64 advancecomp amd64 2.1-2.1 [205 kB] Get:116 http://ftpmaster.internal/ubuntu eoan/main amd64 binutils-x86-64-linux-gnu amd64 2.32.51.20190702-1ubuntu1 [1903 kB] Get:117 http://ftpmaster.internal/ubuntu eoan/main amd64 libbinutils amd64 2.32.51.20190702-1ubuntu1 [471 kB] Get:118 http://ftpmaster.internal/ubuntu eoan/main amd64 binutils amd64 2.32.51.20190702-1ubuntu1 [3392 B] Get:119 http://ftpmaster.internal/ubuntu eoan/main amd64 binutils-common amd64 2.32.51.20190702-1ubuntu1 [202 kB] Get:120 http://ftpmaster.internal/ubuntu eoan/main amd64 libisl21 amd64 0.21-1 [571 kB] Get:121 http://ftpmaster.internal/ubuntu eoan/main amd64 libmpfr6 amd64 4.0.2-1 [240 kB] Get:122 http://ftpmaster.internal/ubuntu eoan/main amd64 cpp-9 amd64 9.1.0-8ubuntu1 [9698 kB] Get:123 http://ftpmaster.internal/ubuntu eoan/main amd64 g++ amd64 4:9.1.0-1ubuntu4 [1604 B] Get:124 http://ftpmaster.internal/ubuntu eoan/main amd64 gcc amd64 4:9.1.0-1ubuntu4 [5208 B] Get:125 http://ftpmaster.internal/ubuntu eoan/main amd64 cpp amd64 4:9.1.0-1ubuntu4 [27.6 kB] Get:126 http://ftpmaster.internal/ubuntu eoan/main amd64 libcc1-0 amd64 9.1.0-8ubuntu1 [49.0 kB] Get:127 http://ftpmaster.internal/ubuntu eoan/main amd64 libgomp1 amd64 9.1.0-8ubuntu1 [89.3 kB] Get:128 http://ftpmaster.internal/ubuntu eoan/main amd64 libitm1 amd64 9.1.0-8ubuntu1 [28.1 kB] Get:129 http://ftpmaster.internal/ubuntu eoan/main amd64 libatomic1 amd64 9.1.0-8ubuntu1 [9220 B] Get:130 http://ftpmaster.internal/ubuntu eoan/main amd64 libasan5 amd64 9.1.0-8ubuntu1 [395 kB] Get:131 http://ftpmaster.internal/ubuntu eoan/main amd64 liblsan0 amd64 9.1.0-8ubuntu1 [139 kB] Get:132 http://ftpmaster.internal/ubuntu eoan/main amd64 libtsan0 amd64 9.1.0-8ubuntu1 [301 kB] Get:133 http://ftpmaster.internal/ubuntu eoan/main amd64 libubsan1 amd64 9.1.0-8ubuntu1 [130 kB] Get:134 http://ftpmaster.internal/ubuntu eoan/main amd64 libquadmath0 amd64 9.1.0-8ubuntu1 [146 kB] Get:135 http://ftpmaster.internal/ubuntu eoan/main amd64 libgcc-9-dev amd64 9.1.0-8ubuntu1 [2361 kB] Get:136 http://ftpmaster.internal/ubuntu eoan/main amd64 gcc-9 amd64 9.1.0-8ubuntu1 [10.3 MB] Get:137 http://ftpmaster.internal/ubuntu eoan/main amd64 libstdc++-9-dev amd64 9.1.0-8ubuntu1 [1703 kB] Get:138 http://ftpmaster.internal/ubuntu eoan/main amd64 g++-9 amd64 9.1.0-8ubuntu1 [11.0 MB] Get:139 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 dpkg-dev all 1.19.7ubuntu1 [679 kB] Get:140 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 libdpkg-perl all 1.19.7ubuntu1 [230 kB] Get:141 http://ftpmaster.internal/ubuntu eoan/main amd64 patch amd64 2.7.6-4 [105 kB] Get:142 http://ftpmaster.internal/ubuntu eoan/main amd64 build-essential amd64 12.6ubuntu1 [4664 B] Get:143 http://ftpmaster.internal/ubuntu eoan/universe amd64 libmpx2 amd64 8.3.0-19ubuntu1 [11.8 kB] Get:144 http://ftpmaster.internal/ubuntu eoan/universe amd64 g++-8 amd64 8.3.0-19ubuntu1 [9812 kB] Get:145 http://ftpmaster.internal/ubuntu eoan/universe amd64 gcc-8 amd64 8.3.0-19ubuntu1 [9405 kB] Get:146 http://ftpmaster.internal/ubuntu eoan/universe amd64 libstdc++-8-dev amd64 8.3.0-19ubuntu1 [1533 kB] Get:147 http://ftpmaster.internal/ubuntu eoan/universe amd64 libgcc-8-dev amd64 8.3.0-19ubuntu1 [2311 kB] Get:148 http://ftpmaster.internal/ubuntu eoan/universe amd64 cpp-8 amd64 8.3.0-19ubuntu1 [8651 kB] Get:149 http://ftpmaster.internal/ubuntu eoan/universe amd64 gcc-8-base amd64 8.3.0-19ubuntu1 [18.5 kB] Get:150 http://ftpmaster.internal/ubuntu eoan/main amd64 e2fslibs amd64 1.45.2-1ubuntu1 [2716 B] Get:151 http://ftpmaster.internal/ubuntu eoan/main amd64 libassuan0 amd64 2.5.3-2 [35.6 kB] Get:152 http://ftpmaster.internal/ubuntu eoan/main amd64 pinentry-curses amd64 1.1.0-2 [36.1 kB] Get:153 http://ftpmaster.internal/ubuntu eoan/main amd64 gpg amd64 2.2.12-1ubuntu3 [475 kB] Get:154 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RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-17266229 amd64 eoan-proposed -c chroot:build-PACKAGEBUILD-17266229 --arch=amd64 --dist=eoan-proposed --nolog -A snakemake_5.5.3-1.dsc Initiating build PACKAGEBUILD-17266229 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.4.0-155-generic #182-Ubuntu SMP Tue Jul 2 14:43:15 UTC 2019 x86_64 sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on lgw01-amd64-003.buildd +==============================================================================+ | snakemake 5.5.3-1 (amd64) 13 Jul 2019 23:09 | +==============================================================================+ Package: snakemake Version: 5.5.3-1 Source Version: 5.5.3-1 Distribution: eoan-proposed Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 I: NOTICE: Log filtering will replace 'build/snakemake-nraTsn/snakemake-5.5.3' with '<>' I: NOTICE: Log filtering will replace 'build/snakemake-nraTsn' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-17266229/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- snakemake_5.5.3-1.dsc exists in .; copying to chroot Check architectures ------------------- Check dependencies ------------------ Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<>/resolver-TnMfce/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-TnMfce/apt_archive ./ InRelease Get:2 copy:/<>/resolver-TnMfce/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-TnMfce/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-TnMfce/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-TnMfce/apt_archive ./ Packages [525 B] Fetched 2858 B in 0s (246 kB/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install core build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: g++-8 libapt-pkg5.0 libisl19 libjson-c3 libreadline7 libstdc++-8-dev Use 'apt autoremove' to remove them. The following NEW packages will be installed: sbuild-build-depends-core-dummy 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 852 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-TnMfce/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [852 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 852 B in 0s (0 B/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 13965 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_amd64.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... Merged Build-Depends: debhelper (>= 11~), dh-python, ca-certificates, python3, python3-boto, python3-configargparse, python3-datrie, python3-git, python3-jsonschema, python3-networkx, python3-nose, python3-pandas, python3-psutil, python3-pygraphviz, python3-pytest, python3-pytools, python3-ratelimiter, python3-recommonmark, python3-rpy2, python3-setuptools, python3-sphinx, python3-sphinx-bootstrap-theme, python3-sphinx-rtd-theme, python3-wrapt, python3-yaml, r-cran-rmarkdown Filtered Build-Depends: debhelper (>= 11~), dh-python, ca-certificates, python3, python3-boto, python3-configargparse, python3-datrie, python3-git, python3-jsonschema, python3-networkx, python3-nose, python3-pandas, python3-psutil, python3-pygraphviz, python3-pytest, python3-pytools, python3-ratelimiter, python3-recommonmark, python3-rpy2, python3-setuptools, python3-sphinx, python3-sphinx-bootstrap-theme, python3-sphinx-rtd-theme, python3-wrapt, python3-yaml, r-cran-rmarkdown dpkg-deb: building package 'sbuild-build-depends-snakemake-dummy' in '/<>/resolver-raP1Fy/apt_archive/sbuild-build-depends-snakemake-dummy.deb'. Ign:1 copy:/<>/resolver-raP1Fy/apt_archive ./ InRelease Get:2 copy:/<>/resolver-raP1Fy/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-raP1Fy/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-raP1Fy/apt_archive ./ Sources [376 B] Get:5 copy:/<>/resolver-raP1Fy/apt_archive ./ Packages [705 B] Fetched 3200 B in 0s (0 B/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install snakemake 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: g++-8 libapt-pkg5.0 libisl19 libjson-c3 libreadline7 libstdc++-8-dev Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-python dh-strip-nondeterminism docutils-common dwz file fontconfig fontconfig-config fonts-dejavu-core fonts-font-awesome fonts-glyphicons-halflings fonts-lato fonts-mathjax fonts-roboto-slab gettext gettext-base git git-man graphviz groff-base intltool-debian libarchive-zip-perl libasn1-8-heimdal libblas3 libbsd0 libc-ares2 libcairo2 libcdt5 libcgraph6 libcroco3 libcurl3-gnutls libcurl4 libdatrie1 libelf1 liberror-perl libexpat1 libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libfribidi0 libgd3 libgfortran5 libglib2.0-0 libgraphite2-3 libgssapi-krb5-2 libgssapi3-heimdal libgts-0.7-5 libgvc6 libgvpr2 libharfbuzz0b libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhx509-5-heimdal libice6 libicu63 libjbig0 libjpeg-turbo8 libjpeg8 libjs-bootstrap libjs-d3 libjs-es5-shim libjs-highlight.js libjs-jquery libjs-jquery-datatables libjs-jquery-selectize.js libjs-jquery-ui libjs-json libjs-mathjax libjs-microplugin.js libjs-modernizr libjs-prettify libjs-sifter.js libjs-sphinxdoc libjs-twitter-bootstrap-datepicker libjs-underscore libk5crypto3 libkeyutils1 libkrb5-26-heimdal libkrb5-3 libkrb5support0 liblab-gamut1 liblapack3 libldap-2.4-2 libldap-common libltdl7 liblua5.1-0 libmagic-mgc libmagic1 libmonkey-patch-perl libmpdec2 libnghttp2-14 libnode64 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpathplan4 libpipeline1 libpixman-1-0 libpsl5 libpython3-stdlib libpython3.7-minimal libpython3.7-stdlib libroken18-heimdal librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libsm6 libssh-4 libsub-delete-perl libsub-identify-perl libsuper-perl libtcl8.6 libthai-data libthai0 libtiff5 libtk8.6 libtool libuchardet0 libuv1 libwebp6 libwind0-heimdal libx11-6 libx11-data libxau6 libxaw7 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2 libxmu6 libxpm4 libxrender1 libxss1 libxt6 libyaml-0-2 littler m4 man-db mime-support node-highlight.js node-html5shiv node-normalize.css nodejs pandoc pandoc-data po-debconf python-babel-localedata python3 python3-alabaster python3-appdirs python3-atomicwrites python3-attr python3-babel python3-boto python3-certifi python3-cffi-backend python3-chardet python3-commonmark-bkrs python3-configargparse python3-dateutil python3-datrie python3-decorator python3-distutils python3-docutils python3-git python3-gitdb python3-idna python3-imagesize python3-jinja2 python3-jsonschema python3-lib2to3 python3-markupsafe python3-minimal python3-more-itertools python3-networkx python3-nose python3-numpy python3-packaging python3-pandas python3-pandas-lib python3-pkg-resources python3-pluggy python3-psutil python3-py python3-pygments python3-pygraphviz python3-pyparsing python3-pytest python3-pytools python3-ratelimiter python3-recommonmark python3-requests python3-roman python3-rpy2 python3-setuptools python3-simplegeneric python3-six python3-smmap python3-sphinx python3-sphinx-bootstrap-theme python3-sphinx-rtd-theme python3-tz python3-urllib3 python3-wrapt python3-yaml python3.7 python3.7-minimal r-base-core r-cran-base64enc r-cran-crayon r-cran-digest r-cran-evaluate r-cran-glue r-cran-highr r-cran-htmltools r-cran-httpuv r-cran-jsonlite r-cran-knitr r-cran-later r-cran-littler r-cran-magrittr r-cran-markdown r-cran-mime r-cran-pkgkitten r-cran-promises r-cran-r6 r-cran-rcpp r-cran-rlang r-cran-rmarkdown r-cran-shiny r-cran-sourcetools r-cran-stringi r-cran-stringr r-cran-tinytex r-cran-xfun r-cran-xtable r-cran-yaml sgml-base sphinx-common sphinx-rtd-theme-common ucf unzip x11-common xdg-utils xml-core zip Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation dh-make fonts-roboto gettext-doc libasprintf-dev libgettextpo-dev git-daemon-run | git-daemon-sysvinit git-doc git-el git-email git-gui gitk gitweb git-cvs git-mediawiki git-svn gsfonts graphviz-doc groff libgd-tools krb5-doc krb5-user libjs-jquery-ui-docs fonts-mathjax-extras fonts-stix libjs-mathjax-doc tcl8.6 tk8.6 libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser npm texlive-latex-recommended texlive-xetex texlive-luatex pandoc-citeproc texlive-latex-extra context wkhtmltopdf librsvg2-bin ghc php python ruby node-katex libmail-box-perl python3-doc python3-tk python3-venv python-attr-doc python-commonmark-bkrs-doc docutils-doc fonts-linuxlibertine | ttf-linux-libertine texlive-lang-french texlive-latex-base python-git-doc python-jinja2-doc python-jsonschema-doc python3-gdal python3-scipy python-nose-doc gfortran python-numpy-doc python3-dev python3-numpy-dbg python-pandas-doc python-psutil-doc subversion python-pygments-doc ttf-bitstream-vera python-pygraphviz-doc python-pyparsing-doc python3-cryptography python3-openssl python3-socks python-rpy-docs python-setuptools-doc dvipng imagemagick-6.q16 latexmk python3-stemmer sphinx-doc texlive-fonts-recommended texlive-generic-extra python3.7-venv python3.7-doc binfmt-support elpa-ess r-doc-info | r-doc-pdf r-mathlib r-base-html r-cran-rstudioapi r-cran-lattice r-cran-ggplot2 r-cran-dbi r-cran-rsqlite r-cran-r.utils r-cran-forcats r-cran-dplyr r-cran-withr r-cran-callr r-cran-httr r-cran-curl r-cran-plyr r-cran-formatr r-cran-rgl r-cran-htmlwidgets r-cran-webshot r-cran-reticulate r-cran-magick r-cran-png r-cran-jpeg r-cran-xml2 r-cran-tibble r-cran-getopt r-cran-rcurl r-cran-testthat r-cran-future r-cran-scales r-cran-inline r-cran-pillar r-cran-dygraphs r-cran-fs r-cran-cairo r-cran-testit r-cran-remotes r-cran-plm r-cran-zoo r-cran-survival r-cran-runit sgml-base-doc Recommended packages: curl | wget | lynx less ssh-client fonts-liberation libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libgts-bin javascript-common krb5-locales publicsuffix libsasl2-modules libltdl-dev nodejs-doc libmail-sendmail-perl python3-pil python3-scipy python3-matplotlib python3-numexpr python3-tables python3-bs4 python3-html5lib python3-lxml r-recommended r-base-dev r-doc-html r-cran-testthat r-cran-withr r-cran-mockery r-cran-testit r-cran-curl r-cran-sp r-cran-tikzdevice r-cran-codetools r-cran-htmlwidgets libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils x11-xserver-utils The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-python dh-strip-nondeterminism docutils-common dwz file fontconfig fontconfig-config fonts-dejavu-core fonts-font-awesome fonts-glyphicons-halflings fonts-lato fonts-mathjax fonts-roboto-slab gettext gettext-base git git-man graphviz groff-base intltool-debian libarchive-zip-perl libasn1-8-heimdal libblas3 libbsd0 libc-ares2 libcairo2 libcdt5 libcgraph6 libcroco3 libcurl3-gnutls libcurl4 libdatrie1 libelf1 liberror-perl libexpat1 libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libfribidi0 libgd3 libgfortran5 libglib2.0-0 libgraphite2-3 libgssapi-krb5-2 libgssapi3-heimdal libgts-0.7-5 libgvc6 libgvpr2 libharfbuzz0b libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhx509-5-heimdal libice6 libicu63 libjbig0 libjpeg-turbo8 libjpeg8 libjs-bootstrap libjs-d3 libjs-es5-shim libjs-highlight.js libjs-jquery libjs-jquery-datatables libjs-jquery-selectize.js libjs-jquery-ui libjs-json libjs-mathjax libjs-microplugin.js libjs-modernizr libjs-prettify libjs-sifter.js libjs-sphinxdoc libjs-twitter-bootstrap-datepicker libjs-underscore libk5crypto3 libkeyutils1 libkrb5-26-heimdal libkrb5-3 libkrb5support0 liblab-gamut1 liblapack3 libldap-2.4-2 libldap-common libltdl7 liblua5.1-0 libmagic-mgc libmagic1 libmonkey-patch-perl libmpdec2 libnghttp2-14 libnode64 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpathplan4 libpipeline1 libpixman-1-0 libpsl5 libpython3-stdlib libpython3.7-minimal libpython3.7-stdlib libroken18-heimdal librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libsm6 libssh-4 libsub-delete-perl libsub-identify-perl libsuper-perl libtcl8.6 libthai-data libthai0 libtiff5 libtk8.6 libtool libuchardet0 libuv1 libwebp6 libwind0-heimdal libx11-6 libx11-data libxau6 libxaw7 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2 libxmu6 libxpm4 libxrender1 libxss1 libxt6 libyaml-0-2 littler m4 man-db mime-support node-highlight.js node-html5shiv node-normalize.css nodejs pandoc pandoc-data po-debconf python-babel-localedata python3 python3-alabaster python3-appdirs python3-atomicwrites python3-attr python3-babel python3-boto python3-certifi python3-cffi-backend python3-chardet python3-commonmark-bkrs python3-configargparse python3-dateutil python3-datrie python3-decorator python3-distutils python3-docutils python3-git python3-gitdb python3-idna python3-imagesize python3-jinja2 python3-jsonschema python3-lib2to3 python3-markupsafe python3-minimal python3-more-itertools python3-networkx python3-nose python3-numpy python3-packaging python3-pandas python3-pandas-lib python3-pkg-resources python3-pluggy python3-psutil python3-py python3-pygments python3-pygraphviz python3-pyparsing python3-pytest python3-pytools python3-ratelimiter python3-recommonmark python3-requests python3-roman python3-rpy2 python3-setuptools python3-simplegeneric python3-six python3-smmap python3-sphinx python3-sphinx-bootstrap-theme python3-sphinx-rtd-theme python3-tz python3-urllib3 python3-wrapt python3-yaml python3.7 python3.7-minimal r-base-core r-cran-base64enc r-cran-crayon r-cran-digest r-cran-evaluate r-cran-glue r-cran-highr r-cran-htmltools r-cran-httpuv r-cran-jsonlite r-cran-knitr r-cran-later r-cran-littler r-cran-magrittr r-cran-markdown r-cran-mime r-cran-pkgkitten r-cran-promises r-cran-r6 r-cran-rcpp r-cran-rlang r-cran-rmarkdown r-cran-shiny r-cran-sourcetools r-cran-stringi r-cran-stringr r-cran-tinytex r-cran-xfun r-cran-xtable r-cran-yaml sbuild-build-depends-snakemake-dummy sgml-base sphinx-common sphinx-rtd-theme-common ucf unzip x11-common xdg-utils xml-core zip 0 upgraded, 260 newly installed, 0 to remove and 0 not upgraded. Need to get 134 MB of archives. After this operation, 574 MB of additional disk space will be used. Get:1 copy:/<>/resolver-raP1Fy/apt_archive ./ sbuild-build-depends-snakemake-dummy 0.invalid.0 [1028 B] Get:2 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 libpython3.7-minimal amd64 3.7.4-2 [545 kB] Get:3 http://ftpmaster.internal/ubuntu eoan/main amd64 libexpat1 amd64 2.2.6-2 [88.8 kB] Get:4 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 python3.7-minimal amd64 3.7.4-2 [1766 kB] Get:5 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-minimal amd64 3.7.3-1 [23.4 kB] Get:6 http://ftpmaster.internal/ubuntu eoan/main amd64 mime-support all 3.62ubuntu1 [30.6 kB] Get:7 http://ftpmaster.internal/ubuntu eoan/main amd64 libmpdec2 amd64 2.4.2-2 [84.1 kB] Get:8 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 libpython3.7-stdlib amd64 3.7.4-2 [1728 kB] Get:9 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 python3.7 amd64 3.7.4-2 [294 kB] Get:10 http://ftpmaster.internal/ubuntu eoan/main amd64 libpython3-stdlib amd64 3.7.3-1 [6976 B] Get:11 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http://ftpmaster.internal/ubuntu eoan/main amd64 libpipeline1 amd64 1.5.1-2 [25.9 kB] Get:23 http://ftpmaster.internal/ubuntu eoan/main amd64 man-db amd64 2.8.5-2 [1102 kB] Get:24 http://ftpmaster.internal/ubuntu eoan/main amd64 fonts-lato all 2.0-2 [2698 kB] Get:25 http://ftpmaster.internal/ubuntu eoan/universe amd64 node-normalize.css all 8.0.1-3 [10.3 kB] Get:26 http://ftpmaster.internal/ubuntu eoan/main amd64 sgml-base all 1.29 [12.3 kB] Get:27 http://ftpmaster.internal/ubuntu eoan/main amd64 libmagic-mgc amd64 1:5.35-4 [200 kB] Get:28 http://ftpmaster.internal/ubuntu eoan/main amd64 libmagic1 amd64 1:5.35-4 [74.0 kB] Get:29 http://ftpmaster.internal/ubuntu eoan/main amd64 file amd64 1:5.35-4 [22.9 kB] Get:30 http://ftpmaster.internal/ubuntu eoan/main amd64 libelf1 amd64 0.176-1.1 [44.1 kB] Get:31 http://ftpmaster.internal/ubuntu eoan/main amd64 libfribidi0 amd64 1.0.5-3.1 [26.2 kB] Get:32 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 libglib2.0-0 amd64 2.61.1-1 [1253 kB] Get:33 http://ftpmaster.internal/ubuntu eoan/main amd64 libicu63 amd64 63.2-2 [8294 kB] Get:34 http://ftpmaster.internal/ubuntu eoan/main amd64 libxml2 amd64 2.9.4+dfsg1-7ubuntu3 [625 kB] Get:35 http://ftpmaster.internal/ubuntu eoan/main amd64 libyaml-0-2 amd64 0.2.1-1 [46.7 kB] Get:36 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 python3-cffi-backend amd64 1.12.3-1 [67.7 kB] Get:37 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 python3-pkg-resources all 41.0.1-1 [100 kB] Get:38 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-six all 1.12.0-1 [11.7 kB] Get:39 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-yaml amd64 3.13-2 [117 kB] Get:40 http://ftpmaster.internal/ubuntu eoan/main amd64 ucf all 3.0038+nmu1 [51.6 kB] Get:41 http://ftpmaster.internal/ubuntu eoan/main amd64 gettext-base amd64 0.19.8.1-9 [50.1 kB] Get:42 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 libkrb5support0 amd64 1.17-4 [31.7 kB] Get:43 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 libk5crypto3 amd64 1.17-4 [79.9 kB] Get:44 http://ftpmaster.internal/ubuntu eoan/main amd64 libkeyutils1 amd64 1.6-6 [10.1 kB] Get:45 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 libkrb5-3 amd64 1.17-4 [329 kB] Get:46 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 libgssapi-krb5-2 amd64 1.17-4 [121 kB] Get:47 http://ftpmaster.internal/ubuntu eoan/main amd64 libpsl5 amd64 0.20.2-2 [50.0 kB] Get:48 http://ftpmaster.internal/ubuntu eoan/main amd64 libsigsegv2 amd64 2.12-2 [13.9 kB] Get:49 http://ftpmaster.internal/ubuntu eoan/main amd64 m4 amd64 1.4.18-2 [199 kB] Get:50 http://ftpmaster.internal/ubuntu eoan/main amd64 autoconf all 2.69-11 [322 kB] Get:51 http://ftpmaster.internal/ubuntu eoan/main amd64 autotools-dev all 20180224.1 [39.6 kB] Get:52 http://ftpmaster.internal/ubuntu eoan/main amd64 automake all 1:1.16.1-4ubuntu3 [522 kB] Get:53 http://ftpmaster.internal/ubuntu eoan/main amd64 autopoint all 0.19.8.1-9 [412 kB] Get:54 http://ftpmaster.internal/ubuntu eoan/main amd64 libtool all 2.4.6-10 [194 kB] Get:55 http://ftpmaster.internal/ubuntu eoan/main amd64 dh-autoreconf all 19 [16.1 kB] Get:56 http://ftpmaster.internal/ubuntu eoan/main amd64 libarchive-zip-perl all 1.64-1 [84.9 kB] Get:57 http://ftpmaster.internal/ubuntu eoan/universe amd64 libsub-delete-perl all 1.00002-2 [6908 B] Get:58 http://ftpmaster.internal/ubuntu eoan/main amd64 libsub-identify-perl amd64 0.14-1build1 [10.5 kB] Get:59 http://ftpmaster.internal/ubuntu eoan/universe amd64 libsuper-perl all 1.20141117-1 [9572 B] Get:60 http://ftpmaster.internal/ubuntu eoan/universe amd64 libmonkey-patch-perl all 0.03-2 [11.2 kB] Get:61 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 libfile-stripnondeterminism-perl all 1.2.0-2 [14.3 kB] Get:62 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 dh-strip-nondeterminism all 1.2.0-2 [5208 B] Get:63 http://ftpmaster.internal/ubuntu eoan/main amd64 dwz amd64 0.12.20190711-1 [79.0 kB] Get:64 http://ftpmaster.internal/ubuntu eoan/main amd64 libcroco3 amd64 0.6.12-3 [81.4 kB] Get:65 http://ftpmaster.internal/ubuntu eoan/main amd64 gettext amd64 0.19.8.1-9 [896 kB] Get:66 http://ftpmaster.internal/ubuntu eoan/main amd64 intltool-debian all 0.35.0+20060710.5 [24.9 kB] Get:67 http://ftpmaster.internal/ubuntu eoan/main amd64 po-debconf all 1.0.21 [233 kB] Get:68 http://ftpmaster.internal/ubuntu eoan/main amd64 debhelper all 12.1.1ubuntu1 [899 kB] Get:69 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-lib2to3 all 3.7.3-1ubuntu1 [75.4 kB] Get:70 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-distutils all 3.7.3-1ubuntu1 [140 kB] Get:71 http://ftpmaster.internal/ubuntu eoan/main amd64 dh-python all 3.20190308 [94.5 kB] Get:72 http://ftpmaster.internal/ubuntu eoan/main amd64 xml-core all 0.18+nmu1 [21.6 kB] Get:73 http://ftpmaster.internal/ubuntu eoan/main amd64 docutils-common all 0.14+dfsg-4 [156 kB] Get:74 http://ftpmaster.internal/ubuntu eoan/main amd64 libfreetype6 amd64 2.9.1-3 [335 kB] Get:75 http://ftpmaster.internal/ubuntu eoan/main amd64 fonts-dejavu-core all 2.37-1 [1041 kB] Get:76 http://ftpmaster.internal/ubuntu eoan/main amd64 fontconfig-config all 2.13.1-2ubuntu2 [28.9 kB] Get:77 http://ftpmaster.internal/ubuntu eoan/main amd64 libfontconfig1 amd64 2.13.1-2ubuntu2 [114 kB] Get:78 http://ftpmaster.internal/ubuntu eoan/main amd64 fontconfig amd64 2.13.1-2ubuntu2 [171 kB] Get:79 http://ftpmaster.internal/ubuntu eoan/main amd64 fonts-font-awesome all 5.0.10+really4.7.0~dfsg-1 [514 kB] Get:80 http://ftpmaster.internal/ubuntu eoan/universe amd64 fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-1 [117 kB] Get:81 http://ftpmaster.internal/ubuntu eoan/universe amd64 fonts-mathjax all 2.7.4+dfsg-1 [2208 kB] Get:82 http://ftpmaster.internal/ubuntu eoan/main amd64 fonts-roboto-slab all 1.100263+20170512-1 [207 kB] Get:83 http://ftpmaster.internal/ubuntu eoan/main amd64 libroken18-heimdal amd64 7.5.0+dfsg-3 [41.6 kB] Get:84 http://ftpmaster.internal/ubuntu eoan/main amd64 libasn1-8-heimdal amd64 7.5.0+dfsg-3 [182 kB] Get:85 http://ftpmaster.internal/ubuntu eoan/main amd64 libheimbase1-heimdal amd64 7.5.0+dfsg-3 [29.6 kB] Get:86 http://ftpmaster.internal/ubuntu eoan/main amd64 libhcrypto4-heimdal amd64 7.5.0+dfsg-3 [86.6 kB] Get:87 http://ftpmaster.internal/ubuntu eoan/main amd64 libwind0-heimdal amd64 7.5.0+dfsg-3 [48.2 kB] Get:88 http://ftpmaster.internal/ubuntu eoan/main amd64 libhx509-5-heimdal amd64 7.5.0+dfsg-3 [107 kB] Get:89 http://ftpmaster.internal/ubuntu eoan/main amd64 libkrb5-26-heimdal amd64 7.5.0+dfsg-3 [207 kB] Get:90 http://ftpmaster.internal/ubuntu eoan/main amd64 libheimntlm0-heimdal amd64 7.5.0+dfsg-3 [14.9 kB] Get:91 http://ftpmaster.internal/ubuntu eoan/main amd64 libgssapi3-heimdal amd64 7.5.0+dfsg-3 [96.8 kB] Get:92 http://ftpmaster.internal/ubuntu eoan/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-1 [14.9 kB] Get:93 http://ftpmaster.internal/ubuntu eoan/main amd64 libsasl2-2 amd64 2.1.27+dfsg-1 [49.4 kB] Get:94 http://ftpmaster.internal/ubuntu eoan/main amd64 libldap-common all 2.4.47+dfsg-3ubuntu2 [16.6 kB] Get:95 http://ftpmaster.internal/ubuntu eoan/main amd64 libldap-2.4-2 amd64 2.4.47+dfsg-3ubuntu2 [155 kB] Get:96 http://ftpmaster.internal/ubuntu eoan/main amd64 libnghttp2-14 amd64 1.37.0-1 [79.0 kB] Get:97 http://ftpmaster.internal/ubuntu eoan/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2 [54.5 kB] Get:98 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 libssh-4 amd64 0.9.0-1 [197 kB] Get:99 http://ftpmaster.internal/ubuntu eoan/main amd64 libcurl3-gnutls amd64 7.64.0-4ubuntu1 [231 kB] Get:100 http://ftpmaster.internal/ubuntu eoan/main amd64 liberror-perl all 0.17027-2 [26.6 kB] Get:101 http://ftpmaster.internal/ubuntu eoan/main amd64 git-man all 1:2.20.1-2ubuntu1 [835 kB] Get:102 http://ftpmaster.internal/ubuntu eoan/main amd64 git amd64 1:2.20.1-2ubuntu1 [4107 kB] Get:103 http://ftpmaster.internal/ubuntu eoan/universe amd64 libcdt5 amd64 2.40.1-6 [19.3 kB] Get:104 http://ftpmaster.internal/ubuntu eoan/universe amd64 libcgraph6 amd64 2.40.1-6 [40.7 kB] Get:105 http://ftpmaster.internal/ubuntu eoan/main amd64 libjpeg-turbo8 amd64 2.0.1-0ubuntu2 [117 kB] Get:106 http://ftpmaster.internal/ubuntu eoan/main amd64 libjpeg8 amd64 8c-2ubuntu8 [2194 B] Get:107 http://ftpmaster.internal/ubuntu eoan/main amd64 libjbig0 amd64 2.1-3.1build1 [26.7 kB] Get:108 http://ftpmaster.internal/ubuntu eoan/main amd64 libwebp6 amd64 0.6.1-2 [185 kB] Get:109 http://ftpmaster.internal/ubuntu eoan/main amd64 libtiff5 amd64 4.0.10-4 [156 kB] Get:110 http://ftpmaster.internal/ubuntu eoan/main amd64 libxpm4 amd64 1:3.5.12-1 [34.0 kB] Get:111 http://ftpmaster.internal/ubuntu eoan/main amd64 libgd3 amd64 2.2.5-5.2 [118 kB] Get:112 http://ftpmaster.internal/ubuntu eoan/universe amd64 libgts-0.7-5 amd64 0.7.6+darcs121130-4 [150 kB] Get:113 http://ftpmaster.internal/ubuntu eoan/main amd64 libpixman-1-0 amd64 0.36.0-1 [229 kB] Get:114 http://ftpmaster.internal/ubuntu eoan/main amd64 libxcb-render0 amd64 1.13.1-2 [14.8 kB] Get:115 http://ftpmaster.internal/ubuntu eoan/main amd64 libxcb-shm0 amd64 1.13.1-2 [5548 B] Get:116 http://ftpmaster.internal/ubuntu eoan/main amd64 libxrender1 amd64 1:0.9.10-1 [18.7 kB] Get:117 http://ftpmaster.internal/ubuntu eoan/main amd64 libcairo2 amd64 1.16.0-4 [583 kB] Get:118 http://ftpmaster.internal/ubuntu eoan/main amd64 libltdl7 amd64 2.4.6-10 [38.3 kB] Get:119 http://ftpmaster.internal/ubuntu eoan/main amd64 libthai-data all 0.1.28-2 [134 kB] Get:120 http://ftpmaster.internal/ubuntu eoan/main amd64 libdatrie1 amd64 0.2.12-2 [18.5 kB] Get:121 http://ftpmaster.internal/ubuntu eoan/main amd64 libthai0 amd64 0.1.28-2 [18.1 kB] Get:122 http://ftpmaster.internal/ubuntu eoan/main amd64 libpango-1.0-0 amd64 1.42.4-6 [155 kB] Get:123 http://ftpmaster.internal/ubuntu eoan/main amd64 libgraphite2-3 amd64 1.3.13-7 [73.2 kB] Get:124 http://ftpmaster.internal/ubuntu eoan/main amd64 libharfbuzz0b amd64 2.4.0-2 [372 kB] Get:125 http://ftpmaster.internal/ubuntu eoan/main amd64 libpangoft2-1.0-0 amd64 1.42.4-6 [35.6 kB] Get:126 http://ftpmaster.internal/ubuntu eoan/main amd64 libpangocairo-1.0-0 amd64 1.42.4-6 [23.2 kB] Get:127 http://ftpmaster.internal/ubuntu eoan/universe amd64 libpathplan4 amd64 2.40.1-6 [22.0 kB] Get:128 http://ftpmaster.internal/ubuntu eoan/universe amd64 libgvc6 amd64 2.40.1-6 [599 kB] Get:129 http://ftpmaster.internal/ubuntu eoan/universe amd64 libgvpr2 amd64 2.40.1-6 [170 kB] Get:130 http://ftpmaster.internal/ubuntu eoan/universe amd64 liblab-gamut1 amd64 2.40.1-6 [178 kB] Get:131 http://ftpmaster.internal/ubuntu eoan/main amd64 x11-common all 1:7.7+19ubuntu12 [22.4 kB] Get:132 http://ftpmaster.internal/ubuntu eoan/main amd64 libice6 amd64 2:1.0.9-2 [40.2 kB] Get:133 http://ftpmaster.internal/ubuntu eoan/main amd64 libsm6 amd64 2:1.2.3-1 [16.1 kB] Get:134 http://ftpmaster.internal/ubuntu eoan/main amd64 libxt6 amd64 1:1.1.5-1 [160 kB] Get:135 http://ftpmaster.internal/ubuntu eoan/main amd64 libxmu6 amd64 2:1.1.2-2 [46.0 kB] Get:136 http://ftpmaster.internal/ubuntu eoan/main amd64 libxaw7 amd64 2:1.0.13-1 [173 kB] Get:137 http://ftpmaster.internal/ubuntu eoan/universe amd64 graphviz amd64 2.40.1-6 [558 kB] Get:138 http://ftpmaster.internal/ubuntu eoan/main amd64 libblas3 amd64 3.8.0-2 [138 kB] Get:139 http://ftpmaster.internal/ubuntu eoan/main amd64 libcurl4 amd64 7.64.0-4ubuntu1 [233 kB] Get:140 http://ftpmaster.internal/ubuntu eoan/main amd64 libgfortran5 amd64 9.1.0-8ubuntu1 [641 kB] Get:141 http://ftpmaster.internal/ubuntu eoan/universe amd64 libjs-bootstrap all 3.4.1+dfsg-1 [124 kB] Get:142 http://ftpmaster.internal/ubuntu eoan/universe amd64 libjs-d3 all 3.5.17-2 [131 kB] Get:143 http://ftpmaster.internal/ubuntu eoan/universe amd64 libjs-es5-shim all 4.5.13-1 [35.7 kB] Get:144 http://ftpmaster.internal/ubuntu eoan/universe amd64 libjs-highlight.js all 9.12.0+dfsg1-4 [277 kB] Get:145 http://ftpmaster.internal/ubuntu eoan/main amd64 libjs-jquery all 3.3.1~dfsg-3 [329 kB] Get:146 http://ftpmaster.internal/ubuntu eoan/universe amd64 libjs-jquery-datatables all 1.10.19+dfsg-1 [136 kB] Get:147 http://ftpmaster.internal/ubuntu eoan/universe amd64 libjs-sifter.js all 0.5.3+dfsg-1 [12.0 kB] Get:148 http://ftpmaster.internal/ubuntu eoan/universe amd64 libjs-microplugin.js all 0.0.3+dfsg-1 [3466 B] Get:149 http://ftpmaster.internal/ubuntu eoan/universe amd64 libjs-jquery-selectize.js all 0.12.6+dfsg-1 [50.8 kB] Get:150 http://ftpmaster.internal/ubuntu eoan/universe amd64 libjs-jquery-ui all 1.12.1+dfsg-5 [232 kB] Get:151 http://ftpmaster.internal/ubuntu eoan/universe amd64 libjs-json all 0~20180723-2 [29.1 kB] Get:152 http://ftpmaster.internal/ubuntu eoan/universe amd64 libjs-prettify all 2015.12.04+dfsg-1.1 [39.3 kB] Get:153 http://ftpmaster.internal/ubuntu eoan/main amd64 libjs-underscore all 1.9.1~dfsg-1 [98.6 kB] Get:154 http://ftpmaster.internal/ubuntu eoan/main amd64 libjs-sphinxdoc all 1.8.5-1ubuntu1 [96.4 kB] Get:155 http://ftpmaster.internal/ubuntu eoan/main amd64 liblapack3 amd64 3.8.0-2 [2099 kB] Get:156 http://ftpmaster.internal/ubuntu eoan/universe amd64 liblua5.1-0 amd64 5.1.5-8.1build3 [102 kB] Get:157 http://ftpmaster.internal/ubuntu eoan/main amd64 libc-ares2 amd64 1.14.0-1 [37.1 kB] Get:158 http://ftpmaster.internal/ubuntu eoan/main amd64 libuv1 amd64 1.24.1-1 [69.5 kB] Get:159 http://ftpmaster.internal/ubuntu eoan/universe amd64 libnode64 amd64 10.15.2~dfsg-2 [5395 kB] Get:160 http://ftpmaster.internal/ubuntu eoan/main amd64 libpaper1 amd64 1.1.28 [13.0 kB] Get:161 http://ftpmaster.internal/ubuntu eoan/main amd64 libpaper-utils amd64 1.1.28 [8400 B] Get:162 http://ftpmaster.internal/ubuntu eoan/main amd64 libtcl8.6 amd64 8.6.9+dfsg-2 [898 kB] Get:163 http://ftpmaster.internal/ubuntu eoan/main amd64 libxft2 amd64 2.3.2-2 [38.5 kB] Get:164 http://ftpmaster.internal/ubuntu eoan/main amd64 libxss1 amd64 1:1.2.3-1 [8140 B] Get:165 http://ftpmaster.internal/ubuntu eoan/main amd64 libtk8.6 amd64 8.6.9-2 [708 kB] Get:166 http://ftpmaster.internal/ubuntu eoan/main amd64 zip amd64 3.0-11build1 [167 kB] Get:167 http://ftpmaster.internal/ubuntu eoan/main amd64 unzip amd64 6.0-23ubuntu1 [167 kB] Get:168 http://ftpmaster.internal/ubuntu eoan/main amd64 xdg-utils all 1.1.3-1ubuntu2 [60.5 kB] Get:169 http://ftpmaster.internal/ubuntu eoan-proposed/universe amd64 r-base-core amd64 3.6.1-2 [24.5 MB] Get:170 http://ftpmaster.internal/ubuntu eoan-proposed/universe amd64 r-cran-littler amd64 0.3.8-1 [298 kB] Get:171 http://ftpmaster.internal/ubuntu eoan-proposed/universe amd64 littler all 0.3.8-1 [2552 B] Get:172 http://ftpmaster.internal/ubuntu eoan/universe amd64 nodejs amd64 10.15.2~dfsg-2 [61.0 kB] Get:173 http://ftpmaster.internal/ubuntu eoan/universe amd64 node-highlight.js all 9.12.0+dfsg1-4 [215 kB] Get:174 http://ftpmaster.internal/ubuntu eoan/universe amd64 node-html5shiv all 3.7.3+dfsg-2 [12.7 kB] Get:175 http://ftpmaster.internal/ubuntu eoan/universe amd64 pandoc-data all 2.2.1-3build1 [75.3 kB] Get:176 http://ftpmaster.internal/ubuntu eoan/universe amd64 pandoc amd64 2.2.1-3build1 [14.5 MB] Get:177 http://ftpmaster.internal/ubuntu eoan/main amd64 python-babel-localedata all 2.6.0+dfsg.1-1 [4071 kB] Get:178 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-appdirs all 1.4.3-1 [10.4 kB] Get:179 http://ftpmaster.internal/ubuntu eoan/universe amd64 python3-atomicwrites all 1.1.5-2 [6932 B] Get:180 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-attr all 18.2.0-1 [29.6 kB] Get:181 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-tz all 2019.1-1 [24.6 kB] Get:182 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-babel all 2.6.0+dfsg.1-1 [83.4 kB] Get:183 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-certifi all 2018.8.24-1 [140 kB] Get:184 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-chardet all 3.0.4-3 [80.4 kB] Get:185 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-idna all 2.6-1 [32.5 kB] Get:186 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-urllib3 all 1.24.1-1ubuntu1 [83.8 kB] Get:187 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-requests all 2.21.0-1 [46.8 kB] Get:188 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-boto all 2.44.0-1.1ubuntu1 [739 kB] Get:189 http://ftpmaster.internal/ubuntu eoan/universe amd64 python3-commonmark-bkrs all 0.5.4+ds-2 [28.3 kB] Get:190 http://ftpmaster.internal/ubuntu eoan/universe amd64 python3-configargparse all 0.13.0-1 [22.5 kB] Get:191 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-dateutil all 2.7.3-3 [63.3 kB] Get:192 http://ftpmaster.internal/ubuntu eoan/universe amd64 python3-datrie amd64 0.7.1-2build1 [106 kB] Get:193 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-decorator all 4.3.0-1.1 [9600 B] Get:194 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-roman all 2.0.0-3 [8624 B] Get:195 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-docutils all 0.14+dfsg-4 [363 kB] Get:196 http://ftpmaster.internal/ubuntu eoan/universe amd64 python3-smmap all 2.0.5-1 [21.3 kB] Get:197 http://ftpmaster.internal/ubuntu eoan/universe amd64 python3-gitdb all 2.0.5-1 [46.6 kB] Get:198 http://ftpmaster.internal/ubuntu eoan/universe amd64 python3-git all 2.1.11-1 [301 kB] Get:199 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-imagesize all 1.0.0-1 [5004 B] Get:200 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-markupsafe amd64 1.1.0-1 [13.8 kB] Get:201 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 python3-jinja2 all 2.10-2ubuntu1 [95.5 kB] Get:202 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-jsonschema all 2.6.0-4ubuntu2 [31.1 kB] Get:203 http://ftpmaster.internal/ubuntu eoan/universe amd64 python3-more-itertools all 4.2.0-1 [39.3 kB] Get:204 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-networkx all 2.2-1ubuntu1 [800 kB] Get:205 http://ftpmaster.internal/ubuntu eoan/universe amd64 python3-nose all 1.3.7-4 [116 kB] Get:206 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-numpy amd64 1:1.16.2-1ubuntu1 [2106 kB] Get:207 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-pyparsing all 2.2.0+dfsg1-2 [52.2 kB] Get:208 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-packaging all 19.0-1 [18.4 kB] Get:209 http://ftpmaster.internal/ubuntu eoan/universe amd64 python3-pandas-lib amd64 0.23.3+dfsg-3ubuntu1 [3468 kB] Get:210 http://ftpmaster.internal/ubuntu eoan/universe amd64 python3-pandas all 0.23.3+dfsg-3ubuntu1 [1736 kB] Get:211 http://ftpmaster.internal/ubuntu eoan/universe amd64 python3-pluggy all 0.8.0-1 [17.5 kB] Get:212 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-psutil amd64 5.5.1-1 [141 kB] Get:213 http://ftpmaster.internal/ubuntu eoan/universe amd64 python3-py all 1.8.0-1 [65.3 kB] Get:214 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-pygments all 2.3.1+dfsg-1ubuntu1 [580 kB] Get:215 http://ftpmaster.internal/ubuntu eoan/universe amd64 python3-pygraphviz amd64 1.5-1 [72.3 kB] Get:216 http://ftpmaster.internal/ubuntu eoan/universe amd64 python3-pytest all 3.10.1-2 [166 kB] Get:217 http://ftpmaster.internal/ubuntu eoan/universe amd64 python3-pytools all 2019.1-1 [37.6 kB] Get:218 http://ftpmaster.internal/ubuntu eoan/universe amd64 python3-ratelimiter amd64 1.2.0.post0-1 [5548 B] Get:219 http://ftpmaster.internal/ubuntu eoan/universe amd64 python3-recommonmark all 0.4.0+ds-5 [14.9 kB] Get:220 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-simplegeneric all 0.8.1-2 [11.2 kB] Get:221 http://ftpmaster.internal/ubuntu eoan/universe amd64 python3-rpy2 amd64 3.0.4-1 [106 kB] Get:222 http://ftpmaster.internal/ubuntu eoan-proposed/main amd64 python3-setuptools all 41.0.1-1 [252 kB] Get:223 http://ftpmaster.internal/ubuntu eoan/main amd64 sphinx-common all 1.8.5-1ubuntu1 [500 kB] Get:224 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-alabaster all 0.7.8-1 [18.5 kB] Get:225 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-sphinx all 1.8.5-1ubuntu1 [482 kB] Get:226 http://ftpmaster.internal/ubuntu eoan/universe amd64 python3-sphinx-bootstrap-theme all 0.6.5-1 [419 kB] Get:227 http://ftpmaster.internal/ubuntu eoan/main amd64 libjs-modernizr all 2.6.2+ds1-3ubuntu1 [46.2 kB] Get:228 http://ftpmaster.internal/ubuntu eoan/main amd64 sphinx-rtd-theme-common all 0.4.3+dfsg-1 [1019 kB] Get:229 http://ftpmaster.internal/ubuntu eoan/universe amd64 python3-sphinx-rtd-theme all 0.4.3+dfsg-1 [5324 B] Get:230 http://ftpmaster.internal/ubuntu eoan/main amd64 python3-wrapt amd64 1.10.11-1 [30.0 kB] Get:231 http://ftpmaster.internal/ubuntu eoan/universe amd64 r-cran-base64enc amd64 0.1-3-2 [27.4 kB] Get:232 http://ftpmaster.internal/ubuntu eoan/universe amd64 r-cran-crayon all 1.3.4-4ubuntu1 [499 kB] Get:233 http://ftpmaster.internal/ubuntu eoan-proposed/universe amd64 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Setting up liblab-gamut1 (2.40.1-6) ... Setting up x11-common (1:7.7+19ubuntu12) ... update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Setting up libnghttp2-14:amd64 (1.37.0-1) ... Setting up libmagic1:amd64 (1:5.35-4) ... Setting up fonts-roboto-slab (1.100263+20170512-1) ... Setting up gettext-base (0.19.8.1-9) ... Setting up libjs-microplugin.js (0.0.3+dfsg-1) ... Setting up libc-ares2:amd64 (1.14.0-1) ... Setting up file (1:5.35-4) ... Setting up libldap-common (2.4.47+dfsg-3ubuntu2) ... Setting up libjs-modernizr (2.6.2+ds1-3ubuntu1) ... Setting up libjbig0:amd64 (2.1-3.1build1) ... Setting up libicu63:amd64 (63.2-2) ... Setting up python-babel-localedata (2.6.0+dfsg.1-1) ... Setting up libkrb5support0:amd64 (1.17-4) ... Setting up libjs-es5-shim (4.5.13-1) ... Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-1) ... 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Setting up liblapack3:amd64 (3.8.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up libsuper-perl (1.20141117-1) ... Setting up libxcb1:amd64 (1.13.1-2) ... Setting up libtool (2.4.6-10) ... Setting up libxcb-render0:amd64 (1.13.1-2) ... Setting up fontconfig-config (2.13.1-2ubuntu2) ... Setting up libasn1-8-heimdal:amd64 (7.5.0+dfsg-3) ... Setting up libjs-twitter-bootstrap-datepicker (1.3.1+dfsg1-4) ... Setting up m4 (1.4.18-2) ... Setting up libxcb-shm0:amd64 (1.13.1-2) ... Setting up libpaper-utils (1.1.28) ... Setting up nodejs (10.15.2~dfsg-2) ... update-alternatives: using /usr/bin/nodejs to provide /usr/bin/js (js) in auto mode Setting up libhcrypto4-heimdal:amd64 (7.5.0+dfsg-3) ... Setting up libjs-jquery-datatables (1.10.19+dfsg-1) ... Setting up libthai0:amd64 (0.1.28-2) ... Setting up libwind0-heimdal:amd64 (7.5.0+dfsg-3) ... Setting up libjs-jquery-ui (1.12.1+dfsg-5) ... Setting up pandoc (2.2.1-3build1) ... Setting up bsdmainutils (11.1.2ubuntu2) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libgssapi-krb5-2:amd64 (1.17-4) ... Setting up libcroco3:amd64 (0.6.12-3) ... Setting up libjs-sphinxdoc (1.8.5-1ubuntu1) ... Setting up libssh-4:amd64 (0.9.0-1) ... Setting up autoconf (2.69-11) ... Setting up libgvpr2 (2.40.1-6) ... Setting up dwz (0.12.20190711-1) ... Setting up groff-base (1.22.4-3) ... Setting up xml-core (0.18+nmu1) ... Setting up libx11-6:amd64 (2:1.6.7-1) ... Setting up libtiff5:amd64 (4.0.10-4) ... Setting up libfontconfig1:amd64 (2.13.1-2ubuntu2) ... Setting up libsm6:amd64 (2:1.2.3-1) ... Setting up libmonkey-patch-perl (0.03-2) ... Setting up libpython3-stdlib:amd64 (3.7.3-1) ... Setting up automake (1:1.16.1-4ubuntu3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.2.0-2) ... Setting up python3.7 (3.7.4-2) ... Setting up node-highlight.js (9.12.0+dfsg1-4) ... Setting up fontconfig (2.13.1-2ubuntu2) ... Regenerating fonts cache... done. Setting up gettext (0.19.8.1-9) ... Setting up libxpm4:amd64 (1:3.5.12-1) ... Setting up libxrender1:amd64 (1:0.9.10-1) ... Setting up libhx509-5-heimdal:amd64 (7.5.0+dfsg-3) ... Setting up libpango-1.0-0:amd64 (1.42.4-6) ... Setting up node-html5shiv (3.7.3+dfsg-2) ... Setting up libxext6:amd64 (2:1.3.3-1) ... Setting up python3 (3.7.3-1) ... Setting up man-db (2.8.5-2) ... Not building database; man-db/auto-update is not 'true'. Created symlink /etc/systemd/system/timers.target.wants/man-db.timer → /lib/systemd/system/man-db.timer. Setting up python3-markupsafe (1.1.0-1) ... Setting up libcairo2:amd64 (1.16.0-4) ... Setting up python3-psutil (5.5.1-1) ... Setting up python3-tz (2019.1-1) ... Setting up python3-atomicwrites (1.1.5-2) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up python3-ratelimiter (1.2.0.post0-1) ... Setting up python3-six (1.12.0-1) ... Setting up python3-roman (2.0.0-3) ... Setting up python3-decorator (4.3.0-1.1) ... Setting up python3-jinja2 (2.10-2ubuntu1) ... Setting up python3-pygments (2.3.1+dfsg-1ubuntu1) ... Setting up python3-pyparsing (2.2.0+dfsg1-2) ... Setting up python3-certifi (2018.8.24-1) ... Setting up sphinx-common (1.8.5-1ubuntu1) ... Setting up libgd3:amd64 (2.2.5-5.2) ... Setting up python3-idna (2.6-1) ... Setting up python3-wrapt (1.10.11-1) ... Setting up libxt6:amd64 (1:1.1.5-1) ... Setting up python3-urllib3 (1.24.1-1ubuntu1) ... Setting up python3-pluggy (0.8.0-1) ... Setting up python3-commonmark-bkrs (0.5.4+ds-2) ... Setting up python3-dateutil (2.7.3-3) ... Setting up libxss1:amd64 (1:1.2.3-1) ... Setting up python3-datrie:amd64 (0.7.1-2build1) ... Setting up libpangoft2-1.0-0:amd64 (1.42.4-6) ... Setting up python3-simplegeneric (0.8.1-2) ... Setting up python3-lib2to3 (3.7.3-1ubuntu1) ... Setting up python3-appdirs (1.4.3-1) ... Setting up python3-smmap (2.0.5-1) ... Setting up python3-cffi-backend (1.12.3-1) ... Setting up libpangocairo-1.0-0:amd64 (1.42.4-6) ... Setting up python3-imagesize (1.0.0-1) ... Setting up libkrb5-26-heimdal:amd64 (7.5.0+dfsg-3) ... Setting up python3-pkg-resources (41.0.1-1) ... Setting up python3-distutils (3.7.3-1ubuntu1) ... Setting up dh-python (3.20190308) ... Setting up python3-more-itertools (4.2.0-1) ... Setting up python3-configargparse (0.13.0-1) ... Setting up python3-attr (18.2.0-1) ... Setting up libxft2:amd64 (2.3.2-2) ... Setting up libxmu6:amd64 (2:1.1.2-2) ... Setting up python3-setuptools (41.0.1-1) ... Setting up python3-py (1.8.0-1) ... Setting up python3-babel (2.6.0+dfsg.1-1) ... update-alternatives: using /usr/bin/pybabel-python3 to provide /usr/bin/pybabel (pybabel) in auto mode Setting up python3-pytest (3.10.1-2) ... Setting up python3-alabaster (0.7.8-1) ... Setting up po-debconf (1.0.21) ... Setting up libtk8.6:amd64 (8.6.9-2) ... Setting up python3-yaml (3.13-2) ... Setting up libxaw7:amd64 (2:1.0.13-1) ... Setting up python3-gitdb (2.0.5-1) ... Setting up python3-networkx (2.2-1ubuntu1) ... Setting up python3-nose (1.3.7-4) ... Setting up libheimntlm0-heimdal:amd64 (7.5.0+dfsg-3) ... Setting up python3-packaging (19.0-1) ... Setting up python3-chardet (3.0.4-3) ... Setting up libgssapi3-heimdal:amd64 (7.5.0+dfsg-3) ... Setting up python3-jsonschema (2.6.0-4ubuntu2) ... update-alternatives: using /usr/bin/python3-jsonschema to provide /usr/bin/jsonschema (jsonschema) in auto mode Setting up python3-sphinx-bootstrap-theme (0.6.5-1) ... Setting up python3-requests (2.21.0-1) ... Setting up libgvc6 (2.40.1-6) ... Setting up python3-numpy (1:1.16.2-1ubuntu1) ... Setting up python3-boto (2.44.0-1.1ubuntu1) ... Setting up graphviz (2.40.1-6) ... Setting up python3-pandas-lib (0.23.3+dfsg-3ubuntu1) ... Setting up libldap-2.4-2:amd64 (2.4.47+dfsg-3ubuntu2) ... Setting up libcurl3-gnutls:amd64 (7.64.0-4ubuntu1) ... Setting up python3-pandas (0.23.3+dfsg-3ubuntu1) ... Setting up git (1:2.20.1-2ubuntu1) ... Setting up python3-pytools (2019.1-1) ... Setting up python3-pygraphviz (1.5-1) ... Setting up libcurl4:amd64 (7.64.0-4ubuntu1) ... Setting up python3-git (2.1.11-1) ... Setting up r-base-core (3.6.1-2) ... Creating config file /etc/R/Renviron with new version Setting up r-cran-crayon (1.3.4-4ubuntu1) ... Setting up r-cran-sourcetools (0.1.7-2) ... Setting up python3-rpy2 (3.0.4-1) ... Setting up r-cran-r6 (2.4.0-1) ... Setting up r-cran-pkgkitten (0.1.4-2) ... Setting up r-cran-magrittr (1.5-5) ... Setting up r-cran-littler (0.3.8-1) ... Setting up r-cran-rcpp (1.0.1-1) ... Setting up r-cran-rlang (0.4.0-1) ... Setting up littler (0.3.8-1) ... Setting up r-cran-xfun (0.8-1) ... Setting up r-cran-mime (0.6-1) ... Setting up r-cran-base64enc (0.1-3-2) ... Setting up r-cran-digest (0.6.20-1) ... Setting up r-cran-yaml (2.2.0-1) ... Setting up r-cran-evaluate (0.13-1) ... Setting up r-cran-highr (0.7+dfsg-1) ... Setting up r-cran-glue (1.3.0-1) ... Setting up r-cran-xtable (1:1.8-4-1) ... Setting up r-cran-jsonlite (1.6+dfsg-1) ... Setting up r-cran-stringi (1.4.3-1) ... Setting up r-cran-markdown (0.9+dfsg-1) ... Setting up r-cran-later (0.8.0+dfsg-1) ... Setting up r-cran-htmltools (0.3.6-2) ... Setting up r-cran-tinytex (0.14-1) ... Setting up r-cran-stringr (1.4.0-1) ... Setting up r-cran-promises (1.0.1-2) ... Setting up r-cran-knitr (1.23+dfsg-1) ... Setting up r-cran-httpuv (1.5.1+dfsg-1) ... Setting up r-cran-shiny (1.3.2+dfsg-1) ... Setting up r-cran-rmarkdown (1.13+dfsg-1) ... Setting up dh-autoreconf (19) ... Setting up dh-strip-nondeterminism (1.2.0-2) ... Setting up debhelper (12.1.1ubuntu1) ... Processing triggers for systemd (240-6ubuntu10) ... Processing triggers for libc-bin (2.29-0ubuntu3) ... Processing triggers for sgml-base (1.29) ... Setting up docutils-common (0.14+dfsg-4) ... Processing triggers for sgml-base (1.29) ... Setting up python3-docutils (0.14+dfsg-4) ... update-alternatives: using /usr/share/docutils/scripts/python3/rst-buildhtml to provide /usr/bin/rst-buildhtml (rst-buildhtml) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2html to provide /usr/bin/rst2html (rst2html) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2html4 to provide /usr/bin/rst2html4 (rst2html4) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2html5 to provide /usr/bin/rst2html5 (rst2html5) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2latex to provide /usr/bin/rst2latex (rst2latex) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2man to provide /usr/bin/rst2man (rst2man) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2odt to provide /usr/bin/rst2odt (rst2odt) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2odt_prepstyles to provide /usr/bin/rst2odt_prepstyles (rst2odt_prepstyles) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2pseudoxml to provide /usr/bin/rst2pseudoxml (rst2pseudoxml) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2s5 to provide /usr/bin/rst2s5 (rst2s5) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2xetex to provide /usr/bin/rst2xetex (rst2xetex) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rst2xml to provide /usr/bin/rst2xml (rst2xml) in auto mode update-alternatives: using /usr/share/docutils/scripts/python3/rstpep2html to provide /usr/bin/rstpep2html (rstpep2html) in auto mode Setting up python3-recommonmark (0.4.0+ds-5) ... Setting up python3-sphinx (1.8.5-1ubuntu1) ... update-alternatives: using /usr/share/sphinx/scripts/python3/sphinx-apidoc to provide /usr/bin/sphinx-apidoc (sphinx-apidoc) in auto mode update-alternatives: using /usr/share/sphinx/scripts/python3/sphinx-autogen to provide /usr/bin/sphinx-autogen (sphinx-autogen) in auto mode update-alternatives: using /usr/share/sphinx/scripts/python3/sphinx-build to provide /usr/bin/sphinx-build (sphinx-build) in auto mode update-alternatives: using /usr/share/sphinx/scripts/python3/sphinx-quickstart to provide /usr/bin/sphinx-quickstart (sphinx-quickstart) in auto mode Setting up python3-sphinx-rtd-theme (0.4.3+dfsg-1) ... Setting up sbuild-build-depends-snakemake-dummy (0.invalid.0) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.4.0-155-generic amd64 (x86_64) Toolchain package versions: binutils_2.32.51.20190702-1ubuntu1 dpkg-dev_1.19.7ubuntu1 g++-8_8.3.0-19ubuntu1 g++-9_9.1.0-8ubuntu1 gcc-8_8.3.0-19ubuntu1 gcc-9_9.1.0-8ubuntu1 libc6-dev_2.29-0ubuntu3 libstdc++-8-dev_8.3.0-19ubuntu1 libstdc++-9-dev_9.1.0-8ubuntu1 libstdc++6_9.1.0-8ubuntu1 linux-libc-dev_5.2.0-8.9 Package versions: adduser_3.118ubuntu1 advancecomp_2.1-2.1 apt_1.9.1 autoconf_2.69-11 automake_1:1.16.1-4ubuntu3 autopoint_0.19.8.1-9 autotools-dev_20180224.1 base-files_10.2ubuntu4 base-passwd_3.5.46 bash_5.0-4ubuntu1 binutils_2.32.51.20190702-1ubuntu1 binutils-common_2.32.51.20190702-1ubuntu1 binutils-x86-64-linux-gnu_2.32.51.20190702-1ubuntu1 bsdmainutils_11.1.2ubuntu2 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libgnutls30_3.6.7-4ubuntu1 libgomp1_9.1.0-8ubuntu1 libgpg-error0_1.36-2 libgraphite2-3_1.3.13-7 libgssapi-krb5-2_1.17-4 libgssapi3-heimdal_7.5.0+dfsg-3 libgts-0.7-5_0.7.6+darcs121130-4 libgvc6_2.40.1-6 libgvpr2_2.40.1-6 libharfbuzz0b_2.4.0-2 libhcrypto4-heimdal_7.5.0+dfsg-3 libheimbase1-heimdal_7.5.0+dfsg-3 libheimntlm0-heimdal_7.5.0+dfsg-3 libhogweed4_3.4.1-1 libhx509-5-heimdal_7.5.0+dfsg-3 libice6_2:1.0.9-2 libicu63_63.2-2 libidn11_1.33-2.2ubuntu2 libidn2-0_2.0.5-1 libip4tc0_1.6.1-2ubuntu3 libisl19_0.20-2 libisl21_0.21-1 libitm1_9.1.0-8ubuntu1 libjbig0_2.1-3.1build1 libjpeg-turbo8_2.0.1-0ubuntu2 libjpeg8_8c-2ubuntu8 libjs-bootstrap_3.4.1+dfsg-1 libjs-d3_3.5.17-2 libjs-es5-shim_4.5.13-1 libjs-highlight.js_9.12.0+dfsg1-4 libjs-jquery_3.3.1~dfsg-3 libjs-jquery-datatables_1.10.19+dfsg-1 libjs-jquery-selectize.js_0.12.6+dfsg-1 libjs-jquery-ui_1.12.1+dfsg-5 libjs-json_0~20180723-2 libjs-mathjax_2.7.4+dfsg-1 libjs-microplugin.js_0.0.3+dfsg-1 libjs-modernizr_2.6.2+ds1-3ubuntu1 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libstdc++-9-dev_9.1.0-8ubuntu1 libstdc++6_9.1.0-8ubuntu1 libsub-delete-perl_1.00002-2 libsub-identify-perl_0.14-1build1 libsuper-perl_1.20141117-1 libsystemd0_240-6ubuntu10 libtasn1-6_4.13-4 libtcl8.6_8.6.9+dfsg-2 libthai-data_0.1.28-2 libthai0_0.1.28-2 libtiff5_4.0.10-4 libtinfo6_6.1+20181013-2ubuntu2 libtk8.6_8.6.9-2 libtool_2.4.6-10 libtsan0_9.1.0-8ubuntu1 libubsan1_9.1.0-8ubuntu1 libuchardet0_0.0.6-3 libudev1_240-6ubuntu10 libunistring2_0.9.10-2 libusb-0.1-4_2:0.1.12-32 libuuid1_2.33.1-0.1ubuntu2 libuv1_1.24.1-1 libwebp6_0.6.1-2 libwind0-heimdal_7.5.0+dfsg-3 libx11-6_2:1.6.7-1 libx11-data_2:1.6.7-1 libxau6_1:1.0.8-1 libxaw7_2:1.0.13-1 libxcb-render0_1.13.1-2 libxcb-shm0_1.13.1-2 libxcb1_1.13.1-2 libxdmcp6_1:1.1.2-3 libxext6_2:1.3.3-1 libxft2_2.3.2-2 libxml2_2.9.4+dfsg1-7ubuntu3 libxmu6_2:1.1.2-2 libxpm4_1:3.5.12-1 libxrender1_1:0.9.10-1 libxss1_1:1.2.3-1 libxt6_1:1.1.5-1 libyaml-0-2_0.2.1-1 libzstd1_1.3.8+dfsg-3 linux-libc-dev_5.2.0-8.9 littler_0.3.8-1 lockfile-progs_0.1.18 login_1:4.5-1.1ubuntu2 lsb-base_10.2019051400ubuntu1 m4_1.4.18-2 make_4.2.1-1.2 man-db_2.8.5-2 mawk_1.3.3-17ubuntu3 mime-support_3.62ubuntu1 mount_2.33.1-0.1ubuntu2 multiarch-support_2.29-0ubuntu3 ncurses-base_6.1+20181013-2ubuntu2 ncurses-bin_6.1+20181013-2ubuntu2 node-highlight.js_9.12.0+dfsg1-4 node-html5shiv_3.7.3+dfsg-2 node-normalize.css_8.0.1-3 nodejs_10.15.2~dfsg-2 openssl_1.1.1c-1ubuntu3 optipng_0.7.7-1 pandoc_2.2.1-3build1 pandoc-data_2.2.1-3build1 passwd_1:4.5-1.1ubuntu2 patch_2.7.6-4 perl_5.28.1-6 perl-base_5.28.1-6 perl-modules-5.28_5.28.1-6 pinentry-curses_1.1.0-2 pkgbinarymangler_144 po-debconf_1.0.21 policyrcd-script-zg2_0.1-3 procps_2:3.3.15-2ubuntu2 python-babel-localedata_2.6.0+dfsg.1-1 python3_3.7.3-1 python3-alabaster_0.7.8-1 python3-appdirs_1.4.3-1 python3-atomicwrites_1.1.5-2 python3-attr_18.2.0-1 python3-babel_2.6.0+dfsg.1-1 python3-boto_2.44.0-1.1ubuntu1 python3-certifi_2018.8.24-1 python3-cffi-backend_1.12.3-1 python3-chardet_3.0.4-3 python3-commonmark-bkrs_0.5.4+ds-2 python3-configargparse_0.13.0-1 python3-dateutil_2.7.3-3 python3-datrie_0.7.1-2build1 python3-decorator_4.3.0-1.1 python3-distutils_3.7.3-1ubuntu1 python3-docutils_0.14+dfsg-4 python3-git_2.1.11-1 python3-gitdb_2.0.5-1 python3-idna_2.6-1 python3-imagesize_1.0.0-1 python3-jinja2_2.10-2ubuntu1 python3-jsonschema_2.6.0-4ubuntu2 python3-lib2to3_3.7.3-1ubuntu1 python3-markupsafe_1.1.0-1 python3-minimal_3.7.3-1 python3-more-itertools_4.2.0-1 python3-networkx_2.2-1ubuntu1 python3-nose_1.3.7-4 python3-numpy_1:1.16.2-1ubuntu1 python3-packaging_19.0-1 python3-pandas_0.23.3+dfsg-3ubuntu1 python3-pandas-lib_0.23.3+dfsg-3ubuntu1 python3-pkg-resources_41.0.1-1 python3-pluggy_0.8.0-1 python3-psutil_5.5.1-1 python3-py_1.8.0-1 python3-pygments_2.3.1+dfsg-1ubuntu1 python3-pygraphviz_1.5-1 python3-pyparsing_2.2.0+dfsg1-2 python3-pytest_3.10.1-2 python3-pytools_2019.1-1 python3-ratelimiter_1.2.0.post0-1 python3-recommonmark_0.4.0+ds-5 python3-requests_2.21.0-1 python3-roman_2.0.0-3 python3-rpy2_3.0.4-1 python3-setuptools_41.0.1-1 python3-simplegeneric_0.8.1-2 python3-six_1.12.0-1 python3-smmap_2.0.5-1 python3-sphinx_1.8.5-1ubuntu1 python3-sphinx-bootstrap-theme_0.6.5-1 python3-sphinx-rtd-theme_0.4.3+dfsg-1 python3-tz_2019.1-1 python3-urllib3_1.24.1-1ubuntu1 python3-wrapt_1.10.11-1 python3-yaml_3.13-2 python3.7_3.7.4-2 python3.7-minimal_3.7.4-2 r-base-core_3.6.1-2 r-cran-base64enc_0.1-3-2 r-cran-crayon_1.3.4-4ubuntu1 r-cran-digest_0.6.20-1 r-cran-evaluate_0.13-1 r-cran-glue_1.3.0-1 r-cran-highr_0.7+dfsg-1 r-cran-htmltools_0.3.6-2 r-cran-httpuv_1.5.1+dfsg-1 r-cran-jsonlite_1.6+dfsg-1 r-cran-knitr_1.23+dfsg-1 r-cran-later_0.8.0+dfsg-1 r-cran-littler_0.3.8-1 r-cran-magrittr_1.5-5 r-cran-markdown_0.9+dfsg-1 r-cran-mime_0.6-1 r-cran-pkgkitten_0.1.4-2 r-cran-promises_1.0.1-2 r-cran-r6_2.4.0-1 r-cran-rcpp_1.0.1-1 r-cran-rlang_0.4.0-1 r-cran-rmarkdown_1.13+dfsg-1 r-cran-shiny_1.3.2+dfsg-1 r-cran-sourcetools_0.1.7-2 r-cran-stringi_1.4.3-1 r-cran-stringr_1.4.0-1 r-cran-tinytex_0.14-1 r-cran-xfun_0.8-1 r-cran-xtable_1:1.8-4-1 r-cran-yaml_2.2.0-1 readline-common_8.0-2 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-snakemake-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12 sgml-base_1.29 sphinx-common_1.8.5-1ubuntu1 sphinx-rtd-theme-common_0.4.3+dfsg-1 systemd_240-6ubuntu10 systemd-sysv_240-6ubuntu10 sysv-rc_2.88dsf-59.3ubuntu2 sysvinit-utils_2.93-8ubuntu1 tar_1.30+dfsg-6 tzdata_2019b-1 ubuntu-keyring_2018.09.18.1 ucf_3.0038+nmu1 unzip_6.0-23ubuntu1 util-linux_2.33.1-0.1ubuntu2 x11-common_1:7.7+19ubuntu12 xdg-utils_1.1.3-1ubuntu2 xml-core_0.18+nmu1 xz-utils_5.2.4-1 zip_3.0-11build1 zlib1g_1:1.2.11.dfsg-1ubuntu2 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Sat Jul 13 15:53:02 2019 UTC gpgv: using RSA key 9A3C07BD06DE2F416E813A5D612EF1613E050F54 gpgv: issuer "daissi@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./snakemake_5.5.3-1.dsc dpkg-source: info: extracting snakemake in snakemake-5.5.3 dpkg-source: info: unpacking snakemake_5.5.3.orig.tar.gz dpkg-source: info: unpacking snakemake_5.5.3-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying 0001-Use-the-inbuild-sphinx.ext.napoleon.patch dpkg-source: info: applying 0003-Use-debian-s-mathjax-package.patch dpkg-source: info: applying 0003-Compat-fix.patch dpkg-source: info: applying 0006-restore-bin.patch dpkg-source: info: applying 0008-remove_sphinx.ext.patch dpkg-source: info: applying 0009-skip-test-without-google-cloud-sdk.patch dpkg-source: info: applying 0011-fix-privacy-breach.patch Check disc space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=4 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LOGNAME=buildd PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=build-PACKAGEBUILD-17266229 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-17266229 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-17266229 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package snakemake dpkg-buildpackage: info: source version 5.5.3-1 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 fakeroot debian/rules clean dh clean --with python3,sphinxdoc --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild I: pybuild base:217: python3.7 setup.py clean running clean removing '/<>/.pybuild/cpython3_3.7_snakemake/build' (and everything under it) 'build/bdist.linux-amd64' does not exist -- can't clean it 'build/scripts-3.7' does not exist -- can't clean it dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules build dh build --with python3,sphinxdoc --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild I: pybuild base:217: python3.7 setup.py config running config debian/rules override_dh_auto_build make[1]: Entering directory '/<>' dh_auto_build I: pybuild base:217: /usr/bin/python3 setup.py build running build running build_py creating /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/singularity.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/benchmark.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/gui.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/persistence.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/workflow.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/cwl.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/checkpoints.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/rules.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/logging.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/utils.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/parser.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/common.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/output_index.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/wrapper.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/exceptions.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/conda.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/shell.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/scheduler.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/executors.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/script.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/_version.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/__init__.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/jobs.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/__main__.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/io.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/dag.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/stats.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/decorators.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake creating /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote copying snakemake/remote/NCBI.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote copying snakemake/remote/S3.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote copying snakemake/remote/GS.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote copying snakemake/remote/HTTP.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote copying snakemake/remote/gfal.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote copying snakemake/remote/S3Mocked.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote copying snakemake/remote/SFTP.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote copying snakemake/remote/EGA.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote copying snakemake/remote/gridftp.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote copying snakemake/remote/dropbox.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote copying snakemake/remote/XRootD.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote copying snakemake/remote/webdav.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote copying snakemake/remote/iRODS.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote copying snakemake/remote/__init__.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote copying snakemake/remote/FTP.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote creating /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/report copying snakemake/report/__init__.py -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/report copying snakemake/report.css -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/jobscript.sh -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/gui.html -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake copying snakemake/report/table.html -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/report copying snakemake/report/report.html -> /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/report UPDATING /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/_version.py set /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/_version.py to '5.5.3' PATH=/<>/.pybuild/cpython3_3.7_snakemake/build/bin:/<>/.pybuild/cpython3_3.7_snakemake/build/bin:/<>/.pybuild/cpython3_3.7_snakemake/build/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games \ PYTHONPATH=/<>/.pybuild/cpython3_3.7_snakemake/build \ python3 setup.py build_sphinx running build_sphinx Running Sphinx v1.8.5 making output directory... building [mo]: targets for 0 po files that are out of date building [html]: targets for 30 source files that are out of date updating environment: 30 added, 0 changed, 0 removed reading sources... [ 3%] api_reference/internal/modules reading sources... [ 6%] api_reference/internal/snakemake reading sources... [ 10%] api_reference/internal/snakemake.remote reading sources... [ 13%] api_reference/internal/snakemake.report reading sources... [ 16%] api_reference/snakemake reading sources... [ 20%] api_reference/snakemake_utils reading sources... [ 23%] executable reading sources... [ 26%] getting_started/examples reading sources... [ 30%] getting_started/installation reading sources... [ 33%] index reading sources... [ 36%] project_info/authors reading sources... [ 40%] project_info/citations reading sources... [ 43%] project_info/contributing reading sources... [ 46%] project_info/faq reading sources... [ 50%] project_info/history reading sources... [ 53%] project_info/license reading sources... [ 56%] project_info/more_resources reading sources... [ 60%] snakefiles/configuration reading sources... [ 63%] snakefiles/deployment reading sources... [ 66%] snakefiles/modularization reading sources... [ 70%] snakefiles/remote_files reading sources... [ 73%] snakefiles/reporting reading sources... [ 76%] snakefiles/rules reading sources... [ 80%] snakefiles/utils reading sources... [ 83%] snakefiles/writing_snakefiles reading sources... [ 86%] tutorial/additional_features reading sources... [ 90%] tutorial/advanced reading sources... [ 93%] tutorial/basics reading sources... [ 96%] tutorial/setup reading sources... [100%] tutorial/tutorial /<>/snakemake/exceptions.py:docstring of snakemake.exceptions.print_exception:6: WARNING: Unexpected indentation. WARNING: autodoc: failed to import module 'gui' from module 'snakemake'; the following exception was raised: No module named 'flask' /<>/snakemake/io.py:docstring of snakemake.io.expand:5: WARNING: Unexpected indentation. /<>/snakemake/io.py:docstring of snakemake.io.expand:3: WARNING: Inline emphasis start-string without end-string. /<>/snakemake/io.py:docstring of snakemake.io.expand:7: WARNING: Block quote ends without a blank line; unexpected unindent. /<>/snakemake/io.py:docstring of snakemake.io.expand:7: WARNING: Inline strong start-string without end-string. /<>/snakemake/io.py:docstring of snakemake.io.limit:5: WARNING: Unexpected indentation. /<>/snakemake/io.py:docstring of snakemake.io.limit:3: WARNING: Inline strong start-string without end-string. /<>/snakemake/scheduler.py:docstring of snakemake.scheduler.JobScheduler.job_selector:3: WARNING: Block quote ends without a blank line; unexpected unindent. WARNING: autodoc: failed to import module 'FTP' from module 'snakemake.remote'; the following exception was raised: Traceback (most recent call last): File "/<>/snakemake/remote/FTP.py", line 19, in import ftputil ModuleNotFoundError: No module named 'ftputil' During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 154, in import_module __import__(modname) File "/<>/snakemake/remote/FTP.py", line 23, in "must be installed to use SFTP remote() file functionality. %s" % e.msg) snakemake.exceptions.WorkflowError: The Python 3 package 'ftputil' must be installed to use SFTP remote() file functionality. No module named 'ftputil' WARNING: autodoc: failed to import module 'GS' from module 'snakemake.remote'; the following exception was raised: Traceback (most recent call last): File "/<>/snakemake/remote/GS.py", line 14, in import google.cloud ModuleNotFoundError: No module named 'google' During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 154, in import_module __import__(modname) File "/<>/snakemake/remote/GS.py", line 18, in "needs to be installed to use GS remote() file functionality. %s" % e.msg) snakemake.exceptions.WorkflowError: The Python 3 package 'google-cloud-sdk' needs to be installed to use GS remote() file functionality. No module named 'google' WARNING: autodoc: failed to import module 'NCBI' from module 'snakemake.remote'; the following exception was raised: Traceback (most recent call last): File "/<>/snakemake/remote/NCBI.py", line 21, in from Bio import Entrez ModuleNotFoundError: No module named 'Bio' During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 154, in import_module __import__(modname) File "/<>/snakemake/remote/NCBI.py", line 23, in raise WorkflowError("The Python package 'biopython' needs to be installed to use NCBI Entrez remote() file functionality. %s" % e.msg) snakemake.exceptions.WorkflowError: The Python package 'biopython' needs to be installed to use NCBI Entrez remote() file functionality. No module named 'Bio' WARNING: autodoc: failed to import module 'S3' from module 'snakemake.remote'; the following exception was raised: Traceback (most recent call last): File "/<>/snakemake/remote/S3.py", line 19, in import boto3 ModuleNotFoundError: No module named 'boto3' During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 154, in import_module __import__(modname) File "/<>/snakemake/remote/S3.py", line 23, in "needs to be installed to use S3 remote() file functionality. %s" % e.msg) snakemake.exceptions.WorkflowError: The Python 3 package 'boto3' needs to be installed to use S3 remote() file functionality. No module named 'boto3' WARNING: autodoc: failed to import module 'S3Mocked' from module 'snakemake.remote'; the following exception was raised: Traceback (most recent call last): File "/<>/snakemake/remote/S3.py", line 19, in import boto3 ModuleNotFoundError: No module named 'boto3' During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 154, in import_module __import__(modname) File "/<>/snakemake/remote/S3Mocked.py", line 15, in from snakemake.remote.S3 import RemoteObject as S3RemoteObject, RemoteProvider as S3RemoteProvider File "/<>/snakemake/remote/S3.py", line 23, in "needs to be installed to use S3 remote() file functionality. %s" % e.msg) snakemake.exceptions.WorkflowError: The Python 3 package 'boto3' needs to be installed to use S3 remote() file functionality. No module named 'boto3' WARNING: autodoc: failed to import module 'SFTP' from module 'snakemake.remote'; the following exception was raised: Traceback (most recent call last): File "/<>/snakemake/remote/SFTP.py", line 15, in import pysftp ModuleNotFoundError: No module named 'pysftp' During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 154, in import_module __import__(modname) File "/<>/snakemake/remote/SFTP.py", line 18, in "must be installed to use SFTP remote() file functionality. %s" % e.msg) snakemake.exceptions.WorkflowError: The Python 3 package 'pysftp' must be installed to use SFTP remote() file functionality. No module named 'pysftp' WARNING: autodoc: failed to import module 'XRootD' from module 'snakemake.remote'; the following exception was raised: Traceback (most recent call last): File "/<>/snakemake/remote/XRootD.py", line 14, in from XRootD import client ModuleNotFoundError: No module named 'XRootD' During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 154, in import_module __import__(modname) File "/<>/snakemake/remote/XRootD.py", line 19, in "remote() file functionality. %s" % e.msg snakemake.exceptions.WorkflowError: The Python 3 package 'XRootD' must be installed to use XRootD remote() file functionality. No module named 'XRootD' WARNING: autodoc: failed to import module 'dropbox' from module 'snakemake.remote'; the following exception was raised: Traceback (most recent call last): File "/<>/snakemake/remote/dropbox.py", line 14, in import dropbox # The official Dropbox API library ModuleNotFoundError: No module named 'dropbox' During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 154, in import_module __import__(modname) File "/<>/snakemake/remote/dropbox.py", line 18, in "functionality. %s" % e.msg) snakemake.exceptions.WorkflowError: The Python 3 package 'dropbox' must be installed to use Dropbox remote() file functionality. No module named 'dropbox' WARNING: autodoc: failed to import module 'gfal' from module 'snakemake.remote'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 154, in import_module __import__(modname) File "/<>/snakemake/remote/gfal.py", line 29 def __init__(self, *args, keep_local=False, stay_on_remote=False, is_default=False, stay_on_remote=False, retry=5, **kwargs): ^ SyntaxError: duplicate argument 'stay_on_remote' in function definition WARNING: autodoc: failed to import module 'gridftp' from module 'snakemake.remote'; the following exception was raised: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 154, in import_module __import__(modname) File "/<>/snakemake/remote/gridftp.py", line 17, in raise WorkflowError("The globus-url-copy command has to be available for " snakemake.exceptions.WorkflowError: The globus-url-copy command has to be available for gridftp remote support. WARNING: autodoc: failed to import module 'iRODS' from module 'snakemake.remote'; the following exception was raised: Traceback (most recent call last): File "/<>/snakemake/remote/iRODS.py", line 19, in from irods.session import iRODSSession ModuleNotFoundError: No module named 'irods' During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 154, in import_module __import__(modname) File "/<>/snakemake/remote/iRODS.py", line 26, in "must be installed to use iRODS remote() file functionality. %s" % e.msg) snakemake.exceptions.WorkflowError: The Python 3 package 'python-irodsclient' must be installed to use iRODS remote() file functionality. No module named 'irods' WARNING: autodoc: failed to import module 'webdav' from module 'snakemake.remote'; the following exception was raised: Traceback (most recent call last): File "/<>/snakemake/remote/webdav.py", line 17, in import aioeasywebdav ModuleNotFoundError: No module named 'aioeasywebdav' During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 154, in import_module __import__(modname) File "/<>/snakemake/remote/webdav.py", line 22, in "functionality. %s" % e.msg) snakemake.exceptions.WorkflowError: The Python 3 packages 'aioeasywebdav' and 'asyncio' must be present to use WebDAV remote() file functionality. No module named 'aioeasywebdav' /<>/snakemake/__init__.py:docstring of snakemake.snakemake:1: WARNING: duplicate object description of snakemake.snakemake, other instance in /<>/docs/api_reference/internal/snakemake.rst, use :noindex: for one of them /<>/snakemake/utils.py:docstring of snakemake.utils.AlwaysQuotedFormatter:1: WARNING: duplicate object description of snakemake.utils.AlwaysQuotedFormatter, other instance in /<>/docs/api_reference/internal/snakemake.rst, use :noindex: for one of them /<>/snakemake/utils.py:docstring of snakemake.utils.QuotedFormatter:1: WARNING: duplicate object description of snakemake.utils.QuotedFormatter, other instance in /<>/docs/api_reference/internal/snakemake.rst, use :noindex: for one of them /<>/snakemake/utils.py:docstring of snakemake.utils.R:1: WARNING: duplicate object description of snakemake.utils.R, other instance in /<>/docs/api_reference/internal/snakemake.rst, use :noindex: for one of them /<>/snakemake/utils.py:docstring of snakemake.utils.SequenceFormatter:1: WARNING: duplicate object description of snakemake.utils.SequenceFormatter, other instance in /<>/docs/api_reference/internal/snakemake.rst, use :noindex: for one of them /<>/snakemake/utils.py:docstring of snakemake.utils.SequenceFormatter.format_element:1: WARNING: duplicate object description of snakemake.utils.SequenceFormatter.format_element, other instance in /<>/docs/api_reference/internal/snakemake.rst, use :noindex: for one of them /<>/snakemake/utils.py:docstring of snakemake.utils.argvquote:1: WARNING: duplicate object description of snakemake.utils.argvquote, other instance in /<>/docs/api_reference/internal/snakemake.rst, use :noindex: for one of them /<>/snakemake/utils.py:docstring of snakemake.utils.available_cpu_count:1: WARNING: duplicate object description of snakemake.utils.available_cpu_count, other instance in /<>/docs/api_reference/internal/snakemake.rst, use :noindex: for one of them /<>/snakemake/utils.py:docstring of snakemake.utils.format:1: WARNING: duplicate object description of snakemake.utils.format, other instance in /<>/docs/api_reference/internal/snakemake.rst, use :noindex: for one of them /<>/snakemake/utils.py:docstring of snakemake.utils.linecount:1: WARNING: duplicate object description of snakemake.utils.linecount, other instance in /<>/docs/api_reference/internal/snakemake.rst, use :noindex: for one of them /<>/snakemake/utils.py:docstring of snakemake.utils.listfiles:1: WARNING: duplicate object description of snakemake.utils.listfiles, other instance in /<>/docs/api_reference/internal/snakemake.rst, use :noindex: for one of them /<>/snakemake/utils.py:docstring of snakemake.utils.makedirs:1: WARNING: duplicate object description of snakemake.utils.makedirs, other instance in /<>/docs/api_reference/internal/snakemake.rst, use :noindex: for one of them /<>/snakemake/utils.py:docstring of snakemake.utils.min_version:1: WARNING: duplicate object description of snakemake.utils.min_version, other instance in /<>/docs/api_reference/internal/snakemake.rst, use :noindex: for one of them /<>/snakemake/utils.py:docstring of snakemake.utils.read_job_properties:1: WARNING: duplicate object description of snakemake.utils.read_job_properties, other instance in /<>/docs/api_reference/internal/snakemake.rst, use :noindex: for one of them /<>/snakemake/utils.py:docstring of snakemake.utils.report:1: WARNING: duplicate object description of snakemake.utils.report, other instance in /<>/docs/api_reference/internal/snakemake.rst, use :noindex: for one of them /<>/snakemake/utils.py:docstring of snakemake.utils.simplify_path:1: WARNING: duplicate object description of snakemake.utils.simplify_path, other instance in /<>/docs/api_reference/internal/snakemake.rst, use :noindex: for one of them /<>/snakemake/utils.py:docstring of snakemake.utils.update_config:1: WARNING: duplicate object description of snakemake.utils.update_config, other instance in /<>/docs/api_reference/internal/snakemake.rst, use :noindex: for one of them /<>/snakemake/utils.py:docstring of snakemake.utils.validate:1: WARNING: duplicate object description of snakemake.utils.validate, other instance in /<>/docs/api_reference/internal/snakemake.rst, use :noindex: for one of them /<>/docs/executable.rst:322: WARNING: Unknown directive type "argparse". .. argparse:: :module: snakemake :func: get_argument_parser :prog: snakemake All command line options can be printed by calling ``snakemake -h``. /<>/docs/project_info/faq.rst:5: WARNING: Duplicate explicit target name: "here". /<>/docs/project_info/faq.rst:5: WARNING: Duplicate explicit target name: "here". /<>/docs/project_info/faq.rst:5: WARNING: Duplicate explicit target name: "here". /<>/docs/project_info/faq.rst:5: WARNING: Duplicate explicit target name: "here". CHANGELOG.rst:28: WARNING: Bullet list ends without a blank line; unexpected unindent. /<>/docs/project_info/history.rst:7: WARNING: Duplicate explicit target name: "the docs". /<>/docs/snakefiles/modularization.rst:7: WARNING: Duplicate explicit target name: "cwl". /<>/docs/snakefiles/reporting.rst:5: WARNING: Duplicate explicit target name: "here". /<>/docs/snakefiles/reporting.rst:73: WARNING: download file not readable: /<>/tests/test_report/report.html /<>/docs/tutorial/basics.rst:369: WARNING: Title underline too short. Step 6: Using custom scripts :::::::::::::::::::: /<>/docs/tutorial/basics.rst:369: WARNING: Title underline too short. Step 6: Using custom scripts :::::::::::::::::::: /<>/docs/tutorial/basics.rst:371: WARNING: Mismatch: both interpreted text role prefix and reference suffix. looking for now-outdated files... none found pickling environment... done checking consistency... done preparing documents... done writing output... [ 3%] api_reference/internal/modules writing output... [ 6%] api_reference/internal/snakemake writing output... [ 10%] api_reference/internal/snakemake.remote writing output... [ 13%] api_reference/internal/snakemake.report writing output... [ 16%] api_reference/snakemake writing output... [ 20%] api_reference/snakemake_utils writing output... [ 23%] executable writing output... [ 26%] getting_started/examples writing output... [ 30%] getting_started/installation writing output... [ 33%] index writing output... [ 36%] project_info/authors writing output... [ 40%] project_info/citations writing output... [ 43%] project_info/contributing writing output... [ 46%] project_info/faq writing output... [ 50%] project_info/history writing output... [ 53%] project_info/license writing output... [ 56%] project_info/more_resources writing output... [ 60%] snakefiles/configuration writing output... [ 63%] snakefiles/deployment writing output... [ 66%] snakefiles/modularization writing output... [ 70%] snakefiles/remote_files writing output... [ 73%] snakefiles/reporting writing output... [ 76%] snakefiles/rules writing output... [ 80%] snakefiles/utils writing output... [ 83%] snakefiles/writing_snakefiles writing output... [ 86%] tutorial/additional_features writing output... [ 90%] tutorial/advanced writing output... [ 93%] tutorial/basics writing output... [ 96%] tutorial/setup writing output... [100%] tutorial/tutorial /<>/docs/tutorial/advanced.rst:206: WARNING: undefined label: tutorial-report (if the link has no caption the label must precede a section header) generating indices... genindex py-modindex highlighting module code... [ 3%] snakemake highlighting module code... [ 6%] snakemake.benchmark highlighting module code... [ 10%] snakemake.checkpoints highlighting module code... [ 13%] snakemake.common highlighting module code... [ 17%] snakemake.conda highlighting module code... [ 20%] snakemake.cwl highlighting module code... [ 24%] snakemake.dag highlighting module code... [ 27%] snakemake.decorators highlighting module code... [ 31%] snakemake.exceptions highlighting module code... [ 34%] snakemake.executors highlighting module code... [ 37%] snakemake.io highlighting module code... [ 41%] snakemake.jobs highlighting module code... [ 44%] snakemake.logging highlighting module code... [ 48%] snakemake.output_index highlighting module code... [ 51%] snakemake.parser highlighting module code... [ 55%] snakemake.persistence highlighting module code... [ 58%] snakemake.remote highlighting module code... [ 62%] snakemake.remote.EGA highlighting module code... [ 65%] snakemake.remote.HTTP highlighting module code... [ 68%] snakemake.report highlighting module code... [ 72%] snakemake.rules highlighting module code... [ 75%] snakemake.scheduler highlighting module code... [ 79%] snakemake.script highlighting module code... [ 82%] snakemake.shell highlighting module code... [ 86%] snakemake.singularity highlighting module code... [ 89%] snakemake.stats highlighting module code... [ 93%] snakemake.utils highlighting module code... [ 96%] snakemake.workflow highlighting module code... [100%] snakemake.wrapper writing additional pages... search copying images... [ 16%] getting_started/img/cufflinks-dag.png copying images... [ 33%] getting_started/img/c-dag.png copying images... [ 50%] getting_started/img/latex-dag.png copying images... [ 66%] project_info/img/idea.png copying images... [ 83%] tutorial/workflow/dag_index.png copying images... [100%] tutorial/workflow/dag_call.png copying static files... done copying extra files... done dumping search index in English (code: en) ... done dumping object inventory... done build succeeded, 53 warnings. The HTML pages are in build/sphinx/html. make[1]: Leaving directory '/<>' dh_auto_test -O--buildsystem=pybuild I: pybuild pybuild:272: chmod +x /<>/bin/snakemake; cp -r /<>/bin /<>/tests /<>/.pybuild/cpython3_3.7_snakemake/build I: pybuild base:217: cd /<>/.pybuild/cpython3_3.7_snakemake/build; python3.7 -m pytest tests ============================= test session starts ============================== platform linux -- Python 3.7.4, pytest-3.10.1, py-1.8.0, pluggy-0.8.0 rootdir: /<>, inifile: collected 5 items tests/test_io.py .. [ 40%] tests/test_schema.py ... [100%] =============================== warnings summary =============================== snakemake/__init__.py:573 /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/__init__.py:573: DeprecationWarning: invalid escape sequence \w valid = re.compile("[a-zA-Z_]\w*$") snakemake/__init__.py:600 /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/__init__.py:600: DeprecationWarning: invalid escape sequence \w valid = re.compile("[a-zA-Z_]\w*$") snakemake/io.py:783 /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/io.py:783: DeprecationWarning: invalid escape sequence \. wildcards = {filepattern: {k:v for k, v in wildcards.items() if k in re.findall('{([^}\.[!:]+)', filepattern)} snakemake/io.py:882 /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/io.py:882: DeprecationWarning: invalid escape sequence \+ file_sub = re.sub("^git\+file:/+",'/',path) snakemake/script.py:29 /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/script.py:29: DeprecationWarning: invalid escape sequence \d PY_VER_RE = re.compile("Python (?P\d+\.\d+).*") /usr/lib/python3/dist-packages/pandas/core/dtypes/inference.py:6 /usr/lib/python3/dist-packages/pandas/core/dtypes/inference.py:6: DeprecationWarning: Using or importing the ABCs from 'collections' instead of from 'collections.abc' is deprecated, and in 3.8 it will stop working from collections import Iterable /usr/lib/python3/dist-packages/pandas/core/tools/datetimes.py:3 /usr/lib/python3/dist-packages/pandas/core/tools/datetimes.py:3: DeprecationWarning: Using or importing the ABCs from 'collections' instead of from 'collections.abc' is deprecated, and in 3.8 it will stop working from collections import MutableMapping .pybuild/cpython3_3.7_snakemake/build/tests/test_schema.py::test_config /usr/lib/python3/dist-packages/jsonschema/compat.py:6: DeprecationWarning: Using or importing the ABCs from 'collections' instead of from 'collections.abc' is deprecated, and in 3.8 it will stop working from collections import MutableMapping, Sequence # noqa .pybuild/cpython3_3.7_snakemake/build/tests/test_schema.py::test_dataframe /usr/lib/python3/dist-packages/pandas/core/frame.py:7476: DeprecationWarning: Using or importing the ABCs from 'collections' instead of from 'collections.abc' is deprecated, and in 3.8 it will stop working elif isinstance(data[0], collections.Mapping): -- Docs: https://docs.pytest.org/en/latest/warnings.html ===================== 5 passed, 9 warnings in 1.06 seconds ===================== I: pybuild pybuild:298: rm -fr /<>/.pybuild/cpython3_3.7_snakemake/build/bin /<>/.pybuild/cpython3_3.7_snakemake/build/tests create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary --with python3,sphinxdoc --buildsystem=pybuild dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install -O--buildsystem=pybuild I: pybuild base:217: /usr/bin/python3 setup.py install --root /<>/debian/snakemake running install running build running build_py UPDATING /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/_version.py set /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/_version.py to '5.5.3' running install_lib creating /<>/debian/snakemake/usr creating /<>/debian/snakemake/usr/lib creating /<>/debian/snakemake/usr/lib/python3.7 creating /<>/debian/snakemake/usr/lib/python3.7/dist-packages creating /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/singularity.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/benchmark.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/gui.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/persistence.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/workflow.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake creating /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote/NCBI.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote/S3.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote/GS.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote/HTTP.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote/gfal.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote/S3Mocked.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote/SFTP.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote/EGA.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote/gridftp.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote/dropbox.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote/XRootD.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote/webdav.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote/iRODS.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote/__init__.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/remote/FTP.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/cwl.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/checkpoints.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/rules.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/logging.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/utils.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/parser.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/jobscript.sh -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/gui.html -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/report.css -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/common.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/output_index.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/wrapper.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/exceptions.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/conda.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/shell.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/scheduler.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/executors.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/script.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake creating /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/__pycache__ copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/__pycache__/scheduler.cpython-37.pyc -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/__pycache__ copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/__pycache__/logging.cpython-37.pyc -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/__pycache__ copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/__pycache__/script.cpython-37.pyc -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/__pycache__ copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/__pycache__/wrapper.cpython-37.pyc -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/__pycache__ copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/__pycache__/_version.cpython-37.pyc -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/__pycache__ copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/__pycache__/exceptions.cpython-37.pyc -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/__pycache__ copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/__pycache__/common.cpython-37.pyc -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/__pycache__ copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/__pycache__/checkpoints.cpython-37.pyc -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/__pycache__ copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/__pycache__/rules.cpython-37.pyc -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/__pycache__ copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/__pycache__/stats.cpython-37.pyc -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/__pycache__ copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/__pycache__/singularity.cpython-37.pyc -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/__pycache__ copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/__pycache__/io.cpython-37.pyc -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/__pycache__ copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/__pycache__/__init__.cpython-37.pyc -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/__pycache__ copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/__pycache__/parser.cpython-37.pyc -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/__pycache__ copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/__pycache__/executors.cpython-37.pyc -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/__pycache__ copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/__pycache__/dag.cpython-37.pyc -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/__pycache__ copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/__pycache__/jobs.cpython-37.pyc -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/__pycache__ copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/__pycache__/utils.cpython-37.pyc -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/__pycache__ copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/__pycache__/persistence.cpython-37.pyc -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/__pycache__ copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/__pycache__/conda.cpython-37.pyc -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/__pycache__ copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/__pycache__/cwl.cpython-37.pyc -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/__pycache__ copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/__pycache__/shell.cpython-37.pyc -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/__pycache__ copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/__pycache__/output_index.cpython-37.pyc -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/__pycache__ copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/__pycache__/workflow.cpython-37.pyc -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/__pycache__ copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/_version.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/__init__.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/jobs.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/__main__.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/io.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/dag.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake creating /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/report copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/report/table.html -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/report copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/report/__init__.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/report copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/report/report.html -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/report copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/stats.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake copying /<>/.pybuild/cpython3_3.7_snakemake/build/snakemake/decorators.py -> /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/singularity.py to singularity.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/benchmark.py to benchmark.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/gui.py to gui.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/persistence.py to persistence.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/workflow.py to workflow.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote/NCBI.py to NCBI.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote/S3.py to S3.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote/GS.py to GS.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote/HTTP.py to HTTP.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote/gfal.py to gfal.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote/S3Mocked.py to S3Mocked.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote/SFTP.py to SFTP.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote/EGA.py to EGA.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote/gridftp.py to gridftp.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote/dropbox.py to dropbox.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote/XRootD.py to XRootD.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote/webdav.py to webdav.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote/iRODS.py to iRODS.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote/__init__.py to __init__.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/remote/FTP.py to FTP.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/cwl.py to cwl.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/checkpoints.py to checkpoints.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/rules.py to rules.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/logging.py to logging.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/utils.py to utils.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/parser.py to parser.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/common.py to common.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/output_index.py to output_index.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/wrapper.py to wrapper.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/exceptions.py to exceptions.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/conda.py to conda.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/shell.py to shell.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/scheduler.py to scheduler.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/executors.py to executors.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/script.py to script.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/_version.py to _version.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/__init__.py to __init__.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/jobs.py to jobs.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/__main__.py to __main__.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/io.py to io.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/dag.py to dag.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/report/__init__.py to __init__.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/stats.py to stats.cpython-37.pyc byte-compiling /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake/decorators.py to decorators.cpython-37.pyc running install_egg_info running egg_info creating snakemake.egg-info writing snakemake.egg-info/PKG-INFO writing dependency_links to snakemake.egg-info/dependency_links.txt writing entry points to snakemake.egg-info/entry_points.txt writing requirements to snakemake.egg-info/requires.txt writing top-level names to snakemake.egg-info/top_level.txt writing manifest file 'snakemake.egg-info/SOURCES.txt' reading manifest file 'snakemake.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' writing manifest file 'snakemake.egg-info/SOURCES.txt' Copying snakemake.egg-info to /<>/debian/snakemake/usr/lib/python3.7/dist-packages/snakemake-5.5.3.egg-info Skipping SOURCES.txt running install_scripts Installing snakemake script to /<>/debian/snakemake/usr/bin Installing snakemake-bash-completion script to /<>/debian/snakemake/usr/bin File "/usr/lib/python3.7/dist-packages/snakemake/remote/gfal.py", line 29 SyntaxError: duplicate argument 'stay_on_remote' in function definition dh_install -O--buildsystem=pybuild dh_installdocs -O--buildsystem=pybuild dh_sphinxdoc -O--buildsystem=pybuild dh_sphinxdoc: ignoring unknown JavaScript code: debian/snakemake/usr/share/doc/snakemake/html/_static/js/modernizr.min.js dh_installchangelogs -O--buildsystem=pybuild dh_installman -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild dh_installinit -O--buildsystem=pybuild dh_lintian -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild dh_compress -O--buildsystem=pybuild dh_fixperms -O--buildsystem=pybuild dh_missing -O--buildsystem=pybuild dh_installdeb -O--buildsystem=pybuild dh_gencontrol -O--buildsystem=pybuild dpkg-gencontrol: warning: package snakemake: substitution variable ${sphinxdoc:Built-Using} unused, but is defined dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild INFO: pkgstriptranslations version 144 pkgstriptranslations: processing snakemake (in debian/snakemake); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/snakemake/DEBIAN/control, package snakemake, directory debian/snakemake pkgstripfiles: Truncating usr/share/doc/snakemake/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 4 cpus) for package snakemake ... ...o.o....oooooo pkgstripfiles: PNG optimization (8/0) for package snakemake took 5 s dpkg-deb: building package 'snakemake' in '../snakemake_5.5.3-1_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary -mLaunchpad Build Daemon >../snakemake_5.5.3-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 20190713-2311 Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ snakemake_5.5.3-1_amd64.changes: -------------------------------- Format: 1.8 Date: Sat, 13 Jul 2019 17:39:18 +0200 Source: snakemake Binary: snakemake Architecture: all Version: 5.5.3-1 Distribution: eoan-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Dylan Aïssi Description: snakemake - pythonic workflow management system Changes: snakemake (5.5.3-1) unstable; urgency=medium . * Team upload. * New upstream version. Checksums-Sha1: 0570e6b28fca3db45be69eb71e8fdcb2e3492cce 539540 snakemake_5.5.3-1_all.deb cabd0dcf329790399b53aa19eea9d15daaac2fa7 12493 snakemake_5.5.3-1_amd64.buildinfo Checksums-Sha256: 8fb647ffc457b1c8e247db7f210d3650f55723959b06075bda4452e89c11406a 539540 snakemake_5.5.3-1_all.deb d5bd61fd9b00c9b84cfbb14b1244b0a113438480e23b8bfcd04ecbdcdb181421 12493 snakemake_5.5.3-1_amd64.buildinfo Files: aabefb1d338992d2b5c35be579c271e0 539540 science optional snakemake_5.5.3-1_all.deb 77d886e9d0b7bc498d76fc1490a0cd2a 12493 science optional snakemake_5.5.3-1_amd64.buildinfo +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ snakemake_5.5.3-1_all.deb ------------------------- new debian package, version 2.0. size 539540 bytes: control archive=6136 bytes. 1167 bytes, 17 lines control 17017 bytes, 187 lines md5sums 244 bytes, 12 lines * postinst #!/bin/sh 393 bytes, 12 lines * prerm #!/bin/sh Package: snakemake Version: 5.5.3-1 Architecture: all Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 5633 Depends: python3-appdirs, python3-configargparse, python3-datrie, python3-docutils, python3-git, python3-jsonschema, python3-ratelimiter, python3-requests, python3-wrapt, python3-yaml, python3:any, libjs-sphinxdoc (>= 1.0), sphinx-rtd-theme-common (>= 0.4.3+dfsg), ca-certificates, libjs-d3, libjs-mathjax, python3-networkx, python3-psutil, python3-pygraphviz, python3-pytools, python3-recommonmark, python3-rpy2, python3-setuptools Recommends: python3-boto, r-cran-rmarkdown Section: science Priority: optional Homepage: https://bitbucket.org/snakemake/snakemake Description: pythonic workflow management system Build systems like GNU Make are frequently used to create complicated workflows, e.g. in bioinformatics. This project aims to reduce the complexity of creating workflows by providing a clean and modern domain specific language (DSL) in Python style, together with a fast and comfortable execution environment. drwxr-xr-x root/root 0 2019-07-13 15:39 ./ drwxr-xr-x root/root 0 2019-07-13 15:39 ./usr/ drwxr-xr-x root/root 0 2019-07-13 15:39 ./usr/bin/ -rwxr-xr-x root/root 392 2019-07-13 15:39 ./usr/bin/snakemake -rwxr-xr-x root/root 424 2019-07-13 15:39 ./usr/bin/snakemake-bash-completion drwxr-xr-x root/root 0 2019-07-13 15:39 ./usr/lib/ drwxr-xr-x root/root 0 2019-07-13 15:39 ./usr/lib/python3/ drwxr-xr-x root/root 0 2019-07-13 15:39 ./usr/lib/python3/dist-packages/ drwxr-xr-x root/root 0 2019-07-13 15:39 ./usr/lib/python3/dist-packages/snakemake-5.5.3.egg-info/ -rw-r--r-- root/root 983 2019-07-13 15:39 ./usr/lib/python3/dist-packages/snakemake-5.5.3.egg-info/PKG-INFO -rw-r--r-- root/root 1 2019-07-13 15:39 ./usr/lib/python3/dist-packages/snakemake-5.5.3.egg-info/dependency_links.txt 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4593 2019-07-13 15:39 ./usr/share/man/man1/snakemake.1.gz +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build-Space: 54256 Build-Time: 28 Distribution: eoan-proposed Host Architecture: amd64 Install-Time: 47 Job: snakemake_5.5.3-1.dsc Machine Architecture: amd64 Package: snakemake Package-Time: 76 Source-Version: 5.5.3-1 Space: 54256 Status: successful Version: 5.5.3-1 -------------------------------------------------------------------------------- Finished at 20190713-2311 Build needed 00:01:16, 54256k disc space RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=eoan --arch=amd64 PACKAGEBUILD-17266229 Scanning for processes to kill in build PACKAGEBUILD-17266229