https://launchpad.net/ubuntu/+source/ariba/2.14.6+ds-3build1/+build/23248859 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux ubuntu 5.4.0-104-generic #118-Ubuntu SMP Wed Mar 2 19:02:41 UTC 2022 x86_64 Buildd toolchain package versions: launchpad-buildd_209~536~ubuntu20.04.1 python3-lpbuildd_209~536~ubuntu20.04.1 sbuild_0.79.0-1ubuntu1 git-build-recipe_0.3.6 git_1:2.25.1-1ubuntu3.2 dpkg-dev_1.19.7ubuntu3 python3-debian_0.1.36ubuntu1. Syncing the system clock with the buildd NTP service... 17 Mar 08:33:34 ntpdate[1821]: adjust time server 10.131.248.1 offset 0.000043 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=jammy --arch=amd64 PACKAGEBUILD-23248859 --image-type chroot /home/buildd/filecache-default/b0c128df17a460089eca69348f06144377489985 Creating target for build PACKAGEBUILD-23248859 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=jammy --arch=amd64 PACKAGEBUILD-23248859 Starting target for build PACKAGEBUILD-23248859 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=jammy --arch=amd64 PACKAGEBUILD-23248859 'deb http://ftpmaster.internal/ubuntu jammy main universe' 'deb http://ftpmaster.internal/ubuntu jammy-security main universe' 'deb http://ftpmaster.internal/ubuntu jammy-updates main universe' 'deb http://ftpmaster.internal/ubuntu jammy-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-23248859 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=jammy --arch=amd64 PACKAGEBUILD-23248859 Updating target for build PACKAGEBUILD-23248859 Get:1 http://ftpmaster.internal/ubuntu jammy InRelease [270 kB] Get:2 http://ftpmaster.internal/ubuntu jammy-security InRelease [90.7 kB] Get:3 http://ftpmaster.internal/ubuntu jammy-updates InRelease [90.7 kB] Get:4 http://ftpmaster.internal/ubuntu jammy-proposed InRelease [121 kB] Get:5 http://ftpmaster.internal/ubuntu jammy/main amd64 Packages [1406 kB] Get:6 http://ftpmaster.internal/ubuntu jammy/main Translation-en [514 kB] Get:7 http://ftpmaster.internal/ubuntu jammy/universe amd64 Packages [13.7 MB] Get:8 http://ftpmaster.internal/ubuntu jammy/universe Translation-en [5644 kB] Get:9 http://ftpmaster.internal/ubuntu jammy-proposed/main amd64 Packages [85.3 kB] Get:10 http://ftpmaster.internal/ubuntu jammy-proposed/main Translation-en [24.0 kB] Get:11 http://ftpmaster.internal/ubuntu jammy-proposed/universe amd64 Packages [341 kB] Get:12 http://ftpmaster.internal/ubuntu jammy-proposed/universe Translation-en [124 kB] Fetched 22.4 MB in 2s (9045 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: libperl5.32 libssl1.1 perl-modules-5.32 Use 'sudo apt autoremove' to remove them. The following packages will be REMOVED: libsemanage1* The following NEW packages will be installed: gcc-12-base libperl5.34 libsemanage2 libsepol2 libssl3 perl-modules-5.34 The following packages will be upgraded: apt base-files bash binutils binutils-common binutils-x86-64-linux-gnu bsdutils bzip2 ca-certificates coreutils cpp-11 dash debconf debianutils dpkg dpkg-dev e2fsprogs fakeroot g++-11 gcc-11 gcc-11-base gpg gpg-agent gpgconf gpgv grep init init-system-helpers libacl1 libapparmor1 libapt-pkg6.0 libargon2-1 libasan6 libatomic1 libattr1 libaudit-common libaudit1 libbinutils libblkid1 libbz2-1.0 libc-bin libc-dev-bin libc6 libc6-dev libcap-ng0 libcc1-0 libcom-err2 libcrypt-dev libcrypt1 libcryptsetup12 libctf-nobfd0 libctf0 libdebconfclient0 libdevmapper1.02.1 libdpkg-perl libext2fs2 libfakeroot libffi8 libgcc-11-dev libgcc-s1 libgcrypt20 libgdbm-compat4 libgdbm6 libgmp10 libgnutls30 libgomp1 libgpg-error0 libgssapi-krb5-2 libidn2-0 libip4tc2 libisl23 libitm1 libk5crypto3 libkeyutils1 libkmod2 libkrb5-3 libkrb5support0 liblsan0 libmount1 libmpc3 libncurses6 libncursesw6 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpcre2-8-0 libprocps8 libquadmath0 libreadline8 libseccomp2 libselinux1 libsemanage-common libsmartcols1 libsqlite3-0 libss2 libstdc++-11-dev libstdc++6 libsystemd0 libtasn1-6 libtinfo6 libtsan0 libubsan1 libudev1 libunistring2 libuuid1 libxxhash0 libzstd1 linux-libc-dev lockfile-progs login logsave lto-disabled-list make mawk mount ncurses-base ncurses-bin openssl passwd perl perl-base pkgbinarymangler procps readline-common sed sensible-utils systemd systemd-sysv systemd-timesyncd sysvinit-utils tzdata usrmerge util-linux zlib1g 136 upgraded, 6 newly installed, 1 to remove and 0 not upgraded. Need to get 104 MB of archives. After this operation, 304 MB disk space will be freed. Get:1 http://ftpmaster.internal/ubuntu jammy/main amd64 libcrypt-dev amd64 1:4.4.27-1 [112 kB] Get:2 http://ftpmaster.internal/ubuntu jammy/main amd64 libc6-dev amd64 2.35-0ubuntu3 [2099 kB] Get:3 http://ftpmaster.internal/ubuntu jammy/main amd64 libc-dev-bin amd64 2.35-0ubuntu3 [20.3 kB] Get:4 http://ftpmaster.internal/ubuntu jammy/main amd64 libaudit-common all 1:3.0.7-1 [4782 B] Get:5 http://ftpmaster.internal/ubuntu jammy/main amd64 libcap-ng0 amd64 0.7.9-2.2build3 [11.6 kB] Get:6 http://ftpmaster.internal/ubuntu jammy/main amd64 libaudit1 amd64 1:3.0.7-1 [47.1 kB] Get:7 http://ftpmaster.internal/ubuntu jammy/main amd64 libc6 amd64 2.35-0ubuntu3 [3235 kB] Get:8 http://ftpmaster.internal/ubuntu jammy/main amd64 libc-bin amd64 2.35-0ubuntu3 [706 kB] Get:9 http://ftpmaster.internal/ubuntu jammy/main amd64 perl-modules-5.34 all 5.34.0-3ubuntu1 [2975 kB] Get:10 http://ftpmaster.internal/ubuntu jammy/main amd64 libperl5.34 amd64 5.34.0-3ubuntu1 [4809 kB] Get:11 http://ftpmaster.internal/ubuntu jammy/main amd64 perl amd64 5.34.0-3ubuntu1 [232 kB] Get:12 http://ftpmaster.internal/ubuntu jammy/main amd64 perl-base amd64 5.34.0-3ubuntu1 [1762 kB] Get:13 http://ftpmaster.internal/ubuntu jammy/main amd64 bzip2 amd64 1.0.8-5 [34.8 kB] Get:14 http://ftpmaster.internal/ubuntu jammy/main amd64 libbz2-1.0 amd64 1.0.8-5 [34.5 kB] Get:15 http://ftpmaster.internal/ubuntu jammy/main amd64 libgdbm6 amd64 1.23-1 [33.9 kB] Get:16 http://ftpmaster.internal/ubuntu jammy/main amd64 libgdbm-compat4 amd64 1.23-1 [6606 B] Get:17 http://ftpmaster.internal/ubuntu jammy-proposed/main amd64 zlib1g amd64 1:1.2.11.dfsg-2ubuntu8 [58.2 kB] Get:18 http://ftpmaster.internal/ubuntu jammy/main amd64 debconf all 1.5.79ubuntu1 [126 kB] Get:19 http://ftpmaster.internal/ubuntu jammy/main amd64 libpam0g amd64 1.4.0-11ubuntu1 [61.2 kB] Get:20 http://ftpmaster.internal/ubuntu jammy/main amd64 libcrypt1 amd64 1:4.4.27-1 [82.0 kB] Get:21 http://ftpmaster.internal/ubuntu jammy-proposed/main amd64 linux-libc-dev amd64 5.15.0-23.23 [1323 kB] Get:22 http://ftpmaster.internal/ubuntu jammy/main amd64 gcc-12-base amd64 12-20220313-1ubuntu1 [18.9 kB] Get:23 http://ftpmaster.internal/ubuntu jammy/main amd64 libgcc-s1 amd64 12-20220313-1ubuntu1 [54.3 kB] Get:24 http://ftpmaster.internal/ubuntu jammy/main amd64 base-files amd64 12ubuntu2 [63.3 kB] Get:25 http://ftpmaster.internal/ubuntu jammy/main amd64 debianutils amd64 5.5-1ubuntu1 [107 kB] Get:26 http://ftpmaster.internal/ubuntu jammy/main amd64 bash amd64 5.1-6ubuntu1 [769 kB] Get:27 http://ftpmaster.internal/ubuntu jammy/main amd64 bsdutils amd64 1:2.37.2-4ubuntu3 [81.5 kB] Get:28 http://ftpmaster.internal/ubuntu jammy/main amd64 coreutils amd64 8.32-4.1ubuntu1 [1438 kB] Get:29 http://ftpmaster.internal/ubuntu jammy/main amd64 libgpg-error0 amd64 1.43-3 [69.7 kB] Get:30 http://ftpmaster.internal/ubuntu jammy/main amd64 libgcrypt20 amd64 1.9.4-3ubuntu2 [515 kB] Get:31 http://ftpmaster.internal/ubuntu jammy/main amd64 libstdc++6 amd64 12-20220313-1ubuntu1 [699 kB] Get:32 http://ftpmaster.internal/ubuntu jammy/main amd64 libssl3 amd64 3.0.1-0ubuntu1 [1898 kB] Get:33 http://ftpmaster.internal/ubuntu jammy/main amd64 libargon2-1 amd64 0~20171227-0.3 [19.5 kB] Get:34 http://ftpmaster.internal/ubuntu jammy/main amd64 libblkid1 amd64 2.37.2-4ubuntu3 [104 kB] Get:35 http://ftpmaster.internal/ubuntu jammy/main amd64 libpcre2-8-0 amd64 10.39-3 [220 kB] Get:36 http://ftpmaster.internal/ubuntu jammy/main amd64 libselinux1 amd64 3.3-1build1 [74.5 kB] Get:37 http://ftpmaster.internal/ubuntu jammy/main amd64 libudev1 amd64 249.11-0ubuntu1 [77.1 kB] Get:38 http://ftpmaster.internal/ubuntu jammy/main amd64 libdevmapper1.02.1 amd64 2:1.02.175-2.1ubuntu4 [139 kB] Get:39 http://ftpmaster.internal/ubuntu jammy/main amd64 libuuid1 amd64 2.37.2-4ubuntu3 [24.2 kB] Get:40 http://ftpmaster.internal/ubuntu jammy/main amd64 libcryptsetup12 amd64 2:2.4.3-1ubuntu1 [211 kB] Get:41 http://ftpmaster.internal/ubuntu jammy/main amd64 libgmp10 amd64 2:6.2.1+dfsg-3ubuntu1 [250 kB] Get:42 http://ftpmaster.internal/ubuntu jammy/main amd64 libunistring2 amd64 1.0-1 [554 kB] Get:43 http://ftpmaster.internal/ubuntu jammy/main amd64 libidn2-0 amd64 2.3.2-2 [66.5 kB] Get:44 http://ftpmaster.internal/ubuntu jammy/main amd64 libffi8 amd64 3.4.2-4 [22.3 kB] Get:45 http://ftpmaster.internal/ubuntu jammy/main amd64 libp11-kit0 amd64 0.24.0-6 [252 kB] Get:46 http://ftpmaster.internal/ubuntu jammy/main amd64 libtasn1-6 amd64 4.18.0-4 [42.9 kB] Get:47 http://ftpmaster.internal/ubuntu jammy/main amd64 libgnutls30 amd64 3.7.3-4ubuntu1 [968 kB] Get:48 http://ftpmaster.internal/ubuntu jammy/main amd64 systemd-sysv amd64 249.11-0ubuntu1 [10.5 kB] Get:49 http://ftpmaster.internal/ubuntu jammy/main amd64 systemd-timesyncd amd64 249.11-0ubuntu1 [31.2 kB] Get:50 http://ftpmaster.internal/ubuntu jammy/main amd64 libacl1 amd64 2.3.1-1 [16.2 kB] Get:51 http://ftpmaster.internal/ubuntu jammy/main amd64 libapparmor1 amd64 3.0.4-2ubuntu2 [38.7 kB] Get:52 http://ftpmaster.internal/ubuntu jammy/main amd64 libip4tc2 amd64 1.8.7-1ubuntu4 [19.8 kB] Get:53 http://ftpmaster.internal/ubuntu jammy/main amd64 libzstd1 amd64 1.4.8+dfsg-3 [324 kB] Get:54 http://ftpmaster.internal/ubuntu jammy/main amd64 libkmod2 amd64 29-1ubuntu1 [48.0 kB] Get:55 http://ftpmaster.internal/ubuntu jammy/main amd64 libmount1 amd64 2.37.2-4ubuntu3 [122 kB] Get:56 http://ftpmaster.internal/ubuntu jammy/main amd64 libseccomp2 amd64 2.5.3-2ubuntu1 [47.3 kB] Get:57 http://ftpmaster.internal/ubuntu jammy/main amd64 login amd64 1:4.8.1-2ubuntu2 [187 kB] Get:58 http://ftpmaster.internal/ubuntu jammy/main amd64 util-linux amd64 2.37.2-4ubuntu3 [1064 kB] Get:59 http://ftpmaster.internal/ubuntu jammy/main amd64 mount amd64 2.37.2-4ubuntu3 [114 kB] Get:60 http://ftpmaster.internal/ubuntu jammy/main amd64 systemd amd64 249.11-0ubuntu1 [4554 kB] Get:61 http://ftpmaster.internal/ubuntu jammy/main amd64 libsystemd0 amd64 249.11-0ubuntu1 [318 kB] Get:62 http://ftpmaster.internal/ubuntu jammy/main amd64 libxxhash0 amd64 0.8.1-1 [27.3 kB] Get:63 http://ftpmaster.internal/ubuntu jammy/main amd64 libapt-pkg6.0 amd64 2.4.1 [905 kB] Get:64 http://ftpmaster.internal/ubuntu jammy/main amd64 dpkg amd64 1.21.1ubuntu1 [1254 kB] Get:65 http://ftpmaster.internal/ubuntu jammy/main amd64 dash amd64 0.5.11+git20210903+057cd650a4ed-3 [91.8 kB] Get:66 http://ftpmaster.internal/ubuntu jammy/main amd64 grep amd64 3.7-1 [156 kB] Get:67 http://ftpmaster.internal/ubuntu jammy/main amd64 libncurses6 amd64 6.3-2 [111 kB] Get:68 http://ftpmaster.internal/ubuntu jammy/main amd64 libncursesw6 amd64 6.3-2 [149 kB] Get:69 http://ftpmaster.internal/ubuntu jammy/main amd64 libtinfo6 amd64 6.3-2 [104 kB] Get:70 http://ftpmaster.internal/ubuntu jammy/main amd64 ncurses-bin amd64 6.3-2 [184 kB] Get:71 http://ftpmaster.internal/ubuntu jammy/main amd64 sed amd64 4.8-1ubuntu1 [188 kB] Get:72 http://ftpmaster.internal/ubuntu jammy/main amd64 init-system-helpers all 1.62 [38.5 kB] Get:73 http://ftpmaster.internal/ubuntu jammy/main amd64 ncurses-base all 6.3-2 [20.1 kB] Get:74 http://ftpmaster.internal/ubuntu jammy/main amd64 sysvinit-utils amd64 3.01-1ubuntu1 [20.6 kB] Get:75 http://ftpmaster.internal/ubuntu jammy/main amd64 gpgv amd64 2.2.27-3ubuntu1 [137 kB] Get:76 http://ftpmaster.internal/ubuntu jammy/main amd64 apt amd64 2.4.1 [1378 kB] Get:77 http://ftpmaster.internal/ubuntu jammy/main amd64 libsepol2 amd64 3.3-1 [281 kB] Get:78 http://ftpmaster.internal/ubuntu jammy/main amd64 libsemanage-common all 3.3-1build1 [10.0 kB] Get:79 http://ftpmaster.internal/ubuntu jammy/main amd64 libsemanage2 amd64 3.3-1build1 [92.4 kB] Get:80 http://ftpmaster.internal/ubuntu jammy/main amd64 passwd amd64 1:4.8.1-2ubuntu2 [767 kB] Get:81 http://ftpmaster.internal/ubuntu jammy/main amd64 libpam-modules-bin amd64 1.4.0-11ubuntu1 [37.5 kB] Get:82 http://ftpmaster.internal/ubuntu jammy/main amd64 libpam-modules amd64 1.4.0-11ubuntu1 [280 kB] Get:83 http://ftpmaster.internal/ubuntu jammy/main amd64 logsave amd64 1.46.5-2ubuntu1 [10.7 kB] Get:84 http://ftpmaster.internal/ubuntu jammy/main amd64 libext2fs2 amd64 1.46.5-2ubuntu1 [209 kB] Get:85 http://ftpmaster.internal/ubuntu jammy/main amd64 e2fsprogs amd64 1.46.5-2ubuntu1 [591 kB] Get:86 http://ftpmaster.internal/ubuntu jammy/main amd64 init amd64 1.62 [5412 B] Get:87 http://ftpmaster.internal/ubuntu jammy/main amd64 libattr1 amd64 1:2.5.1-1 [13.3 kB] Get:88 http://ftpmaster.internal/ubuntu jammy/main amd64 libcom-err2 amd64 1.46.5-2ubuntu1 [9846 B] Get:89 http://ftpmaster.internal/ubuntu jammy/main amd64 libdebconfclient0 amd64 0.261ubuntu1 [7198 B] Get:90 http://ftpmaster.internal/ubuntu jammy/main amd64 libk5crypto3 amd64 1.19.2-2 [86.4 kB] Get:91 http://ftpmaster.internal/ubuntu jammy/main amd64 libkrb5support0 amd64 1.19.2-2 [32.4 kB] Get:92 http://ftpmaster.internal/ubuntu jammy/main amd64 libkrb5-3 amd64 1.19.2-2 [356 kB] Get:93 http://ftpmaster.internal/ubuntu jammy/main amd64 libgssapi-krb5-2 amd64 1.19.2-2 [144 kB] Get:94 http://ftpmaster.internal/ubuntu jammy/main amd64 libkeyutils1 amd64 1.6.1-2ubuntu3 [10.4 kB] Get:95 http://ftpmaster.internal/ubuntu jammy/main amd64 libpam-runtime all 1.4.0-11ubuntu1 [40.2 kB] Get:96 http://ftpmaster.internal/ubuntu jammy/main amd64 libsmartcols1 amd64 2.37.2-4ubuntu3 [51.2 kB] Get:97 http://ftpmaster.internal/ubuntu jammy/main amd64 libtsan0 amd64 11.2.0-18ubuntu1 [2258 kB] Get:98 http://ftpmaster.internal/ubuntu jammy/main amd64 libgomp1 amd64 12-20220313-1ubuntu1 [126 kB] Get:99 http://ftpmaster.internal/ubuntu jammy/main amd64 libitm1 amd64 12-20220313-1ubuntu1 [30.2 kB] Get:100 http://ftpmaster.internal/ubuntu jammy/main amd64 libatomic1 amd64 12-20220313-1ubuntu1 [10.1 kB] Get:101 http://ftpmaster.internal/ubuntu jammy/main amd64 libasan6 amd64 11.2.0-18ubuntu1 [2283 kB] Get:102 http://ftpmaster.internal/ubuntu jammy/main amd64 liblsan0 amd64 12-20220313-1ubuntu1 [1069 kB] Get:103 http://ftpmaster.internal/ubuntu jammy/main amd64 libubsan1 amd64 12-20220313-1ubuntu1 [974 kB] Get:104 http://ftpmaster.internal/ubuntu jammy/main amd64 libquadmath0 amd64 12-20220313-1ubuntu1 [154 kB] Get:105 http://ftpmaster.internal/ubuntu jammy/main amd64 g++-11 amd64 11.2.0-18ubuntu1 [11.4 MB] Get:106 http://ftpmaster.internal/ubuntu jammy/main amd64 gcc-11 amd64 11.2.0-18ubuntu1 [20.1 MB] Get:107 http://ftpmaster.internal/ubuntu jammy/main amd64 libstdc++-11-dev amd64 11.2.0-18ubuntu1 [2082 kB] Get:108 http://ftpmaster.internal/ubuntu jammy/main amd64 libgcc-11-dev amd64 11.2.0-18ubuntu1 [2526 kB] Get:109 http://ftpmaster.internal/ubuntu jammy/main amd64 libisl23 amd64 0.24-2 [728 kB] Get:110 http://ftpmaster.internal/ubuntu jammy/main amd64 libmpc3 amd64 1.2.1-1 [46.9 kB] Get:111 http://ftpmaster.internal/ubuntu jammy/main amd64 libcc1-0 amd64 12-20220313-1ubuntu1 [47.3 kB] Get:112 http://ftpmaster.internal/ubuntu jammy-proposed/main amd64 libctf0 amd64 2.38-3ubuntu1 [103 kB] Get:113 http://ftpmaster.internal/ubuntu jammy-proposed/main amd64 libctf-nobfd0 amd64 2.38-3ubuntu1 [106 kB] Get:114 http://ftpmaster.internal/ubuntu jammy-proposed/main amd64 binutils-x86-64-linux-gnu amd64 2.38-3ubuntu1 [2328 kB] Get:115 http://ftpmaster.internal/ubuntu jammy-proposed/main amd64 libbinutils amd64 2.38-3ubuntu1 [662 kB] Get:116 http://ftpmaster.internal/ubuntu jammy-proposed/main amd64 binutils amd64 2.38-3ubuntu1 [3186 B] Get:117 http://ftpmaster.internal/ubuntu jammy-proposed/main amd64 binutils-common amd64 2.38-3ubuntu1 [221 kB] Get:118 http://ftpmaster.internal/ubuntu jammy/main amd64 cpp-11 amd64 11.2.0-18ubuntu1 [9965 kB] Get:119 http://ftpmaster.internal/ubuntu jammy/main amd64 gcc-11-base amd64 11.2.0-18ubuntu1 [21.0 kB] Get:120 http://ftpmaster.internal/ubuntu jammy/main amd64 libprocps8 amd64 2:3.3.17-6ubuntu2 [36.0 kB] Get:121 http://ftpmaster.internal/ubuntu jammy/main amd64 libss2 amd64 1.46.5-2ubuntu1 [12.3 kB] Get:122 http://ftpmaster.internal/ubuntu jammy/main amd64 mawk amd64 1.3.4.20200120-3 [104 kB] Get:123 http://ftpmaster.internal/ubuntu jammy/main amd64 procps amd64 2:3.3.17-6ubuntu2 [377 kB] Get:124 http://ftpmaster.internal/ubuntu jammy/main amd64 sensible-utils all 0.0.17 [20.1 kB] Get:125 http://ftpmaster.internal/ubuntu jammy/main amd64 usrmerge all 25ubuntu2 [54.7 kB] Get:126 http://ftpmaster.internal/ubuntu jammy/main amd64 openssl amd64 3.0.1-0ubuntu1 [1182 kB] Get:127 http://ftpmaster.internal/ubuntu jammy/main amd64 ca-certificates all 20211016 [148 kB] Get:128 http://ftpmaster.internal/ubuntu jammy/main amd64 readline-common all 8.1.2-1 [53.5 kB] Get:129 http://ftpmaster.internal/ubuntu jammy/main amd64 libreadline8 amd64 8.1.2-1 [153 kB] Get:130 http://ftpmaster.internal/ubuntu jammy/main amd64 libsqlite3-0 amd64 3.37.2-2 [643 kB] Get:131 http://ftpmaster.internal/ubuntu jammy/main amd64 tzdata all 2021e-1ubuntu1 [343 kB] Get:132 http://ftpmaster.internal/ubuntu jammy/main amd64 dpkg-dev all 1.21.1ubuntu1 [922 kB] Get:133 http://ftpmaster.internal/ubuntu jammy/main amd64 libdpkg-perl all 1.21.1ubuntu1 [236 kB] Get:134 http://ftpmaster.internal/ubuntu jammy/main amd64 make amd64 4.3-4.1build1 [180 kB] Get:135 http://ftpmaster.internal/ubuntu jammy/main amd64 lto-disabled-list all 23 [12.5 kB] Get:136 http://ftpmaster.internal/ubuntu jammy/main amd64 libfakeroot amd64 1.28-1ubuntu1 [31.5 kB] Get:137 http://ftpmaster.internal/ubuntu jammy/main amd64 fakeroot amd64 1.28-1ubuntu1 [60.4 kB] Get:138 http://ftpmaster.internal/ubuntu jammy/main amd64 gpg amd64 2.2.27-3ubuntu1 [517 kB] Get:139 http://ftpmaster.internal/ubuntu jammy/main amd64 gpgconf amd64 2.2.27-3ubuntu1 [94.4 kB] Get:140 http://ftpmaster.internal/ubuntu jammy/main amd64 gpg-agent amd64 2.2.27-3ubuntu1 [209 kB] Get:141 http://ftpmaster.internal/ubuntu jammy/main amd64 lockfile-progs amd64 0.1.19 [10.0 kB] Get:142 http://ftpmaster.internal/ubuntu jammy/main amd64 pkgbinarymangler all 149 [32.4 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 104 MB in 1s (110 MB/s) (Reading database ... 13258 files and directories currently installed.) 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Setting up libfakeroot:amd64 (1.28-1ubuntu1) ... Setting up libasan6:amd64 (11.2.0-18ubuntu1) ... Setting up tzdata (2021e-1ubuntu1) ... Current default time zone: 'Etc/UTC' Local time is now: Thu Mar 17 08:34:00 UTC 2022. Universal Time is now: Thu Mar 17 08:34:00 UTC 2022. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up fakeroot (1.28-1ubuntu1) ... Setting up make (4.3-4.1build1) ... Setting up libncurses6:amd64 (6.3-2) ... Setting up libquadmath0:amd64 (12-20220313-1ubuntu1) ... Setting up libmpc3:amd64 (1.2.1-1) ... Setting up systemd-timesyncd (249.11-0ubuntu1) ... Setting up lockfile-progs (0.1.19) ... Setting up libatomic1:amd64 (12-20220313-1ubuntu1) ... Setting up usrmerge (25ubuntu2) ... Setting up libss2:amd64 (1.46.5-2ubuntu1) ... Setting up libncursesw6:amd64 (6.3-2) ... Setting up logsave (1.46.5-2ubuntu1) ... Setting up libubsan1:amd64 (12-20220313-1ubuntu1) ... Setting up sensible-utils (0.0.17) ... Setting up libcrypt-dev:amd64 (1:4.4.27-1) ... 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Updating certificates in /etc/ssl/certs... rehash: warning: skipping ca-certificates.crt,it does not contain exactly one certificate or CRL 7 added, 8 removed; done. Setting up libgdbm-compat4:amd64 (1.23-1) ... Setting up libgcc-11-dev:amd64 (11.2.0-18ubuntu1) ... Setting up procps (2:3.3.17-6ubuntu2) ... Installing new version of config file /etc/init.d/procps ... Installing new version of config file /etc/sysctl.d/README.sysctl ... Setting up gpgconf (2.2.27-3ubuntu1) ... Setting up libc6-dev:amd64 (2.35-0ubuntu3) ... Setting up gpg (2.2.27-3ubuntu1) ... Setting up binutils-x86-64-linux-gnu (2.38-3ubuntu1) ... Setting up libperl5.34:amd64 (5.34.0-3ubuntu1) ... Setting up gpg-agent (2.2.27-3ubuntu1) ... Setting up binutils (2.38-3ubuntu1) ... Setting up perl (5.34.0-3ubuntu1) ... Setting up libdpkg-perl (1.21.1ubuntu1) ... Setting up libstdc++-11-dev:amd64 (11.2.0-18ubuntu1) ... Setting up gcc-11 (11.2.0-18ubuntu1) ... Setting up g++-11 (11.2.0-18ubuntu1) ... Setting up dpkg-dev (1.21.1ubuntu1) ... Processing triggers for libc-bin (2.35-0ubuntu3) ... Processing triggers for ca-certificates (20211016) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-23248859 amd64 jammy-proposed -c chroot:build-PACKAGEBUILD-23248859 --arch=amd64 --dist=jammy-proposed --nolog -A ariba_2.14.6+ds-3build1.dsc Initiating build PACKAGEBUILD-23248859 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 5.4.0-104-generic #118-Ubuntu SMP Wed Mar 2 19:02:41 UTC 2022 x86_64 sbuild (Debian sbuild) 0.79.0 (05 February 2020) on ubuntu +==============================================================================+ | ariba 2.14.6+ds-3build1 (amd64) Thu, 17 Mar 2022 08:34:03 +0000 | +==============================================================================+ Package: ariba Version: 2.14.6+ds-3build1 Source Version: 2.14.6+ds-3build1 Distribution: jammy-proposed Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: binary I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-23248859/chroot-autobuild' with '<>' I: NOTICE: Log filtering will replace 'build/ariba-cwEaz1/resolver-MfY6C0' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- ariba_2.14.6+ds-3build1.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/ariba-cwEaz1/ariba-2.14.6+ds' with '<>' I: NOTICE: Log filtering will replace 'build/ariba-cwEaz1' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), dh-python, python3-biopython, python3-all-dev, python3-dendropy, python3-setuptools, python3-pymummer (>= 0.10.2), python3-pysam (>= 0.9.1), python3-pytest, python3-bs4, python3-matplotlib, python3-tk, bowtie2 (>= 2.1.0), cd-hit, mash, libminimap-dev, libfml-dev (>= 0.1-4~), mummer, fastaq (>= 3.12.0), help2man, asciidoctor, spades, build-essential, fakeroot Filtered Build-Depends: debhelper-compat (= 13), dh-python, python3-biopython, python3-all-dev, python3-dendropy, python3-setuptools, python3-pymummer (>= 0.10.2), python3-pysam (>= 0.9.1), python3-pytest, python3-bs4, python3-matplotlib, python3-tk, bowtie2 (>= 2.1.0), cd-hit, mash, libminimap-dev, libfml-dev (>= 0.1-4~), mummer, fastaq (>= 3.12.0), help2man, asciidoctor, spades, build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [957 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [540 B] Get:5 copy:/<>/apt_archive ./ Packages [609 B] Fetched 2106 B in 0s (195 kB/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libperl5.32 libssl1.1 perl-modules-5.32 systemd-timesyncd Use 'apt autoremove' to remove them. The following additional packages will be installed: asciidoctor autoconf automake autopoint autotools-dev bamtools blt bowtie2 bsdextrautils bwa cd-hit debhelper debugedit dh-autoreconf dh-python dh-strip-nondeterminism dwz fastaq file fontconfig-config fonts-dejavu-core fonts-lyx fonts-urw-base35 gawk gettext gettext-base groff-base help2man intltool-debian libarchive-zip-perl libbamtools2.5.1 libblas3 libbrotli1 libbsd0 libcapnp-0.8.0 libcurl3-gnutls libdebhelper-perl libdeflate0 libdw1 libedit2 libelf1 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libfml-dev libfml0 libfontconfig1 libfreetype6 libfribidi0 libgfortran5 libglib2.0-0 libgraphite2-3 libgsl27 libgslcblas0 libharfbuzz0b libhat-trie0 libhts3 libhtscodecs2 libicu70 libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 libjs-jquery libjs-jquery-ui libjs-sphinxdoc libjs-underscore libjsoncpp25 liblapack3 liblbfgsb0 liblcms2-2 libldap-2.5-0 liblocale-gettext-perl libmagic-mgc libmagic1 libmd0 libminimap-dev libminimap0 libmpdec3 libmurmurhash2 libnghttp2-14 libnlopt0 libopenjp2-7 libpipeline1 libpsl5 libpython3-all-dev libpython3-dev libpython3-stdlib libpython3.10 libpython3.10-dev libpython3.10-minimal libpython3.10-stdlib libpython3.9-minimal libpython3.9-stdlib libqhull-r8.0 libraqm0 librtmp1 libruby3.0 libsasl2-2 libsasl2-modules-db libsigsegv2 libssh-4 libssw0 libsub-override-perl libtcl8.6 libtiff5 libtk8.6 libtool libuchardet0 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxext6 libxft2 libxml2 libxrender1 libxslt1.1 libxss1 libyaml-0-2 m4 mailcap man-db mash media-types mime-support mummer po-debconf python-matplotlib-data python3 python3-all python3-all-dev python3-appdirs python3-attr python3-biopython python3-brotli python3-bs4 python3-cycler python3-dateutil python3-decorator python3-dendropy python3-dev python3-distutils python3-fonttools python3-fs python3-importlib-metadata python3-iniconfig python3-joblib python3-kiwisolver python3-lib2to3 python3-lxml python3-lz4 python3-matplotlib python3-minimal python3-more-itertools python3-mpmath python3-numpy python3-packaging python3-pil python3-pil.imagetk python3-pkg-resources python3-pluggy python3-py python3-pymummer python3-pyparsing python3-pysam python3-pytest python3-renderpm python3-reportlab python3-reportlab-accel python3-scipy python3-setuptools python3-six python3-soupsieve python3-sympy python3-tk python3-toml python3-tz python3-ufolib2 python3-unicodedata2 python3-yaml python3-zipp python3.10 python3.10-dev python3.10-minimal python3.9 python3.9-minimal rake ruby ruby-asciidoctor ruby-net-telnet ruby-rubygems ruby-xmlrpc ruby3.0 rubygems-integration samtools sgml-base spades tk8.6-blt2.5 ucf unicode-data w3-dtd-mathml x11-common xml-core zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc blt-demo bowtie2-examples dh-make flit python3-build python3-tomli python3-installer fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre gawk-doc gettext-doc libasprintf-dev libgettextpo-dev groff gsl-ref-psdoc | gsl-doc-pdf | gsl-doc-info | gsl-ref-html libjs-jquery-ui-docs liblcms2-utils tcl8.6 tk8.6 libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl python3-doc python3-venv python-attr-doc clustalo clustalw dialign dssp emboss fasttree mafft muscle phylip phyml prank probcons python3-mysqldb python3-mmtf python3-rdflib python3-psycopg2 raxml t-coffee wise python-cycler-doc python-lxml-doc dvipng ffmpeg fonts-staypuft ghostscript gir1.2-gtk-3.0 inkscape ipython3 librsvg2-common python-matplotlib-doc python3-cairocffi python3-gi python3-gi-cairo python3-gobject python3-pyqt5 python3-sip python3-tornado texlive-extra-utils texlive-latex-extra python-mpmath-doc python3-gmpy2 gfortran python-numpy-doc python-pil-doc subversion python-pyparsing-doc pdf-viewer python3-egenix-mxtexttools python-reportlab-doc python-scipy-doc python-setuptools-doc texlive-fonts-extra python-sympy-doc tix python3-tk-dbg python3.10-venv python3.10-doc binfmt-support python3.9-venv python3.9-doc ri ruby-dev bundler cwltool sgml-base-doc docbook-mathml Recommended packages: curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs javascript-common libldap-common publicsuffix libsasl2-modules libltdl-dev libmail-sendmail-perl python-biopython-doc ncbi-blast+ python3-chardet python3-simplejson python3-psutil python3-html5lib python3-olefile python3-pygments zip fonts-lato The following NEW packages will be installed: asciidoctor autoconf automake autopoint autotools-dev bamtools blt bowtie2 bsdextrautils bwa cd-hit debhelper debugedit dh-autoreconf dh-python dh-strip-nondeterminism dwz fastaq file fontconfig-config fonts-dejavu-core fonts-lyx fonts-urw-base35 gawk gettext gettext-base groff-base help2man intltool-debian libarchive-zip-perl libbamtools2.5.1 libblas3 libbrotli1 libbsd0 libcapnp-0.8.0 libcurl3-gnutls libdebhelper-perl libdeflate0 libdw1 libedit2 libelf1 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libfml-dev libfml0 libfontconfig1 libfreetype6 libfribidi0 libgfortran5 libglib2.0-0 libgraphite2-3 libgsl27 libgslcblas0 libharfbuzz0b libhat-trie0 libhts3 libhtscodecs2 libicu70 libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 libjs-jquery libjs-jquery-ui libjs-sphinxdoc libjs-underscore libjsoncpp25 liblapack3 liblbfgsb0 liblcms2-2 libldap-2.5-0 liblocale-gettext-perl libmagic-mgc libmagic1 libmd0 libminimap-dev libminimap0 libmpdec3 libmurmurhash2 libnghttp2-14 libnlopt0 libopenjp2-7 libpipeline1 libpsl5 libpython3-all-dev libpython3-dev libpython3-stdlib libpython3.10 libpython3.10-dev libpython3.10-minimal libpython3.10-stdlib libpython3.9-minimal libpython3.9-stdlib libqhull-r8.0 libraqm0 librtmp1 libruby3.0 libsasl2-2 libsasl2-modules-db libsigsegv2 libssh-4 libssw0 libsub-override-perl libtcl8.6 libtiff5 libtk8.6 libtool libuchardet0 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxext6 libxft2 libxml2 libxrender1 libxslt1.1 libxss1 libyaml-0-2 m4 mailcap man-db mash media-types mime-support mummer po-debconf python-matplotlib-data python3 python3-all python3-all-dev python3-appdirs python3-attr python3-biopython python3-brotli python3-bs4 python3-cycler python3-dateutil python3-decorator python3-dendropy python3-dev python3-distutils python3-fonttools python3-fs python3-importlib-metadata python3-iniconfig python3-joblib python3-kiwisolver python3-lib2to3 python3-lxml python3-lz4 python3-matplotlib python3-minimal python3-more-itertools python3-mpmath python3-numpy python3-packaging python3-pil python3-pil.imagetk python3-pkg-resources python3-pluggy python3-py python3-pymummer python3-pyparsing python3-pysam python3-pytest python3-renderpm python3-reportlab python3-reportlab-accel python3-scipy python3-setuptools python3-six python3-soupsieve python3-sympy python3-tk python3-toml python3-tz python3-ufolib2 python3-unicodedata2 python3-yaml python3-zipp python3.10 python3.10-dev python3.10-minimal python3.9 python3.9-minimal rake ruby ruby-asciidoctor ruby-net-telnet ruby-rubygems ruby-xmlrpc ruby3.0 rubygems-integration samtools sbuild-build-depends-main-dummy sgml-base spades tk8.6-blt2.5 ucf unicode-data w3-dtd-mathml x11-common xml-core zlib1g-dev 0 upgraded, 210 newly installed, 0 to remove and 0 not upgraded. Need to get 128 MB of archives. After this operation, 534 MB of additional disk space will be used. 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http://ftpmaster.internal/ubuntu jammy/main amd64 fontconfig-config all 2.13.1-4.2ubuntu4 [29.1 kB] Get:74 http://ftpmaster.internal/ubuntu jammy/main amd64 libfontconfig1 amd64 2.13.1-4.2ubuntu4 [131 kB] Get:75 http://ftpmaster.internal/ubuntu jammy/main amd64 libxrender1 amd64 1:0.9.10-1build3 [19.7 kB] Get:76 http://ftpmaster.internal/ubuntu jammy/main amd64 libxft2 amd64 2.3.3-0ubuntu4 [41.5 kB] Get:77 http://ftpmaster.internal/ubuntu jammy/main amd64 x11-common all 1:7.7+23ubuntu1 [23.5 kB] Get:78 http://ftpmaster.internal/ubuntu jammy/main amd64 libxss1 amd64 1:1.2.3-1build1 [8526 B] Get:79 http://ftpmaster.internal/ubuntu jammy/main amd64 libtk8.6 amd64 8.6.12-1 [782 kB] Get:80 http://ftpmaster.internal/ubuntu jammy/main amd64 tk8.6-blt2.5 amd64 2.5.3+dfsg-4.1build1 [642 kB] Get:81 http://ftpmaster.internal/ubuntu jammy/main amd64 blt amd64 2.5.3+dfsg-4.1build1 [4846 B] Get:82 http://ftpmaster.internal/ubuntu jammy/universe amd64 bwa amd64 0.7.17-6 [195 kB] Get:83 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configuration, since apt-utils is not installed Fetched 128 MB in 1s (123 MB/s) Selecting previously unselected package liblocale-gettext-perl. 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Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.4.0-104-generic #118-Ubuntu SMP Wed Mar 2 19:02:41 UTC 2022 amd64 (x86_64) Toolchain package versions: binutils_2.38-3ubuntu1 dpkg-dev_1.21.1ubuntu1 g++-11_11.2.0-18ubuntu1 gcc-11_11.2.0-18ubuntu1 libc6-dev_2.35-0ubuntu3 libstdc++-11-dev_11.2.0-18ubuntu1 libstdc++6_12-20220313-1ubuntu1 linux-libc-dev_5.15.0-23.23 Package versions: adduser_3.118ubuntu5 advancecomp_2.1-2.1ubuntu1 apt_2.4.1 asciidoctor_2.0.16-2 autoconf_2.71-2 automake_1:1.16.5-1.1ubuntu4 autopoint_0.21-4ubuntu3 autotools-dev_20220109.1 bamtools_2.5.1+dfsg-10build1 base-files_12ubuntu2 base-passwd_3.5.52 bash_5.1-6ubuntu1 binutils_2.38-3ubuntu1 binutils-common_2.38-3ubuntu1 binutils-x86-64-linux-gnu_2.38-3ubuntu1 blt_2.5.3+dfsg-4.1build1 bowtie2_2.4.5-1 bsdextrautils_2.37.2-4ubuntu3 bsdutils_1:2.37.2-4ubuntu3 build-essential_12.9ubuntu2 bwa_0.7.17-6 bzip2_1.0.8-5 ca-certificates_20211016 cd-hit_4.8.1-4 coreutils_8.32-4.1ubuntu1 cpp_4:11.2.0-1ubuntu1 cpp-11_11.2.0-18ubuntu1 dash_0.5.11+git20210903+057cd650a4ed-3 debconf_1.5.79ubuntu1 debhelper_13.6ubuntu1 debianutils_5.5-1ubuntu1 debugedit_1:5.0-4 dh-autoreconf_20 dh-python_5.20220215 dh-strip-nondeterminism_1.13.0-1 diffutils_1:3.8-0ubuntu1 dpkg_1.21.1ubuntu1 dpkg-dev_1.21.1ubuntu1 dwz_0.14-1build1 e2fsprogs_1.46.5-2ubuntu1 fakeroot_1.28-1ubuntu1 fastaq_3.17.0-4 file_1:5.41-2 findutils_4.8.0-1ubuntu2 fontconfig-config_2.13.1-4.2ubuntu4 fonts-dejavu-core_2.37-2build1 fonts-lyx_2.3.6-1 fonts-urw-base35_20200910-1 g++_4:11.2.0-1ubuntu1 g++-11_11.2.0-18ubuntu1 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libpython3.10-dev_3.10.3-1 libpython3.10-minimal_3.10.3-1 libpython3.10-stdlib_3.10.3-1 libpython3.9-minimal_3.9.10-2 libpython3.9-stdlib_3.9.10-2 libqhull-r8.0_2020.2-4 libquadmath0_12-20220313-1ubuntu1 libraqm0_0.7.0-4ubuntu1 libreadline8_8.1.2-1 librtmp1_2.4+20151223.gitfa8646d.1-2build3 libruby3.0_3.0.2-7ubuntu1 libsasl2-2_2.1.27+dfsg2-3ubuntu1 libsasl2-modules-db_2.1.27+dfsg2-3ubuntu1 libseccomp2_2.5.3-2ubuntu1 libselinux1_3.3-1build1 libsemanage-common_3.3-1build1 libsemanage2_3.3-1build1 libsepol1_3.1-1ubuntu2 libsepol2_3.3-1 libsigsegv2_2.13-1ubuntu2 libsmartcols1_2.37.2-4ubuntu3 libsqlite3-0_3.37.2-2 libss2_1.46.5-2ubuntu1 libssh-4_0.9.6-2 libssl1.1_1.1.1l-1ubuntu1 libssl3_3.0.1-0ubuntu1 libssw0_1.1-13 libstdc++-11-dev_11.2.0-18ubuntu1 libstdc++6_12-20220313-1ubuntu1 libsub-override-perl_0.09-2 libsystemd0_249.11-0ubuntu1 libtasn1-6_4.18.0-4 libtcl8.6_8.6.12+dfsg-1 libtiff5_4.3.0-6 libtinfo6_6.3-2 libtirpc-common_1.3.2-2 libtirpc-dev_1.3.2-2 libtirpc3_1.3.2-2 libtk8.6_8.6.12-1 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patch_2.7.6-7build1 perl_5.34.0-3ubuntu1 perl-base_5.34.0-3ubuntu1 perl-modules-5.32_5.32.1-3ubuntu3 perl-modules-5.34_5.34.0-3ubuntu1 pinentry-curses_1.1.1-1build1 pkgbinarymangler_149 po-debconf_1.0.21+nmu1 policyrcd-script-zg2_0.1-3 procps_2:3.3.17-6ubuntu2 python-matplotlib-data_3.5.1-2 python3_3.10.1-0ubuntu2 python3-all_3.10.1-0ubuntu2 python3-all-dev_3.10.1-0ubuntu2 python3-appdirs_1.4.4-2 python3-attr_21.2.0-1 python3-biopython_1.79+dfsg-2 python3-brotli_1.0.9-2build4 python3-bs4_4.10.0-2 python3-cycler_0.11.0-1 python3-dateutil_2.8.1-6 python3-decorator_4.4.2-0ubuntu1 python3-dendropy_4.5.2-1 python3-dev_3.10.1-0ubuntu2 python3-distutils_3.10.3-0ubuntu2 python3-fonttools_4.29.1-2build1 python3-fs_2.4.12-1 python3-importlib-metadata_4.6.4-1 python3-iniconfig_1.1.1-2 python3-joblib_0.17.0-4ubuntu1 python3-kiwisolver_1.3.2-1 python3-lib2to3_3.10.3-0ubuntu2 python3-lxml_4.8.0-1 python3-lz4_3.1.3+dfsg-1build2 python3-matplotlib_3.5.1-2 python3-minimal_3.10.1-0ubuntu2 python3-more-itertools_8.10.0-2 python3-mpmath_1.2.1-2 python3-numpy_1:1.21.5-1 python3-packaging_21.3-1 python3-pil_9.0.1-1 python3-pil.imagetk_9.0.1-1 python3-pkg-resources_59.6.0-1.2 python3-pluggy_0.13.0-7.1 python3-py_1.10.0-1 python3-pymummer_0.11.0-2 python3-pyparsing_2.4.7-1 python3-pysam_0.17.0+ds-2build1 python3-pytest_6.2.5-1ubuntu2 python3-renderpm_3.6.8-1 python3-reportlab_3.6.8-1 python3-reportlab-accel_3.6.8-1 python3-scipy_1.7.1-1ubuntu1 python3-setuptools_59.6.0-1.2 python3-six_1.16.0-3 python3-soupsieve_2.3.1-1 python3-sympy_1.9-1 python3-tk_3.10.3-0ubuntu2 python3-toml_0.10.2-1 python3-tz_2021.3-1 python3-ufolib2_0.13.1+dfsg1-1 python3-unicodedata2_14.0.0+ds-8 python3-yaml_5.4.1-1 python3-zipp_1.0.0-3 python3.10_3.10.3-1 python3.10-dev_3.10.3-1 python3.10-minimal_3.10.3-1 python3.9_3.9.10-2 python3.9-minimal_3.9.10-2 rake_13.0.6-2 readline-common_8.1.2-1 rpcsvc-proto_1.4.2-0ubuntu5 ruby_1:3.0~exp1 ruby-asciidoctor_2.0.16-2 ruby-net-telnet_0.1.1-2 ruby-rubygems_3.3.5-2 ruby-xmlrpc_0.3.2-1 ruby3.0_3.0.2-7ubuntu1 rubygems-integration_1.18 samtools_1.13-4 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.8-1ubuntu1 sensible-utils_0.0.17 sgml-base_1.30 spades_3.13.1+dfsg-2ubuntu1 systemd_249.11-0ubuntu1 systemd-sysv_249.11-0ubuntu1 systemd-timesyncd_249.11-0ubuntu1 sysvinit-utils_3.01-1ubuntu1 tar_1.34+dfsg-1build2 tk8.6-blt2.5_2.5.3+dfsg-4.1build1 tzdata_2021e-1ubuntu1 ubuntu-keyring_2021.03.26 ucf_3.0043 unicode-data_14.0.0-1.1 usrmerge_25ubuntu2 util-linux_2.37.2-4ubuntu3 w3-dtd-mathml_2.0.0.0-5.1 x11-common_1:7.7+23ubuntu1 xml-core_0.18+nmu1 xz-utils_5.2.5-2build1 zlib1g_1:1.2.11.dfsg-2ubuntu8 zlib1g-dev_1:1.2.11.dfsg-2ubuntu8 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: ariba Binary: ariba Architecture: any Version: 2.14.6+ds-3build1 Maintainer: Debian Med Packaging Team Uploaders: Sascha Steinbiss Homepage: https://github.com/sanger-pathogens/ariba Standards-Version: 4.6.0 Vcs-Browser: https://salsa.debian.org/med-team/ariba Vcs-Git: https://salsa.debian.org/med-team/ariba.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), dh-python, python3-biopython, python3-all-dev, python3-dendropy, python3-setuptools, python3-pymummer (>= 0.10.2), python3-pysam (>= 0.9.1), python3-pytest, python3-bs4, python3-matplotlib, python3-tk, bowtie2 (>= 2.1.0), cd-hit, mash, libminimap-dev, libfml-dev (>= 0.1-4~), mummer, fastaq (>= 3.12.0), help2man, asciidoctor, spades [amd64] Package-List: ariba deb science optional arch=any Checksums-Sha1: 9e4b9ed6460de8733b121f1a1b9cfa9785c25cb9 1970492 ariba_2.14.6+ds.orig.tar.xz 1515877787595ec27d03b823d6542899374cc1b0 9888 ariba_2.14.6+ds-3build1.debian.tar.xz Checksums-Sha256: b7329ba1983834d3d49a97f838b1fa7e3bdd4556fc45220c75fa7d59c271ec4c 1970492 ariba_2.14.6+ds.orig.tar.xz 5a048091866dbf9b2b83a20df469c3ef6ace6bed68675ce0437b7de9fc138205 9888 ariba_2.14.6+ds-3build1.debian.tar.xz Files: 908a550cb2c7683a271f16aee3f079ad 1970492 ariba_2.14.6+ds.orig.tar.xz 3b3222cc8149e2a707e2274c04a8acd9 9888 ariba_2.14.6+ds-3build1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEJeP/LX9Gnb59DU5Qr8/sjmac4cIFAmIyOHkACgkQr8/sjmac 4cIZYA//VdIR1CAWzG/PUIHnj/t3IUYc0lu9YZ8H7KgiBcXS3fC5u3k5plisl9nt 6x7T6cj2myjEiHAAuuWYEnG6/JY5dhbwZXdj2a4Q7WR1EjmU2W1Ipa+vjC8Q9cM5 YvOBpsFgsX6yeZEh/X1RPNwWfp7db7ZBap2ZTQy/V+JeQNyWrLQ2ebRbgHCSXx7t k/cFJZ59jAFM7YJAVm4ZAArmqHvMJV+DIYvG2PQIGKGUp3aARn6NORAq05qoyAT9 l3ITIuyoeD5f6rOC8zgCsKljGtpYJTA1OlZHLF3/fPSqKAHShk5MG1GhTCdDF5yI 9zqbPuwlWnX1Ll8SPGBKKNdi+HkUZIZOA0j5DWjltPKWen+oPOneAXpGYCwRjeV4 zDajfJ/qkW/4Cy/Lwu1rlJSwr7ET08rM1Vy2faV5H1FJLHrCUHec9Bk8XN648+he /Z/DDNUxdTG2Zko4a78QfP6s9XMpN25ZfkddP88dw0FT/O3pL21TYp/D/jEnPyXb 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info: applying run-debian-spades-wrapper.patch dpkg-source: info: applying port-to-pytest.patch Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=4 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LOGNAME=buildd PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=build-PACKAGEBUILD-23248859 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-23248859 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-23248859 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- Command: dpkg-buildpackage -us -uc -mLaunchpad Build Daemon -b -rfakeroot dpkg-buildpackage: info: source package ariba dpkg-buildpackage: info: source version 2.14.6+ds-3build1 dpkg-buildpackage: info: source distribution jammy dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --with python3 --buildsystem=pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/<>' rm -rf /<>/debian/man dh_auto_clean -- I: pybuild base:237: python3.10 setup.py clean running clean removing '/<>/.pybuild/cpython3_3.10_ariba/build' (and everything under it) 'build/bdist.linux-x86_64' does not exist -- can't clean it 'build/scripts-3.10' does not exist -- can't clean it make[1]: Leaving directory '/<>' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --with python3 --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild I: pybuild base:237: python3.10 setup.py config running config dh_auto_build -O--buildsystem=pybuild I: pybuild base:237: /usr/bin/python3 setup.py build running build running build_py creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/cluster.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/summary_sample.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/histogram.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/read_store.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/bam_parse.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/flag.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/summary.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/vfdb_parser.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/versions.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/ref_preparer.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/aln_to_metadata.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/common.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/pubmlst_getter.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/samtools_variants.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/megares_zip_parser.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/assembly_variants.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/megares_data_finder.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/tb.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/summary_cluster.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/scaffold_graph.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/pubmlst_ref_preparer.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/summary_cluster_variant.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/link.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/cdhit.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/assembly.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/clusters.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/read_filter.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/mic_plotter.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/reference_data.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/mapping.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/assembly_compare.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/ref_seq_chooser.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/external_progs.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/faidx.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/report.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/refdata_query.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/sequence_variant.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/mlst_profile.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/card_record.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/__init__.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/report_filter.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/report_flag_expander.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/sequence_metadata.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/mlst_reporter.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/ref_genes_getter.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/summary_cluster_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/cdhit_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/cluster_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/test_refdata_query.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/sequence_metadata_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/samtools_variants_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/pubmlst_ref_preparer_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/report_filter_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/megares_data_finder_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/faidx_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/sequence_variant_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/histogram_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/vfdb_parser_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/megares_zip_parser_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/mapping_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/common_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/scaffold_graph_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/pubmlst_getter_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/summary_sample_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/mic_plotter_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/read_store_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/ncbi_getter_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/summary_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/assembly_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/reference_data_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/flag_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/ref_seq_chooser_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/assembly_compare_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/report_flag_expander_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/__init__.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/mlst_profile_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/external_progs_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/clusters_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/card_record_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/summary_cluster_variant_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/aln_to_metadata_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/bam_parse_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/tb_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/mlst_reporter_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/read_filter_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/ref_preparer_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/versions_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/assembly_variants_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/ref_genes_getter_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/link_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/flag.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/micplot.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/summary.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/prepareref.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/reportfilter.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/pubmlstget.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/expandflag.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/refquery.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/prepareref_tb.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/version.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/__init__.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/aln2meta.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/pubmlstspecies.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/getref.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/run.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/test_run_data copying ariba/test_run_data/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/test_run_data copying ariba/test_run_data/ref_seqs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/test_run_data copying ariba/test_run_data/ref_fasta_to_make_reads_from.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/test_run_data copying ariba/test_run_data/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/test_run_data copying ariba/test_run_data/metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/test_run_data creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data copying ariba/tb_data/panel.20181221.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data copying ariba/tb_data/panel.20190102.json -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data copying ariba/tb_data/panel.20181221.json -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data copying ariba/tb_data/panel.20190102.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data copying ariba/tb_data/NC_000962.3.gb -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data copying ariba/tb_data/panel.20181115.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data copying ariba/tb_data/panel.20181115.json -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data copying ariba/tb_data/NC_000962.3.fa.gz -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/refdata_query_prepareref.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_test_whole_run.out.csv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_best_match_not_in_cluster.contigs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.het_snp.out.details.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_load_vars_file_bad.1.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_test_fix_contig_orientation.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_test_get_read_depths.gz.tbi -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mapping_test_bowtie2_remove_both_unmapped_reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/bam_parse_test_update_unmapped_mates_from_sam.reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/vfdb_parser_test_run.out.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_write_tb_resistance_calls_json.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_store_test_get_reads.expected.reads_subset.1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_filter_test_run.expected.reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/report_flag_expander.run.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_run_noncoding.out.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_dummy_db.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_bam_to_clusters_reads.db.fa.sma -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/best_seq_chooser_total_alignment_score_reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_no_nucmer_match.clusterrefs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_test_flanking.expected_contigs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_test_cluster_with_cdhit.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_remove_bad_noncoding.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_write_report.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_make_vcf_and_depths_files.reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_multiple_vars.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/refcheck_test_check_too_short.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_cluster_w_cdhit_nocluster.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_filter_test_run.in.read_store -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_test_cluster_with_cdhit.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cdhit_test_fake_run.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.new_st.report.out.details.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_load_data_info_file -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/link_test_init.ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_variants_one_var_one_ctg_noncdg.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/megares_zip_parser_load_annotations.csv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/dummy.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.all_present_perfect.report.out.details.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_remove_bad_genes.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/pubmlst_rename_seqs.expected.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_input_check_seq_names.good.csv.1 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cdhit_test_run_get_clusters_from_dict.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_run_noncoding.out.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/bam_parse_test_parse.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_filter_test_run.in.ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_test_flanking.contigs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_test_write_seqs_to_fasta.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_compare_parse_nucmer_coords_file.coords -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_input_check_seq_names.good.fa.2 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_store_test_get_reads.expected.reads_2.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_keep_seqs_from_dict.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_sample_test_load_file.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/bam_parse_test_update_unmapped_mates_from_sam.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_choose_ref_fail.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_sequence_type.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/best_seq_chooser_best_seq_reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_all_fasta_files.in.1 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_ok_variants_only.not_present.metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_load_minimap_files.insertHistogram -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_filter_bad_data.expected.all.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_minimap_reads_to_all_refs.ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_matching_contig_pieces.expect.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_variants_test_get_variants_variants_only.snps -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/report_filter_test_init_good.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/refcheck_test_fix_out.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/report_filter_test_run.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_all_fasta_files.in.2 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/best_seq_chooser_get_best_seq_by_alignment_score_ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.new_st.report.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_write_sequences_to_files.gene.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_sam_pair_to_insert_ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_minimap_reads_to_all_refs.out.pairs -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_store_test_sort_file.in -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_test_init.fofn -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/megares_zip_parse_extract_files_ok.zip -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_load_minimap_files.properPairs -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/link_test_init.reads.make_link.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_ok_presence_absence.metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_make_reads_for_assembly.in1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_make_vcf_and_depths_files.reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/link_test_init.reads.make_link_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_sequence_is_in_fasta_file.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mapping_test_bowtie2_unsorted.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_make_vcf_and_depths_files.expect.vcf -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_cluster_w_cdhit_clstrs_file.expect.clstrs.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_assemble_with_fermilite_fails.expected.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/best_seq_chooser_get_best_seq_by_alignment_score_reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_assemble_with_fermilite.reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_write_metadata_tsv.expected.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_write_mlst_reports.out.details.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_filter_bad_data.expected.metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/link_test_init.reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_test_assemble_with_spades_reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_store_test_sort_file.out -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_variants_test_get_variants_presence_absence.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_make_vcf_and_depths_files.asmbly.fa.fai -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/megares_zip_parse_extract_files_one_missing.zip -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_sam_pair_to_insert_ref.fa.smi -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_store_test_get_reads.expected.reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_load_minimap_files.cluster2representative -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_write_tb_resistance_calls_json.out.json -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_load_minimap_out_cluster2representative.in -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/report_filter_test_write_report.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_write_gene_fa.db.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/best_seq_chooser_get_best_seq_by_alignment_score_ref.fa.fai -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cdhit_test_run.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_init_refdata.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_sequence.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.one_gene_missing.out.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/bam_parse_test_update_unmapped_mates_from_sam.reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_rename_sequences.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/refcheck_test_fix_out.rename -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_input_check_seq_names.bad.csv.1 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.profile.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_sample_test_column_summary_data.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_write_sequences_to_files.noncoding.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/graph_test_update_from_sam.ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_write_mlst_reports.out.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.one_gene_missing.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_test_get_depths_at_position.ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_cluster_w_cdhit_clstrs_file.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_cluster_w_cdhit_clstrs_file.in.clstrs.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_filter_bad_data.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_test_check_spades_log_file.log.good -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_varonly.not_present.always_report.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio2.exclude.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio1.yes.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/graph_test_update_from_sam.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mapping_test_bowtie2_ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_init_refdata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_assembly_fail.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/refcheck_test_check_duplicate_name.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_minimap_reads_to_all_refs.reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/refcheck_test_check_not_gene.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_filter_test_run.expected.reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_store_test_get_reads.expected.reads_1.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/bam_parse_test_parse.reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_count_reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio2.no.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_matching_contig_pieces.coords -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/link_test_init.reads.make_link.bam.bai -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_delete_codon.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_sam_pair_to_insert_reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_write_mlst_reports.ariba.report.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_sample_test_var_groups.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/graph_test_update_from_sam.reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_genes_getter.fix_virulencefinder_fasta_file.out.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_best_match_not_in_cluster.allrefs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_test_get_variants.vcf -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_minimap_reads_to_all_refs.out.hist -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/bam_parse_test_update_soft_clipped_from_sam.ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene.ref_for_reads.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_ok_non_coding.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio1.yes.no_combinations.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mic_plotter_load_mic_file.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_preparer_test_run.in.1.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_gather_unfiltered_output_data.in.2.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_load_minimap_files.clusterCounts -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/vfdb_parser_test_run.out.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch.metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mic_plotter_load_summary_file.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.one_gene_missing.out.details.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_write_sequences_to_files.noncoding.varonly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/megares_zip_parser_write_files.expect.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_preparer_test_fasta_to_metadata.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.all_present_perfect.report.out.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_preparer_test_run.in.3.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cdhit_test_run_get_clusters_from_dict.in.clusters -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_matching_contig_pieces.ctg.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/best_seq_chooser_total_alignment_score_ref_seqs.fa.fai -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio2.yes.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_load_minimap_proper_pairs.in -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_run_coding.out.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio2.yes.no_combinations.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cdhit_test_load_user_clusters_file.bad1 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_ref_not_in_cluster.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_input_check_seq_names.bad.fa.2 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_assembly_fail.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_assemble_with_fermilite_fails.reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/best_seq_chooser_best_seq_reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_make_cluster_file.out -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_run_coding.out.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mapping_test_bowtie2_reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.expect.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_minimap_reads_to_all_refs.reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mapping_test_bowtie2_ref.fa.fai -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.het_snps.out.details.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_run_fermilite_fail.reads.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_run_with_tb.reads_2.fq.gz -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_write_gene_fa.out.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/link_test_init.reads.no_link.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mapping_test_sam_to_fastq.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_input_check_seq_names.bad.csv.2 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_test_assemble_with_spades_reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.all_present_perfect.report.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_run_coding.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_assemble_with_fermilite.expected.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_test_check_spades_log_file.log.bad -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_ok_variants_only.present.metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_store_test_compress_and_index_file.in -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mapping_test_sam_pair_to_insert.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_test_get_read_depths.gz -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_bam_to_clusters_reads.db.fa.fai -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.het_snps.out.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_store_test_get_reads.expected.reads.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/faidx_test_write_fa_subset.out.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/bam_parse_test_update_soft_clipped_from_sam.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cdhit_test_fake_run.non-unique.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_no_reads_after_filtering.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_init_ok.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_test_assemble_with_spades_fails_reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_write_sequences_to_files.gene.varonly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_test_get_variant_positions_from_vcf.vcf -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_genes_getter.fix_virulencefinder_fasta_file.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio2.no.no_combinations.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_not_in_cluster.clusterrefs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_run_noncoding.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_run_fermilite.expected.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_test_fix_contig_orientation.out.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_filter_bad_data_metadata.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_variants_test_get_variants_presence_absence.snps -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_init_fails.empty.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/tb_report_to_resistance_dict.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_profile_test.init_multiple_extra_columns.profile.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_load_vars_file_good.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_test_get_variants.read_depths.gz.tbi -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_test_scaffold_with_sspace_reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio1.exclude.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/refcheck_test_fix_out.removed.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_sequence.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_test_all_non_wild_type_variants.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_test_rename_sequences.out -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/test_common_cat_files.in.1 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_preparer_test_run.in.4.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_variants_test_get_variants_variants_only.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_test_write_seqs_to_fasta.expected.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cdhit_test_get_clusters_from_bak_file.in -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_write_gene_fa.db.fa.fai -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_delete_codon.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/report_filter_test_run.expected.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_preparer_test_fasta_to_metadata.noncoding.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cdhit_test_load_user_clusters_file.bad3 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/link_test_init.reads.no_link_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_contained_ref_seq.all_refs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_test_fix_contig_orientation.ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/refcheck_test_check_spaces_in_name.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_contained_ref_seq.cluster_refs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cdhit_test_load_user_clusters_file.good -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_dummy_db.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/tb_write_prepareref_metadata_file.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio2.exclude.no_combinations.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_best_match_is_in_cluster.allrefs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_best_match_is_in_cluster.clusterrefs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_no_nucmer_match.contigs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_filter_bad_data.expected.check_metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_load_vars_file_bad.2.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_make_reads_for_assembly.out2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio1.no.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_assemble_with_fermilite_fails.reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_ok_non_coding.metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_best_match_not_in_cluster.clusterrefs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_fasta_file.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_ok_variants_only.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_variants_one_var_one_ctg_cdg.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_best_match_is_in_cluster.contigs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_filter_test_run.in.reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_test_load_input_files.1.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_test_newick_from_dist_matrix.distances -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_test_whole_run.in.2.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/best_seq_chooser_total_alignment_score_reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_init_ok.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/link_test_init.reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/pubmlst_rename_seqs.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_cat_genes_match_ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cdhit_test_load_user_clusters_file.bad2 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_preparer_test_run.in.1.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_not_in_cluster.contigs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/bam_parse_test_sam_to_soft_clipped.ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mapping_test_bowtie2_reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_test_all_non_wild_type_variants.ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_no_reads_after_filtering.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/refdata_query_prepareref.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_count_reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_insert_codon.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/link_test_init.reads.no_link.bam.bai -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_filter_test_run_cdhit_est_2d.expected.clstr -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_test_write_seqs_to_fasta.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_test_scaffold_with_sspace_contigs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/graph_test_update_from_sam.ref.fa.fai -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_filter_bad_data_non_coding.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_store_test_get_reads.expected.reads.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_partial_asmbly.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_filter_bad_data_variants_only.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/report_filter_test_load_report_good.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_load_minimap_out_cluster_counts.in -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_test_parse_assembly_bam.assembly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.het_snps.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_cluster_w_cdhit_clstrs_file.in.meta.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_make_vcf_and_depths_files.expect.depths.gz -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_test_scaffold_with_sspace_reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_run_noncoding.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/best_seq_chooser_best_seq_ref.fa.fai -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_store_test_clean.in -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_ref_not_in_cluster.all_refs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch.ref_for_reads.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_partial_asmbly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mapping_test_bowtie2_remove_both_unmapped_reads.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_test_parse_assembly_bam.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio1.no.no_combinations.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_cluster_w_cdhit_nocluster.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_test_load_input_files.2.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene.ref_for_reads.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/test_common_cat_files.out -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_run_coding.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_filter_test_run_cdhit_est_2d.ref.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_write_metadata_tsv.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.het_snp.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/best_seq_chooser_best_seq_ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/link_test_init.ref.fa.fai -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_test_cluster_with_cdhit.expected.clusters.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_insert_codon.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_filter_cdhit_clstr_to_reads.in.clstr -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_init_ok.rename.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_make_vcf_and_depths_files.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_store_test_get_reads.in -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_init_fails.empty.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/megares_zip_parser_write_files.expect.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_to_matrix.1.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_filter_test_run.in.reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_run_fermilite.expected.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_input_check_seq_names.bad.fa.1 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_sam_pair_to_insert_reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_metadata_tsv.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cdhit_test_run_get_clusters_from_dict_rename.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_assemble_with_fermilite.expected.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_test_assemble_with_spades_fails_reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/bam_parse_test_sam_to_soft_clipped.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_to_matrix.2.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_sample_test_non_synon_variants.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_variants_test_get_mummer_variants.snp.snps -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/bam_parse_test_parse.reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_make_vcf_and_depths_files.asmbly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.new_st.report.out.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mapping_test_bowtie2_sorted.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_rename_file.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_test_write_cluster_allocation_file.expected -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/test_common_cat_files.in.2 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/vfdb_parser_test_run.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio1.exclude.no_combinations.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_run_fermilite.reads.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_test_remove_bad_noncoding.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_choose_ref_fail.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_minimap_reads_to_all_refs.clstrs.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_variants_one_var_one_ctg_noncdg.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_ok_presence_absence.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_write_catted_assembled_genes_fasta.expected.out.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/bam_parse_test_update_unmapped_mates_from_sam.ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_not_in_cluster.allrefs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_remove_bad_noncoding.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_run_with_tb.reads_1.fq.gz -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/faidx_test_write_fa_subset.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_matching_contig_pieces.ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/megares_zip_parser_load_header_mappings.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_store_test_get_reads.expected.reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/bam_parse_test_parse.ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_make_reads_for_assembly.out1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_test_get_depths_at_position.ref.fa.fai -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_make_vcf_and_depths_files.for_reads.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_multiple_vars.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_keep_seqs_from_dict.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_rename_sequences_metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/test_common_cat_files.in.3 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mapping_test_bowtie2_remove_both_unmapped_reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_filter_bad_data.expected.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_profile_test.profile.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_test_remove_bad_genes.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_store_test_get_reads.expected.reads_subset.2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/faidx_test_write_fa_subset.in.fa.fai -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_dummy_reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_test_write_distance_matrix.distances -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/graph_test_write_all_links_to_file.out -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_minimap_reads_to_all_refs.out.clstr2rep -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_variants_test_get_mummer_variants.none.snps -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/report_flag_expander.run.out.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/best_seq_chooser_total_alignment_score_ref_seqs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_run_fermilite_fails.expected.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_assemble_with_fermilite.reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/graph_test_update_from_sam.reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_filter_test_run_cdhit_est_2d.reads.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_run_noncoding.out.cluster -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_no_nucmer_match.allrefs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_test_variants_in_coords.vcf -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_test_flanking.cluster_refs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_test_total_depth_per_contig -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_test_get_variants.read_depths.gz -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_init_fails.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/bam_parse_test_update_soft_clipped_from_sam.reads.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/best_seq_chooser_get_best_seq_by_alignment_score_reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_sample_test_column_names_tuples_and_het_snps.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_write_sequences_to_files.all.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/report_filter_test_init_bad.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_write_catted_assemblies_fasta.expected.out.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/report_filter_test_load_report_bad.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mapping_test_get_total_alignment_score.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/refcheck_test_check_ok.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_preparer_test_run.in.2.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_sequence_type.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_input_check_seq_names.good.fa.1 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_make_reads_for_assembly.in2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_make_vcf_and_depths_files.expect.cov -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/refcheck_test_check_too_long.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_bam_to_clusters_reads.db.fa.smi -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.het_snp.out.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/refcheck_test_fix_out.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_dummy_reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_variants_one_var_one_ctg_cdg.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/link_test_init.reads.make_link_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_test_flanking.all_refs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/refcheck_test_fix_in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_gather_unfiltered_output_data.in.1.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_init_ok.params.json -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_test_get_depths_at_position.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_run_coding.out.cluster -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_all_metadata_tsvs.1.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/pubmlst_getter.dbases.xml -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_remove_bad_genes.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_input_check_seq_names.good.csv.2 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_minimap_reads_to_all_refs.out.clstr_count -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_write_mlst_reports.mlst_profile.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_ref_not_in_cluster.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_preparer_test_run.in.4.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_filter_bad_data_presence_absence.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_load_minimap_insert_histogram.in -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_filter_bad_data.expected.check_metadata.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_contained_ref_seq.contigs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_all_metadata_tsvs.2.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_preparer_test_run.in.2.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_load_aln_file.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_sam_pair_to_insert_ref.fa.sma -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_profile_test.init.profile.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/tb_genbank_to_gene_coords.gb -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_cluster_w_cdhit_nocluster.expect.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/bam_parse_test_sam_to_soft_clipped.reads.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_test_load_fofn -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_preparer_test_fasta_to_metadata.coding.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/link_test_init.reads.no_link_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_test_whole_run.in.1.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref copying ariba/tests/data/refdata_query_prepareref/02.cdhit.clusters.pickle -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref copying ariba/tests/data/refdata_query_prepareref/02.cdhit.noncoding.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref copying ariba/tests/data/refdata_query_prepareref/02.cdhit.clusters.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref copying ariba/tests/data/refdata_query_prepareref/02.cdhit.noncoding.varonly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref copying ariba/tests/data/refdata_query_prepareref/00.version_info.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref copying ariba/tests/data/refdata_query_prepareref/01.filter.check_metadata.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref copying ariba/tests/data/refdata_query_prepareref/02.cdhit.gene.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref copying ariba/tests/data/refdata_query_prepareref/01.filter.check_metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref copying ariba/tests/data/refdata_query_prepareref/01.filter.check_genes.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref copying ariba/tests/data/refdata_query_prepareref/02.cdhit.all.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref copying ariba/tests/data/refdata_query_prepareref/00.info.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref copying ariba/tests/data/refdata_query_prepareref/00.rename_info -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref copying ariba/tests/data/refdata_query_prepareref/01.filter.check_noncoding.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref copying ariba/tests/data/refdata_query_prepareref/02.cdhit.gene.varonly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_non_coding copying ariba/tests/data/cluster_test_full_run_ok_non_coding/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_non_coding copying ariba/tests/data/cluster_test_full_run_ok_non_coding/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_non_coding copying ariba/tests/data/cluster_test_full_run_ok_non_coding/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_non_coding creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ref_not_in_cluster copying ariba/tests/data/cluster_test_full_run_ref_not_in_cluster/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ref_not_in_cluster copying ariba/tests/data/cluster_test_full_run_ref_not_in_cluster/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ref_not_in_cluster copying ariba/tests/data/cluster_test_full_run_ref_not_in_cluster/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ref_not_in_cluster creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out copying ariba/tests/data/ref_preparer_test_run.out/02.cdhit.clusters.pickle -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out copying ariba/tests/data/ref_preparer_test_run.out/02.cdhit.noncoding.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out copying ariba/tests/data/ref_preparer_test_run.out/02.cdhit.clusters.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out copying ariba/tests/data/ref_preparer_test_run.out/02.cdhit.noncoding.varonly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out copying ariba/tests/data/ref_preparer_test_run.out/00.version_info.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out copying ariba/tests/data/ref_preparer_test_run.out/01.filter.check_metadata.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out copying ariba/tests/data/ref_preparer_test_run.out/02.cdhit.gene.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out copying ariba/tests/data/ref_preparer_test_run.out/01.filter.check_metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out copying ariba/tests/data/ref_preparer_test_run.out/01.filter.check_genes.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out copying ariba/tests/data/ref_preparer_test_run.out/02.cdhit.all.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out copying ariba/tests/data/ref_preparer_test_run.out/00.info.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out copying ariba/tests/data/ref_preparer_test_run.out/01.filter.check_noncoding.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out copying ariba/tests/data/ref_preparer_test_run.out/02.cdhit.gene.varonly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/02.cdhit.clusters.pickle -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/02.cdhit.noncoding.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/02.cdhit.clusters.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/02.cdhit.noncoding.varonly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/00.version_info.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/01.filter.check_metadata.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/02.cdhit.gene.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/01.filter.check_metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/01.filter.check_genes.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/02.cdhit.all.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/00.info.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/00.rename_info -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/01.filter.check_noncoding.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/02.cdhit.gene.varonly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref copying ariba/tests/data/clusters_run_with_tb.ref/02.cdhit.clusters.pickle -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref copying ariba/tests/data/clusters_run_with_tb.ref/02.cdhit.noncoding.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref copying ariba/tests/data/clusters_run_with_tb.ref/02.cdhit.clusters.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref copying ariba/tests/data/clusters_run_with_tb.ref/02.cdhit.noncoding.varonly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref copying ariba/tests/data/clusters_run_with_tb.ref/00.version_info.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref copying ariba/tests/data/clusters_run_with_tb.ref/01.filter.check_metadata.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref copying ariba/tests/data/clusters_run_with_tb.ref/02.cdhit.gene.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref copying ariba/tests/data/clusters_run_with_tb.ref/01.filter.check_metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref copying ariba/tests/data/clusters_run_with_tb.ref/01.filter.check_genes.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref copying ariba/tests/data/clusters_run_with_tb.ref/02.cdhit.all.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref copying ariba/tests/data/clusters_run_with_tb.ref/00.info.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref copying ariba/tests/data/clusters_run_with_tb.ref/00.params.json -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref copying ariba/tests/data/clusters_run_with_tb.ref/02.cdhit.gene.varonly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_delete_codon copying ariba/tests/data/cluster_test_full_run_delete_codon/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_delete_codon copying ariba/tests/data/cluster_test_full_run_delete_codon/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_delete_codon copying ariba/tests/data/cluster_test_full_run_delete_codon/for_reads.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_delete_codon copying ariba/tests/data/cluster_test_full_run_delete_codon/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_delete_codon creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc copying ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc copying ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc copying ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_assembly_fail copying ariba/tests/data/cluster_test_full_run_assembly_fail/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_assembly_fail copying ariba/tests/data/cluster_test_full_run_assembly_fail/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_assembly_fail copying ariba/tests/data/cluster_test_full_run_assembly_fail/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_assembly_fail creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch copying ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch copying ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch copying ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_presence_absence copying ariba/tests/data/cluster_test_full_run_ok_presence_absence/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_presence_absence copying ariba/tests/data/cluster_test_full_run_ok_presence_absence/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_presence_absence copying ariba/tests/data/cluster_test_full_run_ok_presence_absence/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_presence_absence creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_multiple_vars copying ariba/tests/data/cluster_test_full_run_multiple_vars/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_multiple_vars copying ariba/tests/data/cluster_test_full_run_multiple_vars/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_multiple_vars copying ariba/tests/data/cluster_test_full_run_multiple_vars/for_reads.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_multiple_vars copying ariba/tests/data/cluster_test_full_run_multiple_vars/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_multiple_vars creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene copying ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene copying ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene copying ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_partial_asmbly copying ariba/tests/data/cluster_test_full_run_partial_asmbly/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_partial_asmbly copying ariba/tests/data/cluster_test_full_run_partial_asmbly/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_partial_asmbly copying ariba/tests/data/cluster_test_full_run_partial_asmbly/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_partial_asmbly creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.in copying ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.in/profile.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.in copying ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.in/gene1.tfa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.in copying ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.in/gene2.tfa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.in creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_refs_fa copying ariba/tests/data/cluster_test_init_no_refs_fa/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_refs_fa copying ariba/tests/data/cluster_test_init_no_refs_fa/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_refs_fa creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2 copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2 copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2 copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2 creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_choose_ref_fail copying ariba/tests/data/cluster_test_full_run_choose_ref_fail/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_choose_ref_fail copying ariba/tests/data/cluster_test_full_run_choose_ref_fail/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_choose_ref_fail copying ariba/tests/data/cluster_test_full_run_choose_ref_fail/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_choose_ref_fail creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying ariba/tests/data/ref_preparer_test_run_all_noncoding.out/02.cdhit.clusters.pickle -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying ariba/tests/data/ref_preparer_test_run_all_noncoding.out/02.cdhit.noncoding.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying ariba/tests/data/ref_preparer_test_run_all_noncoding.out/00.auto_metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying ariba/tests/data/ref_preparer_test_run_all_noncoding.out/02.cdhit.clusters.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying ariba/tests/data/ref_preparer_test_run_all_noncoding.out/02.cdhit.noncoding.varonly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying ariba/tests/data/ref_preparer_test_run_all_noncoding.out/00.version_info.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying ariba/tests/data/ref_preparer_test_run_all_noncoding.out/01.filter.check_metadata.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying ariba/tests/data/ref_preparer_test_run_all_noncoding.out/02.cdhit.gene.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying ariba/tests/data/ref_preparer_test_run_all_noncoding.out/01.filter.check_metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying ariba/tests/data/ref_preparer_test_run_all_noncoding.out/01.filter.check_genes.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying ariba/tests/data/ref_preparer_test_run_all_noncoding.out/02.cdhit.all.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying ariba/tests/data/ref_preparer_test_run_all_noncoding.out/00.info.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying ariba/tests/data/ref_preparer_test_run_all_noncoding.out/01.filter.check_noncoding.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying ariba/tests/data/ref_preparer_test_run_all_noncoding.out/02.cdhit.gene.varonly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/megares_zip_parser_write_files copying ariba/tests/data/megares_zip_parser_write_files/megares_database_v1.01.fasta -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/megares_zip_parser_write_files copying ariba/tests/data/megares_zip_parser_write_files/megares_annotations_v1.01.csv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/megares_zip_parser_write_files copying ariba/tests/data/megares_zip_parser_write_files/megares_to_external_header_mappings_v1.01.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/megares_zip_parser_write_files creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc copying ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc copying ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc copying ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering copying ariba/tests/data/cluster_test_full_run_no_reads_after_filtering/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering copying ariba/tests/data/cluster_test_full_run_no_reads_after_filtering/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering copying ariba/tests/data/cluster_test_full_run_no_reads_after_filtering/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_reads_2 copying ariba/tests/data/cluster_test_init_no_reads_2/genes.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_reads_2 copying ariba/tests/data/cluster_test_init_no_reads_2/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_reads_2 creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_load_ref_data_from_dir copying ariba/tests/data/clusters_load_ref_data_from_dir/02.cdhit.clusters.pickle -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_load_ref_data_from_dir copying ariba/tests/data/clusters_load_ref_data_from_dir/01.filter.check_metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_load_ref_data_from_dir copying ariba/tests/data/clusters_load_ref_data_from_dir/02.cdhit.all.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_load_ref_data_from_dir copying ariba/tests/data/clusters_load_ref_data_from_dir/00.info.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_load_ref_data_from_dir copying ariba/tests/data/clusters_load_ref_data_from_dir/00.params.json -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_load_ref_data_from_dir creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc copying ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc copying ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc copying ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc copying ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc copying ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc copying ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_variants_only copying ariba/tests/data/cluster_test_full_run_ok_variants_only/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_variants_only copying ariba/tests/data/cluster_test_full_run_ok_variants_only/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_variants_only copying ariba/tests/data/cluster_test_full_run_ok_variants_only/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_variants_only creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_insert_codon copying ariba/tests/data/cluster_test_full_run_insert_codon/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_insert_codon copying ariba/tests/data/cluster_test_full_run_insert_codon/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_insert_codon copying ariba/tests/data/cluster_test_full_run_insert_codon/for_reads.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_insert_codon copying ariba/tests/data/cluster_test_full_run_insert_codon/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_insert_codon creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_reads_1 copying ariba/tests/data/cluster_test_init_no_reads_1/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_reads_1 copying ariba/tests/data/cluster_test_init_no_reads_1/genes.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_reads_1 creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene copying ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene copying ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene copying ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene running build_ext building 'minimap_ariba' extension creating build creating build/temp.linux-x86_64-3.10 creating build/temp.linux-x86_64-3.10/ariba creating build/temp.linux-x86_64-3.10/ariba/ext x86_64-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/minimap -I/usr/include/python3.10 -c ariba/ext/minimap_ariba.cpp -o build/temp.linux-x86_64-3.10/ariba/ext/minimap_ariba.o ariba/ext/minimap_ariba.cpp: In function ‘bool readMappingOk(const mm_reg1_t*, const mm_idx_t*, const kseq_t*, uint32_t)’: ariba/ext/minimap_ariba.cpp:371:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 371 | if (r->qe - r->qs < std::min((unsigned) 50, (int) 0.5 * ks->seq.l)) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ariba/ext/minimap_ariba.cpp:381:26: warning: comparison of integer expressions of different signedness: ‘const int32_t’ {aka ‘const int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 381 | startOk = (r->qs < endTolerance || refLength - r->re < endTolerance); | ~~~~~~^~~~~~~~~~~~~~ ariba/ext/minimap_ariba.cpp:382:60: warning: comparison of integer expressions of different signedness: ‘const int32_t’ {aka ‘const int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 382 | endOk = (ks->seq.l - r->qe < endTolerance || r->rs < endTolerance); | ~~~~~~^~~~~~~~~~~~~~ ariba/ext/minimap_ariba.cpp:386:26: warning: comparison of integer expressions of different signedness: ‘const int32_t’ {aka ‘const int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 386 | startOk = (r->qs < endTolerance || r->rs < endTolerance); | ~~~~~~^~~~~~~~~~~~~~ ariba/ext/minimap_ariba.cpp:386:50: warning: comparison of integer expressions of different signedness: ‘const int32_t’ {aka ‘const int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 386 | startOk = (r->qs < endTolerance || r->rs < endTolerance); | ~~~~~~^~~~~~~~~~~~~~ x86_64-linux-gnu-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.10/ariba/ext/minimap_ariba.o -o /<>/.pybuild/cpython3_3.10_ariba/build/minimap_ariba.cpython-310-x86_64-linux-gnu.so -lz -lminimap building 'fermilite_ariba' extension x86_64-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.10 -c ariba/ext/fml-asm_ariba.cpp -o build/temp.linux-x86_64-3.10/ariba/ext/fml-asm_ariba.o x86_64-linux-gnu-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.10/ariba/ext/fml-asm_ariba.o -o /<>/.pybuild/cpython3_3.10_ariba/build/fermilite_ariba.cpython-310-x86_64-linux-gnu.so -lz -lfml building 'vcfcall_ariba' extension x86_64-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.10 -c ariba/ext/vcfcall_ariba.cpp -o build/temp.linux-x86_64-3.10/ariba/ext/vcfcall_ariba.o x86_64-linux-gnu-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.10/ariba/ext/vcfcall_ariba.o -o /<>/.pybuild/cpython3_3.10_ariba/build/vcfcall_ariba.cpython-310-x86_64-linux-gnu.so running build_scripts creating build/scripts-3.10 copying and adjusting scripts/ariba -> build/scripts-3.10 changing mode of build/scripts-3.10/ariba from 644 to 755 dh_auto_test -O--buildsystem=pybuild I: pybuild base:237: cd /<>/.pybuild/cpython3_3.10_ariba/build; python3.10 -m pytest ============================= test session starts ============================== platform linux -- Python 3.10.3, pytest-6.2.5, py-1.10.0, pluggy-0.13.0 rootdir: /<>, configfile: pytest.ini collected 356 items ariba/tests/aln_to_metadata_test.py .................... [ 5%] ariba/tests/assembly_compare_test.py ................ [ 10%] ariba/tests/assembly_test.py ......... [ 12%] ariba/tests/assembly_variants_test.py ........... [ 15%] ariba/tests/bam_parse_test.py ...... [ 17%] ariba/tests/card_record_test.py ........ [ 19%] ariba/tests/cdhit_test.py ................ [ 24%] ariba/tests/cluster_test.py ............................. [ 32%] ariba/tests/clusters_test.py ................ [ 36%] ariba/tests/common_test.py .. [ 37%] ariba/tests/external_progs_test.py . [ 37%] ariba/tests/faidx_test.py . [ 37%] ariba/tests/flag_test.py ....... [ 39%] ariba/tests/histogram_test.py .... [ 41%] ariba/tests/link_test.py ......... [ 43%] ariba/tests/mapping_test.py ....... [ 45%] ariba/tests/megares_data_finder_test.py .. [ 46%] ariba/tests/megares_zip_parser_test.py ..... [ 47%] ariba/tests/mic_plotter_test.py ............. [ 51%] ariba/tests/mlst_profile_test.py .... [ 52%] ariba/tests/mlst_reporter_test.py ..... [ 53%] ariba/tests/pubmlst_getter_test.py ... [ 54%] ariba/tests/pubmlst_ref_preparer_test.py .. [ 55%] ariba/tests/read_filter_test.py . [ 55%] ariba/tests/read_store_test.py ....... [ 57%] ariba/tests/ref_genes_getter_test.py . [ 57%] ariba/tests/ref_preparer_test.py ..... [ 58%] ariba/tests/ref_seq_chooser_test.py ....... [ 60%] ariba/tests/reference_data_test.py .............................. [ 69%] ariba/tests/report_filter_test.py ................. [ 74%] ariba/tests/report_flag_expander_test.py . [ 74%] ariba/tests/samtools_variants_test.py ....... [ 76%] ariba/tests/scaffold_graph_test.py ..... [ 77%] ariba/tests/sequence_metadata_test.py ..... [ 79%] ariba/tests/sequence_variant_test.py ....... [ 81%] ariba/tests/summary_cluster_test.py ....................... [ 87%] ariba/tests/summary_cluster_variant_test.py .... [ 88%] ariba/tests/summary_sample_test.py .... [ 89%] ariba/tests/summary_test.py .................... [ 95%] ariba/tests/tb_test.py ....... [ 97%] ariba/tests/test_refdata_query.py ..... [ 98%] ariba/tests/versions_test.py . [ 99%] ariba/tests/vfdb_parser_test.py ... [100%] =============================== warnings summary =============================== ariba/mapping.py:3 /<>/.pybuild/cpython3_3.10_ariba/build/ariba/mapping.py:3: DeprecationWarning: The distutils package is deprecated and slated for removal in Python 3.12. Use setuptools or check PEP 632 for potential alternatives from distutils.version import LooseVersion ariba/external_progs.py:34 /<>/.pybuild/cpython3_3.10_ariba/build/ariba/external_progs.py:34: DeprecationWarning: invalid escape sequence '\.' 'cdhit': ('', re.compile('CD-HIT version ([0-9\.]+) \(')), ariba/external_progs.py:35 /<>/.pybuild/cpython3_3.10_ariba/build/ariba/external_progs.py:35: DeprecationWarning: invalid escape sequence '\.' 'nucmer': ('--version', re.compile('([0-9]+\.[0-9\.]+.*$)')), ariba/external_progs.py:36 /<>/.pybuild/cpython3_3.10_ariba/build/ariba/external_progs.py:36: DeprecationWarning: invalid escape sequence '\s' 'spades': ('--version', re.compile('SPAdes\s+v([0-9\.]+)')) -- Docs: https://docs.pytest.org/en/stable/warnings.html ======================= 356 passed, 4 warnings in 53.22s ======================= create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install --destdir=debian/ariba/ -O--buildsystem=pybuild I: pybuild base:237: /usr/bin/python3 setup.py install --root /<>/debian/ariba running install /usr/lib/python3/dist-packages/setuptools/command/install.py:34: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools. warnings.warn( running build running build_py running build_ext running build_scripts running install_lib creating /<>/debian/ariba/usr creating /<>/debian/ariba/usr/lib creating /<>/debian/ariba/usr/lib/python3.10 creating /<>/debian/ariba/usr/lib/python3.10/dist-packages copying /<>/.pybuild/cpython3_3.10_ariba/build/fermilite_ariba.cpython-310-x86_64-linux-gnu.so -> /<>/debian/ariba/usr/lib/python3.10/dist-packages copying /<>/.pybuild/cpython3_3.10_ariba/build/minimap_ariba.cpython-310-x86_64-linux-gnu.so -> /<>/debian/ariba/usr/lib/python3.10/dist-packages creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/cluster.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/summary_sample.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/histogram.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/read_store.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/test_run_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/test_run_data/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/test_run_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/test_run_data/ref_seqs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/test_run_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/test_run_data/ref_fasta_to_make_reads_from.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/test_run_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/test_run_data/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/test_run_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/test_run_data/metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/test_run_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/bam_parse.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/flag.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/summary.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/vfdb_parser.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/versions.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/ref_preparer.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/summary_sample.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/__init__.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/samtools_variants.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/summary_cluster_variant.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/mlst_reporter.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/sequence_variant.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/cluster.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/summary.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/read_store.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/refdata_query.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/ref_seq_chooser.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/report_flag_expander.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/mic_plotter.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/megares_zip_parser.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/mlst_profile.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/histogram.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/report_filter.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/clusters.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/external_progs.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/vfdb_parser.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/read_filter.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/sequence_metadata.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/summary_cluster.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/link.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/scaffold_graph.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/megares_data_finder.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/cdhit.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/assembly.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/versions.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/flag.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/aln_to_metadata.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/pubmlst_ref_preparer.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/faidx.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/mapping.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/common.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/ref_preparer.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/reference_data.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/tb.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/assembly_compare.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/pubmlst_getter.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/report.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/bam_parse.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/ref_genes_getter.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/assembly_variants.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/card_record.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/aln_to_metadata.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/common.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/pubmlst_getter.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/samtools_variants.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/megares_zip_parser.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/assembly_variants.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/megares_data_finder.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tb_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data/panel.20181221.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tb_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data/panel.20190102.json -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tb_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data/panel.20181221.json -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tb_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data/panel.20190102.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tb_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data/NC_000962.3.gb -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tb_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data/panel.20181115.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tb_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data/panel.20181115.json -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tb_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data/NC_000962.3.fa.gz -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tb_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/summary_cluster.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/scaffold_graph.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/pubmlst_ref_preparer.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/summary_cluster_variant.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/link.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/cdhit.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/assembly.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/clusters.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/read_filter.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/mic_plotter.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/reference_data.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/mapping.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/assembly_compare.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/ref_seq_chooser.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/external_progs.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/faidx.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/report.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/refdata_query.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/sequence_variant.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/mlst_profile.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/card_record.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__init__.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/summary_cluster_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/cdhit_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/cluster_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_test_whole_run.out.csv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_best_match_not_in_cluster.contigs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.het_snp.out.details.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_load_vars_file_bad.1.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_test_fix_contig_orientation.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_test_get_read_depths.gz.tbi -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mapping_test_bowtie2_remove_both_unmapped_reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/bam_parse_test_update_unmapped_mates_from_sam.reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_assembly_fail copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_assembly_fail/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_assembly_fail copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_assembly_fail/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_assembly_fail copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_assembly_fail/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_assembly_fail copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/vfdb_parser_test_run.out.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_init_no_reads_1 copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_reads_1/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_init_no_reads_1 copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_reads_1/genes.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_init_no_reads_1 copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_write_tb_resistance_calls_json.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_store_test_get_reads.expected.reads_subset.1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_filter_test_run.expected.reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_partial_asmbly copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_partial_asmbly/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_partial_asmbly copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_partial_asmbly/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_partial_asmbly copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_partial_asmbly/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_partial_asmbly copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/report_flag_expander.run.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_run_noncoding.out.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_dummy_db.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_bam_to_clusters_reads.db.fa.sma -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/best_seq_chooser_total_alignment_score_reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_no_nucmer_match.clusterrefs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_test_flanking.expected_contigs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_test_cluster_with_cdhit.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_remove_bad_noncoding.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_write_report.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_make_vcf_and_depths_files.reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_multiple_vars.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refcheck_test_check_too_short.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_cluster_w_cdhit_nocluster.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_filter_test_run.in.read_store -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_test_cluster_with_cdhit.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cdhit_test_fake_run.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.new_st.report.out.details.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_load_data_info_file -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/link_test_init.ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_variants_one_var_one_ctg_noncdg.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/megares_zip_parser_load_annotations.csv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/dummy.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.all_present_perfect.report.out.details.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_remove_bad_genes.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/pubmlst_rename_seqs.expected.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_input_check_seq_names.good.csv.1 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cdhit_test_run_get_clusters_from_dict.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_run_noncoding.out.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/bam_parse_test_parse.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_filter_test_run.in.ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_test_flanking.contigs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_test_write_seqs_to_fasta.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_compare_parse_nucmer_coords_file.coords -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_input_check_seq_names.good.fa.2 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_store_test_get_reads.expected.reads_2.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_keep_seqs_from_dict.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_sample_test_load_file.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/bam_parse_test_update_unmapped_mates_from_sam.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_choose_ref_fail.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_sequence_type.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/best_seq_chooser_best_seq_reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_all_fasta_files.in.1 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_variants_only.not_present.metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_load_minimap_files.insertHistogram -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_filter_bad_data.expected.all.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_init_no_refs_fa copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_refs_fa/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_init_no_refs_fa copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_refs_fa/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_init_no_refs_fa copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_minimap_reads_to_all_refs.ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_matching_contig_pieces.expect.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_variants_test_get_variants_variants_only.snps -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/report_filter_test_init_good.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refcheck_test_fix_out.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/report_filter_test_run.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_all_fasta_files.in.2 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/best_seq_chooser_get_best_seq_by_alignment_score_ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.new_st.report.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_write_sequences_to_files.gene.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_sam_pair_to_insert_ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_minimap_reads_to_all_refs.out.pairs -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_store_test_sort_file.in -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_test_init.fofn -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/megares_zip_parse_extract_files_ok.zip -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_load_minimap_files.properPairs -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/link_test_init.reads.make_link.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_presence_absence.metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_make_reads_for_assembly.in1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_make_vcf_and_depths_files.reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/02.cdhit.clusters.pickle -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/02.cdhit.noncoding.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/02.cdhit.clusters.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/02.cdhit.noncoding.varonly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/00.version_info.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/01.filter.check_metadata.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/02.cdhit.gene.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/01.filter.check_metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/01.filter.check_genes.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/02.cdhit.all.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/00.info.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/00.rename_info -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/01.filter.check_noncoding.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/02.cdhit.gene.varonly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/link_test_init.reads.make_link_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_sequence_is_in_fasta_file.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mapping_test_bowtie2_unsorted.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_make_vcf_and_depths_files.expect.vcf -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2 copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2 copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2 copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2 copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_cluster_w_cdhit_clstrs_file.expect.clstrs.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_assemble_with_fermilite_fails.expected.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/best_seq_chooser_get_best_seq_by_alignment_score_reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_assemble_with_fermilite.reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_write_metadata_tsv.expected.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_write_mlst_reports.out.details.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_filter_bad_data.expected.metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/link_test_init.reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_test_assemble_with_spades_reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_store_test_sort_file.out -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_variants_test_get_variants_presence_absence.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_make_vcf_and_depths_files.asmbly.fa.fai -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/megares_zip_parse_extract_files_one_missing.zip -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_sam_pair_to_insert_ref.fa.smi -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_store_test_get_reads.expected.reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_load_minimap_files.cluster2representative -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_write_tb_resistance_calls_json.out.json -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_load_minimap_out_cluster2representative.in -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/report_filter_test_write_report.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_write_gene_fa.db.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/best_seq_chooser_get_best_seq_by_alignment_score_ref.fa.fai -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cdhit_test_run.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_refdata.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_sequence.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.one_gene_missing.out.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/bam_parse_test_update_unmapped_mates_from_sam.reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_rename_sequences.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refcheck_test_fix_out.rename -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_input_check_seq_names.bad.csv.1 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.profile.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_sample_test_column_summary_data.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_write_sequences_to_files.noncoding.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/graph_test_update_from_sam.ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_write_mlst_reports.out.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.one_gene_missing.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_test_get_depths_at_position.ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_cluster_w_cdhit_clstrs_file.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_cluster_w_cdhit_clstrs_file.in.clstrs.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_filter_bad_data.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_test_check_spades_log_file.log.good -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_varonly.not_present.always_report.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio2.exclude.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio1.yes.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/graph_test_update_from_sam.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mapping_test_bowtie2_ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_refdata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_assembly_fail.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refcheck_test_check_duplicate_name.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_minimap_reads_to_all_refs.reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refcheck_test_check_not_gene.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_filter_test_run.expected.reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_store_test_get_reads.expected.reads_1.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/bam_parse_test_parse.reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_count_reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio2.no.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_matching_contig_pieces.coords -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_variants_only copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_variants_only/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_variants_only copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_variants_only/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_variants_only copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_variants_only/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_variants_only copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/link_test_init.reads.make_link.bam.bai -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_delete_codon.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_sam_pair_to_insert_reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_write_mlst_reports.ariba.report.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_sample_test_var_groups.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/graph_test_update_from_sam.reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_genes_getter.fix_virulencefinder_fasta_file.out.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_best_match_not_in_cluster.allrefs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_test_get_variants.vcf -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_minimap_reads_to_all_refs.out.hist -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/bam_parse_test_update_soft_clipped_from_sam.ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene.ref_for_reads.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_non_coding.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio1.yes.no_combinations.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mic_plotter_load_mic_file.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.in.1.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_gather_unfiltered_output_data.in.2.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_load_minimap_files.clusterCounts -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/vfdb_parser_test_run.out.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch.metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mic_plotter_load_summary_file.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.one_gene_missing.out.details.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_write_sequences_to_files.noncoding.varonly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/megares_zip_parser_write_files.expect.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_multiple_vars copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_multiple_vars/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_multiple_vars copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_multiple_vars/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_multiple_vars copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_multiple_vars/for_reads.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_multiple_vars copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_multiple_vars/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_multiple_vars copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_fasta_to_metadata.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.all_present_perfect.report.out.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.in.3.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_load_ref_data_from_dir copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_load_ref_data_from_dir/02.cdhit.clusters.pickle -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_load_ref_data_from_dir copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_load_ref_data_from_dir/01.filter.check_metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_load_ref_data_from_dir copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_load_ref_data_from_dir/02.cdhit.all.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_load_ref_data_from_dir copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_load_ref_data_from_dir/00.info.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_load_ref_data_from_dir copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_load_ref_data_from_dir/00.params.json -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_load_ref_data_from_dir copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cdhit_test_run_get_clusters_from_dict.in.clusters -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_init_no_reads_2 copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_reads_2/genes.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_init_no_reads_2 copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_reads_2/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_init_no_reads_2 copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_matching_contig_pieces.ctg.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/best_seq_chooser_total_alignment_score_ref_seqs.fa.fai -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio2.yes.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_load_minimap_proper_pairs.in -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_run_coding.out.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio2.yes.no_combinations.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cdhit_test_load_user_clusters_file.bad1 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ref_not_in_cluster.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_input_check_seq_names.bad.fa.2 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_assembly_fail.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_assemble_with_fermilite_fails.reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/best_seq_chooser_best_seq_reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_make_cluster_file.out -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_run_coding.out.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mapping_test_bowtie2_reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.expect.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_minimap_reads_to_all_refs.reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mapping_test_bowtie2_ref.fa.fai -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.het_snps.out.details.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_run_fermilite_fail.reads.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.reads_2.fq.gz -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_write_gene_fa.out.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/link_test_init.reads.no_link.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mapping_test_sam_to_fastq.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_input_check_seq_names.bad.csv.2 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_test_assemble_with_spades_reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.all_present_perfect.report.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_run_coding.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_assemble_with_fermilite.expected.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_test_check_spades_log_file.log.bad -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_variants_only.present.metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_store_test_compress_and_index_file.in -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mapping_test_sam_pair_to_insert.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_test_get_read_depths.gz -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_bam_to_clusters_reads.db.fa.fai -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.het_snps.out.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_store_test_get_reads.expected.reads.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/faidx_test_write_fa_subset.out.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/bam_parse_test_update_soft_clipped_from_sam.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cdhit_test_fake_run.non-unique.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_insert_codon copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_insert_codon/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_insert_codon copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_insert_codon/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_insert_codon copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_insert_codon/for_reads.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_insert_codon copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_insert_codon/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_insert_codon copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_init_ok.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_test_assemble_with_spades_fails_reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_write_sequences_to_files.gene.varonly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_test_get_variant_positions_from_vcf.vcf -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_genes_getter.fix_virulencefinder_fasta_file.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio2.no.no_combinations.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_not_in_cluster.clusterrefs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_run_noncoding.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_run_fermilite.expected.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_test_fix_contig_orientation.out.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_filter_bad_data_metadata.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_variants_test_get_variants_presence_absence.snps -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_init_fails.empty.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/tb_report_to_resistance_dict.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_profile_test.init_multiple_extra_columns.profile.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_load_vars_file_good.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_test_get_variants.read_depths.gz.tbi -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_test_scaffold_with_sspace_reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio1.exclude.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refcheck_test_fix_out.removed.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out/02.cdhit.clusters.pickle -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out/02.cdhit.noncoding.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out/00.auto_metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out/02.cdhit.clusters.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out/02.cdhit.noncoding.varonly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out/00.version_info.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out/01.filter.check_metadata.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out/02.cdhit.gene.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out/01.filter.check_metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out/01.filter.check_genes.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out/02.cdhit.all.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out/00.info.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out/01.filter.check_noncoding.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out/02.cdhit.gene.varonly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_sequence.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_test_all_non_wild_type_variants.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_test_rename_sequences.out -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/test_common_cat_files.in.1 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.in.4.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_variants_test_get_variants_variants_only.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_test_write_seqs_to_fasta.expected.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cdhit_test_get_clusters_from_bak_file.in -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_write_gene_fa.db.fa.fai -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_delete_codon.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/report_filter_test_run.expected.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_fasta_to_metadata.noncoding.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cdhit_test_load_user_clusters_file.bad3 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_presence_absence copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_presence_absence/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_presence_absence copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_presence_absence/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_presence_absence copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_presence_absence/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_presence_absence copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/link_test_init.reads.no_link_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_contained_ref_seq.all_refs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_test_fix_contig_orientation.ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refcheck_test_check_spaces_in_name.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_contained_ref_seq.cluster_refs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cdhit_test_load_user_clusters_file.good -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_dummy_db.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/tb_write_prepareref_metadata_file.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio2.exclude.no_combinations.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_best_match_is_in_cluster.allrefs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_delete_codon copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_delete_codon/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_delete_codon copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_delete_codon/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_delete_codon copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_delete_codon/for_reads.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_delete_codon copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_delete_codon/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_delete_codon copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_best_match_is_in_cluster.clusterrefs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_no_nucmer_match.contigs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_filter_bad_data.expected.check_metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_load_vars_file_bad.2.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_make_reads_for_assembly.out2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio1.no.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_assemble_with_fermilite_fails.reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_non_coding.metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_best_match_not_in_cluster.clusterrefs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_fasta_file.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_variants_only.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_variants_one_var_one_ctg_cdg.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_best_match_is_in_cluster.contigs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_filter_test_run.in.reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_test_load_input_files.1.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_test_newick_from_dist_matrix.distances -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_test_whole_run.in.2.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/best_seq_chooser_total_alignment_score_reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/megares_zip_parser_write_files copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/megares_zip_parser_write_files/megares_database_v1.01.fasta -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/megares_zip_parser_write_files copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/megares_zip_parser_write_files/megares_annotations_v1.01.csv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/megares_zip_parser_write_files copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/megares_zip_parser_write_files/megares_to_external_header_mappings_v1.01.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/megares_zip_parser_write_files creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_init_ok.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/link_test_init.reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/pubmlst_rename_seqs.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_cat_genes_match_ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cdhit_test_load_user_clusters_file.bad2 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.in.1.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_not_in_cluster.contigs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/bam_parse_test_sam_to_soft_clipped.ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mapping_test_bowtie2_reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_test_all_non_wild_type_variants.ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_count_reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_insert_codon.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/link_test_init.reads.no_link.bam.bai -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_filter_test_run_cdhit_est_2d.expected.clstr -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_test_write_seqs_to_fasta.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_test_scaffold_with_sspace_contigs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/graph_test_update_from_sam.ref.fa.fai -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_filter_bad_data_non_coding.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_store_test_get_reads.expected.reads.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_partial_asmbly.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_filter_bad_data_variants_only.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/report_filter_test_load_report_good.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_load_minimap_out_cluster_counts.in -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_test_parse_assembly_bam.assembly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.het_snps.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_cluster_w_cdhit_clstrs_file.in.meta.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_make_vcf_and_depths_files.expect.depths.gz -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_test_scaffold_with_sspace_reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.clusters.pickle -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.noncoding.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.clusters.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.noncoding.varonly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out/00.version_info.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out/01.filter.check_metadata.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.gene.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out/01.filter.check_metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out/01.filter.check_genes.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.all.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out/00.info.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out/01.filter.check_noncoding.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.gene.varonly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_run_noncoding.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/best_seq_chooser_best_seq_ref.fa.fai -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_store_test_clean.in -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ref_not_in_cluster.all_refs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch.ref_for_reads.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_partial_asmbly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mapping_test_bowtie2_remove_both_unmapped_reads.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_test_parse_assembly_bam.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio1.no.no_combinations.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_cluster_w_cdhit_nocluster.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_test_load_input_files.2.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene.ref_for_reads.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/test_common_cat_files.out -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_run_coding.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_filter_test_run_cdhit_est_2d.ref.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_write_metadata_tsv.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.het_snp.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/best_seq_chooser_best_seq_ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/link_test_init.ref.fa.fai -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_test_cluster_with_cdhit.expected.clusters.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_insert_codon.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_filter_cdhit_clstr_to_reads.in.clstr -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_init_ok.rename.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_make_vcf_and_depths_files.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_store_test_get_reads.in -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_init_fails.empty.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/megares_zip_parser_write_files.expect.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_to_matrix.1.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_filter_test_run.in.reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_run_fermilite.expected.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_input_check_seq_names.bad.fa.1 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_sam_pair_to_insert_reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_metadata_tsv.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cdhit_test_run_get_clusters_from_dict_rename.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_assemble_with_fermilite.expected.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_test_assemble_with_spades_fails_reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/bam_parse_test_sam_to_soft_clipped.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_to_matrix.2.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_sample_test_non_synon_variants.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_variants_test_get_mummer_variants.snp.snps -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/bam_parse_test_parse.reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_make_vcf_and_depths_files.asmbly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.new_st.report.out.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mapping_test_bowtie2_sorted.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_rename_file.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_test_write_cluster_allocation_file.expected -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/test_common_cat_files.in.2 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/vfdb_parser_test_run.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio1.exclude.no_combinations.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_run_fermilite.reads.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_test_remove_bad_noncoding.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_choose_ref_fail.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_minimap_reads_to_all_refs.clstrs.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_variants_one_var_one_ctg_noncdg.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_presence_absence.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_write_catted_assembled_genes_fasta.expected.out.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/bam_parse_test_update_unmapped_mates_from_sam.ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_not_in_cluster.allrefs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_remove_bad_noncoding.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.reads_1.fq.gz -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/faidx_test_write_fa_subset.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.in copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.in/profile.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.in copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.in/gene1.tfa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.in copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.in/gene2.tfa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.in copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_matching_contig_pieces.ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/megares_zip_parser_load_header_mappings.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_store_test_get_reads.expected.reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/bam_parse_test_parse.ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_make_reads_for_assembly.out1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_test_get_depths_at_position.ref.fa.fai -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_run_with_tb.ref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref/02.cdhit.clusters.pickle -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_run_with_tb.ref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref/02.cdhit.noncoding.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_run_with_tb.ref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref/02.cdhit.clusters.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_run_with_tb.ref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref/02.cdhit.noncoding.varonly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_run_with_tb.ref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref/00.version_info.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_run_with_tb.ref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref/01.filter.check_metadata.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_run_with_tb.ref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref/02.cdhit.gene.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_run_with_tb.ref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref/01.filter.check_metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_run_with_tb.ref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref/01.filter.check_genes.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_run_with_tb.ref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref/02.cdhit.all.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_run_with_tb.ref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref/00.info.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_run_with_tb.ref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref/00.params.json -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_run_with_tb.ref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref/02.cdhit.gene.varonly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_run_with_tb.ref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_make_vcf_and_depths_files.for_reads.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_multiple_vars.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_keep_seqs_from_dict.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_rename_sequences_metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/test_common_cat_files.in.3 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mapping_test_bowtie2_remove_both_unmapped_reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_filter_bad_data.expected.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_profile_test.profile.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_test_remove_bad_genes.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_store_test_get_reads.expected.reads_subset.2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/faidx_test_write_fa_subset.in.fa.fai -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_dummy_reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_test_write_distance_matrix.distances -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/graph_test_write_all_links_to_file.out -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_minimap_reads_to_all_refs.out.clstr2rep -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref/02.cdhit.clusters.pickle -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref/02.cdhit.noncoding.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref/02.cdhit.clusters.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref/02.cdhit.noncoding.varonly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref/00.version_info.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref/01.filter.check_metadata.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref/02.cdhit.gene.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref/01.filter.check_metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref/01.filter.check_genes.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref/02.cdhit.all.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref/00.info.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref/00.rename_info -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref/01.filter.check_noncoding.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref/02.cdhit.gene.varonly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_variants_test_get_mummer_variants.none.snps -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/report_flag_expander.run.out.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/best_seq_chooser_total_alignment_score_ref_seqs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_run_fermilite_fails.expected.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_assemble_with_fermilite.reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/graph_test_update_from_sam.reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_filter_test_run_cdhit_est_2d.reads.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_run_noncoding.out.cluster -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_no_nucmer_match.allrefs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_test_variants_in_coords.vcf -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_test_flanking.cluster_refs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_test_total_depth_per_contig -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_test_get_variants.read_depths.gz -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_init_fails.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/bam_parse_test_update_soft_clipped_from_sam.reads.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/best_seq_chooser_get_best_seq_by_alignment_score_reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_sample_test_column_names_tuples_and_het_snps.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_write_sequences_to_files.all.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/report_filter_test_init_bad.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_write_catted_assemblies_fasta.expected.out.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/report_filter_test_load_report_bad.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mapping_test_get_total_alignment_score.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refcheck_test_check_ok.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.in.2.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_sequence_type.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_input_check_seq_names.good.fa.1 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_make_reads_for_assembly.in2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_make_vcf_and_depths_files.expect.cov -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refcheck_test_check_too_long.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_bam_to_clusters_reads.db.fa.smi -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.het_snp.out.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refcheck_test_fix_out.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_dummy_reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_variants_one_var_one_ctg_cdg.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/link_test_init.reads.make_link_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_test_flanking.all_refs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refcheck_test_fix_in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_gather_unfiltered_output_data.in.1.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_init_ok.params.json -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_test_get_depths_at_position.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_run_coding.out.cluster -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_all_metadata_tsvs.1.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/pubmlst_getter.dbases.xml -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_remove_bad_genes.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_input_check_seq_names.good.csv.2 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_non_coding copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_non_coding/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_non_coding copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_non_coding/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_non_coding copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_non_coding/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_non_coding copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_minimap_reads_to_all_refs.out.clstr_count -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_write_mlst_reports.mlst_profile.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ref_not_in_cluster.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.in.4.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_filter_bad_data_presence_absence.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_load_minimap_insert_histogram.in -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_filter_bad_data.expected.check_metadata.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_contained_ref_seq.contigs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_all_metadata_tsvs.2.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.in.2.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_load_aln_file.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_sam_pair_to_insert_ref.fa.sma -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ref_not_in_cluster copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ref_not_in_cluster/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ref_not_in_cluster copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ref_not_in_cluster/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ref_not_in_cluster copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ref_not_in_cluster/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ref_not_in_cluster copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_profile_test.init.profile.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/tb_genbank_to_gene_coords.gb -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_cluster_w_cdhit_nocluster.expect.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/bam_parse_test_sam_to_soft_clipped.reads.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_test_load_fofn -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_fasta_to_metadata.coding.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_choose_ref_fail copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_choose_ref_fail/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_choose_ref_fail copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_choose_ref_fail/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_choose_ref_fail copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_choose_ref_fail/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_choose_ref_fail copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/link_test_init.reads.no_link_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_test_whole_run.in.1.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/test_refdata_query.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/sequence_metadata_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/samtools_variants_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/summary_cluster_variant_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/__init__.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/megares_data_finder_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/megares_zip_parser_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/assembly_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/scaffold_graph_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/aln_to_metadata_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/read_filter_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/versions_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/assembly_variants_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/mlst_reporter_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/mic_plotter_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/ref_seq_chooser_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/flag_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/pubmlst_getter_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/sequence_variant_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/faidx_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/samtools_variants_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/link_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/histogram_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/ref_genes_getter_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/vfdb_parser_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/cdhit_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/report_filter_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/read_store_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/mlst_profile_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/sequence_metadata_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/bam_parse_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/tb_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/mapping_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/summary_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/assembly_compare_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/card_record_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/cluster_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/external_progs_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/test_refdata_query.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/summary_sample_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/ref_preparer_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/pubmlst_ref_preparer_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/summary_cluster_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/report_flag_expander_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/ncbi_getter_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/common_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/clusters_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/reference_data_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/pubmlst_ref_preparer_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/report_filter_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/megares_data_finder_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/faidx_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/sequence_variant_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/histogram_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/vfdb_parser_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/megares_zip_parser_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/mapping_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/common_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/scaffold_graph_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/pubmlst_getter_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/summary_sample_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/mic_plotter_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/read_store_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/ncbi_getter_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/summary_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/assembly_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/reference_data_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/flag_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/ref_seq_chooser_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/assembly_compare_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/report_flag_expander_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__init__.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/mlst_profile_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/external_progs_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/clusters_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/card_record_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/summary_cluster_variant_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/aln_to_metadata_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/bam_parse_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/tb_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/mlst_reporter_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/read_filter_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/ref_preparer_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/versions_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/assembly_variants_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/ref_genes_getter_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/link_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/report_filter.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/report_flag_expander.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/sequence_metadata.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/mlst_reporter.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/ref_genes_getter.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/flag.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/micplot.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/summary.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/__init__.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/summary.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/reportfilter.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/prepareref.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/pubmlstspecies.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/version.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/refquery.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/prepareref_tb.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/flag.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/micplot.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/getref.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/aln2meta.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/expandflag.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/pubmlstget.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/run.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/test.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/prepareref.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/reportfilter.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/pubmlstget.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/expandflag.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/refquery.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/prepareref_tb.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/version.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__init__.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/aln2meta.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/pubmlstspecies.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/getref.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/run.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/vcfcall_ariba.cpython-310-x86_64-linux-gnu.so -> /<>/debian/ariba/usr/lib/python3.10/dist-packages byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/cluster.py to cluster.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/summary_sample.py to summary_sample.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/histogram.py to histogram.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/read_store.py to read_store.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/bam_parse.py to bam_parse.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/flag.py to flag.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/summary.py to summary.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/vfdb_parser.py to vfdb_parser.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/versions.py to versions.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/ref_preparer.py to ref_preparer.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/aln_to_metadata.py to aln_to_metadata.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/common.py to common.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/pubmlst_getter.py to pubmlst_getter.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/samtools_variants.py to samtools_variants.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/megares_zip_parser.py to megares_zip_parser.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/assembly_variants.py to assembly_variants.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/megares_data_finder.py to megares_data_finder.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tb.py to tb.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/summary_cluster.py to summary_cluster.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/scaffold_graph.py to scaffold_graph.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/pubmlst_ref_preparer.py to pubmlst_ref_preparer.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/summary_cluster_variant.py to summary_cluster_variant.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/link.py to link.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/cdhit.py to cdhit.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/assembly.py to assembly.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/clusters.py to clusters.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/read_filter.py to read_filter.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/mic_plotter.py to mic_plotter.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/reference_data.py to reference_data.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/mapping.py to mapping.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/assembly_compare.py to assembly_compare.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/ref_seq_chooser.py to ref_seq_chooser.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/external_progs.py to external_progs.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/faidx.py to faidx.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/report.py to report.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/refdata_query.py to refdata_query.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/sequence_variant.py to sequence_variant.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/mlst_profile.py to mlst_profile.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/card_record.py to card_record.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__init__.py to __init__.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/summary_cluster_test.py to summary_cluster_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/cdhit_test.py to cdhit_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/cluster_test.py to cluster_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/test_refdata_query.py to test_refdata_query.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/sequence_metadata_test.py to sequence_metadata_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/samtools_variants_test.py to samtools_variants_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/pubmlst_ref_preparer_test.py to pubmlst_ref_preparer_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/report_filter_test.py to report_filter_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/megares_data_finder_test.py to megares_data_finder_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/faidx_test.py to faidx_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/sequence_variant_test.py to sequence_variant_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/histogram_test.py to histogram_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/vfdb_parser_test.py to vfdb_parser_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/megares_zip_parser_test.py to megares_zip_parser_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/mapping_test.py to mapping_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/common_test.py to common_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/scaffold_graph_test.py to scaffold_graph_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/pubmlst_getter_test.py to pubmlst_getter_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/summary_sample_test.py to summary_sample_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/mic_plotter_test.py to mic_plotter_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/read_store_test.py to read_store_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/ncbi_getter_test.py to ncbi_getter_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/summary_test.py to summary_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/assembly_test.py to assembly_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/reference_data_test.py to reference_data_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/flag_test.py to flag_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/ref_seq_chooser_test.py to ref_seq_chooser_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/assembly_compare_test.py to assembly_compare_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/report_flag_expander_test.py to report_flag_expander_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__init__.py to __init__.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/mlst_profile_test.py to mlst_profile_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/external_progs_test.py to external_progs_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/clusters_test.py to clusters_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/card_record_test.py to card_record_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/summary_cluster_variant_test.py to summary_cluster_variant_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/aln_to_metadata_test.py to aln_to_metadata_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/bam_parse_test.py to bam_parse_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/tb_test.py to tb_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/mlst_reporter_test.py to mlst_reporter_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/read_filter_test.py to read_filter_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/ref_preparer_test.py to ref_preparer_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/versions_test.py to versions_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/assembly_variants_test.py to assembly_variants_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/ref_genes_getter_test.py to ref_genes_getter_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/link_test.py to link_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/report_filter.py to report_filter.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/report_flag_expander.py to report_flag_expander.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/sequence_metadata.py to sequence_metadata.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/mlst_reporter.py to mlst_reporter.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/ref_genes_getter.py to ref_genes_getter.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/flag.py to flag.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/micplot.py to micplot.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/summary.py to summary.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/prepareref.py to prepareref.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/reportfilter.py to reportfilter.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/pubmlstget.py to pubmlstget.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/expandflag.py to expandflag.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/test.py to test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/refquery.py to refquery.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/prepareref_tb.py to prepareref_tb.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/version.py to version.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__init__.py to __init__.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/aln2meta.py to aln2meta.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/pubmlstspecies.py to pubmlstspecies.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/getref.py to getref.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/run.py to run.cpython-310.pyc running install_egg_info running egg_info creating ariba.egg-info writing ariba.egg-info/PKG-INFO writing dependency_links to ariba.egg-info/dependency_links.txt writing requirements to ariba.egg-info/requires.txt writing top-level names to ariba.egg-info/top_level.txt writing manifest file 'ariba.egg-info/SOURCES.txt' reading manifest file 'ariba.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching '*.h' under directory 'third_party' adding license file 'LICENSE' adding license file 'AUTHORS' writing manifest file 'ariba.egg-info/SOURCES.txt' Copying ariba.egg-info to /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba-2.14.6.egg-info Skipping SOURCES.txt running install_scripts creating /<>/debian/ariba/usr/bin copying build/scripts-3.10/ariba -> /<>/debian/ariba/usr/bin changing mode of /<>/debian/ariba/usr/bin/ariba to 755 dh_installdocs -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild debian/rules override_dh_installman make[1]: Entering directory '/<>' mkdir -p /<>/debian/man asciidoctor -a docdate='' -b manpage -o /<>/debian/man/ariba.1 /<>/debian/ariba.1.adoc dh_installman -- make[1]: Leaving directory '/<>' dh_python3 -O--buildsystem=pybuild dh_installsystemduser -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild dh_compress -O--buildsystem=pybuild dh_fixperms -O--buildsystem=pybuild dh_missing -O--buildsystem=pybuild dh_dwz -a -O--buildsystem=pybuild dh_strip -a -O--buildsystem=pybuild debugedit: debian/ariba/usr/lib/python3/dist-packages/fermilite_ariba.cpython-310-x86_64-linux-gnu.so: Unknown DWARF DW_FORM_0x1f20 3e708080210671ac169127a7c7bd02d734d9be7c debugedit: debian/ariba/usr/lib/python3/dist-packages/minimap_ariba.cpython-310-x86_64-linux-gnu.so: Unknown DWARF DW_FORM_0x1f20 647ef04c913816132aac685fe2db483f132c5a40 debugedit: debian/ariba/usr/lib/python3/dist-packages/vcfcall_ariba.cpython-310-x86_64-linux-gnu.so: Unknown DWARF DW_FORM_0x1f20 be04a491757dc4ae384f9f0aa4ede434e52b47aa dh_makeshlibs -a -O--buildsystem=pybuild dh_shlibdeps -a -O--buildsystem=pybuild dh_installdeb -O--buildsystem=pybuild dh_gencontrol -O--buildsystem=pybuild dpkg-gencontrol: warning: package ariba: substitution variable ${python3:Versions} unused, but is defined dpkg-gencontrol: warning: package ariba: substitution variable ${python3:Versions} unused, but is defined dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild INFO: pkgstriptranslations version 149 INFO: pkgstriptranslations version 149 pkgstriptranslations: processing ariba (in debian/ariba); do_strip: , oemstrip: pkgstriptranslations: processing ariba-dbgsym (in debian/.debhelper/ariba/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/ariba/DEBIAN/control, package ariba, directory debian/ariba pkgstripfiles: processing control file: debian/.debhelper/ariba/dbgsym-root/DEBIAN/control, package ariba-dbgsym, directory debian/.debhelper/ariba/dbgsym-root dpkg-deb: building package 'ariba-dbgsym' in 'debian/.debhelper/scratch-space/build-ariba/ariba-dbgsym_2.14.6+ds-3build1_amd64.deb'. pkgstripfiles: Truncating usr/share/doc/ariba/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 4 cpus) for package ariba ... pkgstripfiles: No PNG files. dpkg-deb: building package 'ariba' in '../ariba_2.14.6+ds-3build1_amd64.deb'. Renaming ariba-dbgsym_2.14.6+ds-3build1_amd64.deb to ariba-dbgsym_2.14.6+ds-3build1_amd64.ddeb dpkg-genbuildinfo --build=binary -O../ariba_2.14.6+ds-3build1_amd64.buildinfo dpkg-genchanges --build=binary -mLaunchpad Build Daemon -O../ariba_2.14.6+ds-3build1_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 2022-03-17T08:36:05Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ ariba_2.14.6+ds-3build1_amd64.changes: -------------------------------------- Format: 1.8 Date: Wed, 16 Mar 2022 19:20:24 +0000 Source: ariba Binary: ariba Built-For-Profiles: noudeb Architecture: amd64 Version: 2.14.6+ds-3build1 Distribution: jammy-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Graham Inggs Description: ariba - Antibiotic Resistance Identification By Assembly Changes: ariba (2.14.6+ds-3build1) jammy; urgency=medium . * No-change rebuild with Python 3.10 only Checksums-Sha1: 153b82cf6adae1fafc165eedc474760cd347ae44 378192 ariba-dbgsym_2.14.6+ds-3build1_amd64.ddeb 786b36c7247bbd5109a2c633e984ec304cc2f59e 11786 ariba_2.14.6+ds-3build1_amd64.buildinfo b30843188867b3c17417fedde1c99dbaf4440542 2044012 ariba_2.14.6+ds-3build1_amd64.deb Checksums-Sha256: 87f79048b55835fde148ec8c2e5f44f5428f9ece4208265214cde47612cbc8cf 378192 ariba-dbgsym_2.14.6+ds-3build1_amd64.ddeb befbf3b492b7faf66831d8d718278fe91a042019ed95556726cca9ca63ff69f2 11786 ariba_2.14.6+ds-3build1_amd64.buildinfo 7e3b42ea470cd4aaeb3fe9a048b6e050c0a92bce790d8f01cd343f0b304e91b6 2044012 ariba_2.14.6+ds-3build1_amd64.deb Files: 69489741e1563ebf2230fce8fad25abd 378192 debug optional ariba-dbgsym_2.14.6+ds-3build1_amd64.ddeb 4a55ca1801684a256910de79bb2b3a6a 11786 science optional ariba_2.14.6+ds-3build1_amd64.buildinfo 84164e8c862c894ca9dc8fe41e9e3636 2044012 science optional ariba_2.14.6+ds-3build1_amd64.deb /<>/ariba_2.14.6+ds-3build1_amd64.changes.new could not be renamed to /<>/ariba_2.14.6+ds-3build1_amd64.changes: Illegal seek Distribution field may be wrong!!! +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: ariba Binary: ariba ariba-dbgsym Architecture: amd64 Version: 2.14.6+ds-3build1 Checksums-Md5: 69489741e1563ebf2230fce8fad25abd 378192 ariba-dbgsym_2.14.6+ds-3build1_amd64.ddeb 84164e8c862c894ca9dc8fe41e9e3636 2044012 ariba_2.14.6+ds-3build1_amd64.deb Checksums-Sha1: 153b82cf6adae1fafc165eedc474760cd347ae44 378192 ariba-dbgsym_2.14.6+ds-3build1_amd64.ddeb b30843188867b3c17417fedde1c99dbaf4440542 2044012 ariba_2.14.6+ds-3build1_amd64.deb Checksums-Sha256: 87f79048b55835fde148ec8c2e5f44f5428f9ece4208265214cde47612cbc8cf 378192 ariba-dbgsym_2.14.6+ds-3build1_amd64.ddeb 7e3b42ea470cd4aaeb3fe9a048b6e050c0a92bce790d8f01cd343f0b304e91b6 2044012 ariba_2.14.6+ds-3build1_amd64.deb Build-Origin: Ubuntu Build-Architecture: amd64 Build-Date: Thu, 17 Mar 2022 08:36:05 +0000 Build-Path: /<> Build-Tainted-By: merged-usr-via-aliased-dirs usr-local-has-programs Installed-Build-Depends: asciidoctor (= 2.0.16-2), autoconf (= 2.71-2), automake (= 1:1.16.5-1.1ubuntu4), autopoint (= 0.21-4ubuntu3), autotools-dev (= 20220109.1), bamtools (= 2.5.1+dfsg-10build1), base-files (= 12ubuntu2), base-passwd (= 3.5.52), bash (= 5.1-6ubuntu1), binutils (= 2.38-3ubuntu1), binutils-common (= 2.38-3ubuntu1), binutils-x86-64-linux-gnu (= 2.38-3ubuntu1), blt (= 2.5.3+dfsg-4.1build1), bowtie2 (= 2.4.5-1), bsdextrautils (= 2.37.2-4ubuntu3), bsdutils (= 1:2.37.2-4ubuntu3), build-essential (= 12.9ubuntu2), bwa (= 0.7.17-6), bzip2 (= 1.0.8-5), ca-certificates (= 20211016), cd-hit (= 4.8.1-4), coreutils (= 8.32-4.1ubuntu1), cpp (= 4:11.2.0-1ubuntu1), cpp-11 (= 11.2.0-18ubuntu1), dash (= 0.5.11+git20210903+057cd650a4ed-3), debconf (= 1.5.79ubuntu1), debhelper (= 13.6ubuntu1), debianutils (= 5.5-1ubuntu1), debugedit (= 1:5.0-4), dh-autoreconf (= 20), dh-python (= 5.20220215), dh-strip-nondeterminism (= 1.13.0-1), diffutils (= 1:3.8-0ubuntu1), dpkg (= 1.21.1ubuntu1), dpkg-dev (= 1.21.1ubuntu1), dwz (= 0.14-1build1), fastaq (= 3.17.0-4), file (= 1:5.41-2), findutils (= 4.8.0-1ubuntu2), fontconfig-config (= 2.13.1-4.2ubuntu4), fonts-dejavu-core (= 2.37-2build1), fonts-lyx (= 2.3.6-1), fonts-urw-base35 (= 20200910-1), g++ (= 4:11.2.0-1ubuntu1), g++-11 (= 11.2.0-18ubuntu1), gawk (= 1:5.1.0-1build2), gcc (= 4:11.2.0-1ubuntu1), gcc-11 (= 11.2.0-18ubuntu1), gcc-11-base (= 11.2.0-18ubuntu1), gcc-12-base (= 12-20220313-1ubuntu1), gettext (= 0.21-4ubuntu3), gettext-base (= 0.21-4ubuntu3), grep (= 3.7-1), groff-base (= 1.22.4-8), gzip (= 1.10-4ubuntu2), help2man (= 1.49.1), hostname (= 3.23ubuntu1), init-system-helpers (= 1.62), intltool-debian (= 0.35.0+20060710.5), libacl1 (= 2.3.1-1), libarchive-zip-perl (= 1.68-1), libasan6 (= 11.2.0-18ubuntu1), libatomic1 (= 12-20220313-1ubuntu1), libattr1 (= 1:2.5.1-1), libaudit-common (= 1:3.0.7-1), libaudit1 (= 1:3.0.7-1), libbamtools2.5.1 (= 2.5.1+dfsg-10build1), libbinutils (= 2.38-3ubuntu1), libblas3 (= 3.10.0-2ubuntu1), libblkid1 (= 2.37.2-4ubuntu3), libbrotli1 (= 1.0.9-2build4), libbsd0 (= 0.11.5-1), libbz2-1.0 (= 1.0.8-5), libc-bin (= 2.35-0ubuntu3), libc-dev-bin (= 2.35-0ubuntu3), libc6 (= 2.35-0ubuntu3), libc6-dev (= 2.35-0ubuntu3), libcap-ng0 (= 0.7.9-2.2build3), libcap2 (= 1:2.44-1build2), libcapnp-0.8.0 (= 0.8.0-2ubuntu2), libcc1-0 (= 12-20220313-1ubuntu1), libcom-err2 (= 1.46.5-2ubuntu1), libcrypt-dev (= 1:4.4.27-1), libcrypt1 (= 1:4.4.27-1), libctf-nobfd0 (= 2.38-3ubuntu1), libctf0 (= 2.38-3ubuntu1), libcurl3-gnutls (= 7.81.0-1), libdb5.3 (= 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1.19.2-2), libharfbuzz0b (= 2.7.4-1ubuntu3), libhat-trie0 (= 0.1.2-2), libhogweed6 (= 3.7.3-1build1), libhts3 (= 1.13+ds-2build1), libhtscodecs2 (= 1.1.1-3), libicu70 (= 70.1-2), libidn2-0 (= 2.3.2-2), libimagequant0 (= 2.17.0-1), libisl23 (= 0.24-2), libitm1 (= 12-20220313-1ubuntu1), libjbig0 (= 2.1-3.1build2), libjpeg-turbo8 (= 2.1.2-0ubuntu1), libjpeg8 (= 8c-2ubuntu8), libjs-jquery (= 3.6.0+dfsg+~3.5.13-1), libjs-jquery-ui (= 1.13.1+dfsg-1), libjs-sphinxdoc (= 4.3.2-1), libjs-underscore (= 1.13.2~dfsg-2), libjsoncpp25 (= 1.9.5-3), libk5crypto3 (= 1.19.2-2), libkeyutils1 (= 1.6.1-2ubuntu3), libkrb5-3 (= 1.19.2-2), libkrb5support0 (= 1.19.2-2), liblapack3 (= 3.10.0-2ubuntu1), liblbfgsb0 (= 3.0+dfsg.3-10), liblcms2-2 (= 2.12~rc1-2build1), libldap-2.5-0 (= 2.5.11+dfsg-1~exp1ubuntu3), liblocale-gettext-perl (= 1.07-4build3), liblsan0 (= 12-20220313-1ubuntu1), liblz4-1 (= 1.9.3-2build1), liblzma5 (= 5.2.5-2build1), libmagic-mgc (= 1:5.41-2), libmagic1 (= 1:5.41-2), libmd0 (= 1.0.4-1), 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libpython3.10-stdlib (= 3.10.3-1), libpython3.9-minimal (= 3.9.10-2), libpython3.9-stdlib (= 3.9.10-2), libqhull-r8.0 (= 2020.2-4), libquadmath0 (= 12-20220313-1ubuntu1), libraqm0 (= 0.7.0-4ubuntu1), libreadline8 (= 8.1.2-1), librtmp1 (= 2.4+20151223.gitfa8646d.1-2build3), libruby3.0 (= 3.0.2-7ubuntu1), libsasl2-2 (= 2.1.27+dfsg2-3ubuntu1), libsasl2-modules-db (= 2.1.27+dfsg2-3ubuntu1), libseccomp2 (= 2.5.3-2ubuntu1), libselinux1 (= 3.3-1build1), libsigsegv2 (= 2.13-1ubuntu2), libsmartcols1 (= 2.37.2-4ubuntu3), libsqlite3-0 (= 3.37.2-2), libssh-4 (= 0.9.6-2), libssl3 (= 3.0.1-0ubuntu1), libssw0 (= 1.1-13), libstdc++-11-dev (= 11.2.0-18ubuntu1), libstdc++6 (= 12-20220313-1ubuntu1), libsub-override-perl (= 0.09-2), libsystemd0 (= 249.11-0ubuntu1), libtasn1-6 (= 4.18.0-4), libtcl8.6 (= 8.6.12+dfsg-1), libtiff5 (= 4.3.0-6), libtinfo6 (= 6.3-2), libtirpc-common (= 1.3.2-2), libtirpc-dev (= 1.3.2-2), libtirpc3 (= 1.3.2-2), libtk8.6 (= 8.6.12-1), libtool (= 2.4.6-15build1), libtsan0 (= 11.2.0-18ubuntu1), libubsan1 (= 12-20220313-1ubuntu1), libuchardet0 (= 0.0.7-1build1), libudev1 (= 249.11-0ubuntu1), libunistring2 (= 1.0-1), libuuid1 (= 2.37.2-4ubuntu3), libwebp7 (= 1.2.2-2), libwebpdemux2 (= 1.2.2-2), libwebpmux3 (= 1.2.2-2), libx11-6 (= 2:1.7.2-2), libx11-data (= 2:1.7.2-2), libxau6 (= 1:1.0.9-1build4), libxcb1 (= 1.14-3ubuntu2), libxdmcp6 (= 1:1.1.3-0ubuntu4), libxext6 (= 2:1.3.4-1), libxft2 (= 2.3.3-0ubuntu4), libxml2 (= 2.9.13+dfsg-1), libxrender1 (= 1:0.9.10-1build3), libxslt1.1 (= 1.1.34-4build1), libxss1 (= 1:1.2.3-1build1), libyaml-0-2 (= 0.2.2-1build1), libzstd1 (= 1.4.8+dfsg-3), linux-libc-dev (= 5.15.0-23.23), login (= 1:4.8.1-2ubuntu2), lsb-base (= 11.1.0ubuntu3), lto-disabled-list (= 23), m4 (= 1.4.18-5ubuntu1), mailcap (= 3.70+nmu1ubuntu1), make (= 4.3-4.1build1), man-db (= 2.10.1-1), mash (= 2.3+dfsg-1build2), mawk (= 1.3.4.20200120-3), media-types (= 6.0.0), mime-support (= 3.66), mummer (= 3.23+dfsg-7), ncurses-base (= 6.3-2), ncurses-bin (= 6.3-2), openssl (= 3.0.1-0ubuntu1), patch (= 2.7.6-7build1), perl (= 5.34.0-3ubuntu1), perl-base (= 5.34.0-3ubuntu1), perl-modules-5.34 (= 5.34.0-3ubuntu1), po-debconf (= 1.0.21+nmu1), procps (= 2:3.3.17-6ubuntu2), python-matplotlib-data (= 3.5.1-2), python3 (= 3.10.1-0ubuntu2), python3-all (= 3.10.1-0ubuntu2), python3-all-dev (= 3.10.1-0ubuntu2), python3-appdirs (= 1.4.4-2), python3-attr (= 21.2.0-1), python3-biopython (= 1.79+dfsg-2), python3-brotli (= 1.0.9-2build4), python3-bs4 (= 4.10.0-2), python3-cycler (= 0.11.0-1), python3-dateutil (= 2.8.1-6), python3-decorator (= 4.4.2-0ubuntu1), python3-dendropy (= 4.5.2-1), python3-dev (= 3.10.1-0ubuntu2), python3-distutils (= 3.10.3-0ubuntu2), python3-fonttools (= 4.29.1-2build1), python3-fs (= 2.4.12-1), python3-importlib-metadata (= 4.6.4-1), python3-iniconfig (= 1.1.1-2), python3-joblib (= 0.17.0-4ubuntu1), python3-kiwisolver (= 1.3.2-1), python3-lib2to3 (= 3.10.3-0ubuntu2), python3-lxml (= 4.8.0-1), python3-lz4 (= 3.1.3+dfsg-1build2), python3-matplotlib (= 3.5.1-2), python3-minimal (= 3.10.1-0ubuntu2), python3-more-itertools (= 8.10.0-2), python3-mpmath (= 1.2.1-2), python3-numpy (= 1:1.21.5-1), python3-packaging (= 21.3-1), python3-pil (= 9.0.1-1), python3-pil.imagetk (= 9.0.1-1), python3-pkg-resources (= 59.6.0-1.2), python3-pluggy (= 0.13.0-7.1), python3-py (= 1.10.0-1), python3-pymummer (= 0.11.0-2), python3-pyparsing (= 2.4.7-1), python3-pysam (= 0.17.0+ds-2build1), python3-pytest (= 6.2.5-1ubuntu2), python3-renderpm (= 3.6.8-1), python3-reportlab (= 3.6.8-1), python3-reportlab-accel (= 3.6.8-1), python3-scipy (= 1.7.1-1ubuntu1), python3-setuptools (= 59.6.0-1.2), python3-six (= 1.16.0-3), python3-soupsieve (= 2.3.1-1), python3-sympy (= 1.9-1), python3-tk (= 3.10.3-0ubuntu2), python3-toml (= 0.10.2-1), python3-tz (= 2021.3-1), python3-ufolib2 (= 0.13.1+dfsg1-1), python3-unicodedata2 (= 14.0.0+ds-8), python3-yaml (= 5.4.1-1), python3-zipp (= 1.0.0-3), python3.10 (= 3.10.3-1), python3.10-dev (= 3.10.3-1), python3.10-minimal (= 3.10.3-1), python3.9 (= 3.9.10-2), python3.9-minimal (= 3.9.10-2), rake (= 13.0.6-2), readline-common (= 8.1.2-1), rpcsvc-proto (= 1.4.2-0ubuntu5), ruby (= 1:3.0~exp1), ruby-asciidoctor (= 2.0.16-2), ruby-net-telnet (= 0.1.1-2), ruby-rubygems (= 3.3.5-2), ruby-xmlrpc (= 0.3.2-1), ruby3.0 (= 3.0.2-7ubuntu1), rubygems-integration (= 1.18), samtools (= 1.13-4), sed (= 4.8-1ubuntu1), sensible-utils (= 0.0.17), sgml-base (= 1.30), spades (= 3.13.1+dfsg-2ubuntu1), sysvinit-utils (= 3.01-1ubuntu1), tar (= 1.34+dfsg-1build2), tk8.6-blt2.5 (= 2.5.3+dfsg-4.1build1), tzdata (= 2021e-1ubuntu1), ucf (= 3.0043), unicode-data (= 14.0.0-1.1), util-linux (= 2.37.2-4ubuntu3), w3-dtd-mathml (= 2.0.0.0-5.1), x11-common (= 1:7.7+23ubuntu1), xml-core (= 0.18+nmu1), xz-utils (= 5.2.5-2build1), zlib1g (= 1:1.2.11.dfsg-2ubuntu8), zlib1g-dev (= 1:1.2.11.dfsg-2ubuntu8) Environment: DEB_BUILD_OPTIONS="parallel=4" DEB_BUILD_PROFILES="noudeb" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1647458424" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ ariba_2.14.6+ds-3build1_amd64.deb --------------------------------- new Debian package, version 2.0. size 2044012 bytes: control archive=17767 bytes. 1153 bytes, 18 lines control 91137 bytes, 756 lines md5sums 247 bytes, 12 lines * postinst #!/bin/sh 396 bytes, 12 lines * prerm #!/bin/sh Package: ariba Version: 2.14.6+ds-3build1 Architecture: amd64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 20447 Depends: fastaq (>= 3.12.0), python3 (<< 3.11), python3 (>= 3.10~), python3-biopython, python3-bs4, python3-dendropy, python3-matplotlib, python3-pymummer (>= 0.10.2), python3-pysam (>= 0.9.1), python3:any, libc6 (>= 2.14), libfml0 (>= 0.1-4~), libgcc-s1 (>= 3.3.1), libminimap0 (>= 0.2), libstdc++6 (>= 5.2), zlib1g (>= 1:1.1.4), bowtie2 (>= 2.1.0), cd-hit, mash, mummer, python3-tk Suggests: spades Section: science Priority: optional Homepage: https://github.com/sanger-pathogens/ariba Description: Antibiotic Resistance Identification By Assembly ARIBA is a tool that identifies antibiotic resistance genes by running local assemblies. The input is a FASTA file of reference genes and paired sequencing reads. ARIBA reports which of the reference genes were found, plus detailed information on the quality of the assemblies and any variants between the sequencing reads and the reference genes. drwxr-xr-x root/root 0 2022-03-16 19:20 ./ drwxr-xr-x root/root 0 2022-03-16 19:20 ./usr/ drwxr-xr-x root/root 0 2022-03-16 19:20 ./usr/bin/ -rwxr-xr-x root/root 26193 2022-03-16 19:20 ./usr/bin/ariba drwxr-xr-x root/root 0 2022-03-16 19:20 ./usr/lib/ drwxr-xr-x root/root 0 2022-03-16 19:20 ./usr/lib/python3/ drwxr-xr-x root/root 0 2022-03-16 19:20 ./usr/lib/python3/dist-packages/ drwxr-xr-x root/root 0 2022-03-16 19:20 ./usr/lib/python3/dist-packages/ariba-2.14.6.egg-info/ -rw-r--r-- root/root 552 2022-03-16 19:20 ./usr/lib/python3/dist-packages/ariba-2.14.6.egg-info/PKG-INFO -rw-r--r-- root/root 1 2022-03-16 19:20 ./usr/lib/python3/dist-packages/ariba-2.14.6.egg-info/dependency_links.txt -rw-r--r-- root/root 0 2022-03-16 19:20 ./usr/lib/python3/dist-packages/ariba-2.14.6.egg-info/requires.txt 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Build-Space: 78116 Build-Time: 75 Distribution: jammy-proposed Host Architecture: amd64 Install-Time: 43 Job: ariba_2.14.6+ds-3build1.dsc Machine Architecture: amd64 Package: ariba Package-Time: 122 Source-Version: 2.14.6+ds-3build1 Space: 78116 Status: successful Version: 2.14.6+ds-3build1 -------------------------------------------------------------------------------- Finished at 2022-03-17T08:36:05Z Build needed 00:02:02, 78116k disk space Adding user buildd to group lxd RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=jammy --arch=amd64 PACKAGEBUILD-23248859 Scanning for processes to kill in build PACKAGEBUILD-23248859