https://launchpad.net/ubuntu/+source/drop-seq/2.5.3+dfsg-1/+build/26337829 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux lcy02-amd64-063 5.4.0-152-generic #169-Ubuntu SMP Tue Jun 6 22:23:09 UTC 2023 x86_64 Buildd toolchain package versions: launchpad-buildd_233~634~ubuntu20.04.1 python3-lpbuildd_233~634~ubuntu20.04.1 sbuild_0.79.0-1ubuntu1 git-build-recipe_0.3.6 git_1:2.25.1-1ubuntu3.11 dpkg-dev_1.19.7ubuntu3.2 python3-debian_0.1.36ubuntu1. Syncing the system clock with the buildd NTP service... 25 Jun 17:14:40 ntpdate[1905]: adjust time server 10.131.248.1 offset -0.000537 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=mantic --arch=amd64 PACKAGEBUILD-26337829 --image-type chroot /home/buildd/filecache-default/1fc1752c0976ad9eb0e621fd063fde252dab04e3 Creating target for build PACKAGEBUILD-26337829 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=mantic --arch=amd64 PACKAGEBUILD-26337829 Starting target for build PACKAGEBUILD-26337829 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=mantic --arch=amd64 PACKAGEBUILD-26337829 'deb http://ftpmaster.internal/ubuntu mantic main universe' 'deb http://ftpmaster.internal/ubuntu mantic-security main universe' 'deb http://ftpmaster.internal/ubuntu mantic-updates main universe' 'deb http://ftpmaster.internal/ubuntu mantic-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-26337829 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=mantic --arch=amd64 PACKAGEBUILD-26337829 Updating target for build PACKAGEBUILD-26337829 Get:1 http://ftpmaster.internal/ubuntu mantic InRelease [255 kB] Get:2 http://ftpmaster.internal/ubuntu mantic-security InRelease [90.7 kB] Get:3 http://ftpmaster.internal/ubuntu mantic-updates InRelease [90.7 kB] Get:4 http://ftpmaster.internal/ubuntu mantic-proposed InRelease [118 kB] Get:5 http://ftpmaster.internal/ubuntu mantic/main amd64 Packages [1400 kB] Get:6 http://ftpmaster.internal/ubuntu mantic/main Translation-en [515 kB] Get:7 http://ftpmaster.internal/ubuntu mantic/universe amd64 Packages [14.6 MB] Get:8 http://ftpmaster.internal/ubuntu mantic/universe Translation-en [5937 kB] Get:9 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 Packages [69.9 kB] Get:10 http://ftpmaster.internal/ubuntu mantic-proposed/main Translation-en [26.4 kB] Get:11 http://ftpmaster.internal/ubuntu mantic-proposed/universe amd64 Packages [548 kB] Get:12 http://ftpmaster.internal/ubuntu mantic-proposed/universe Translation-en [193 kB] Fetched 23.9 MB in 2s (9747 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following NEW packages will be installed: gcc-13-base libproc2-0 The following packages will be upgraded: adduser advancecomp apt base-files bash binutils binutils-common binutils-x86-64-linux-gnu bsdutils ca-certificates coreutils cpp cpp-12 dash debconf diffutils dpkg dpkg-dev e2fsprogs fakeroot findutils g++ g++-12 gcc gcc-12 gcc-12-base gpg gpg-agent gpgconf gpgv grep hostname libacl1 libapparmor1 libapt-pkg6.0 libargon2-1 libasan8 libatomic1 libattr1 libaudit-common libaudit1 libbinutils libblkid1 libc-bin libc-dev-bin libc6 libc6-dev libcap-ng0 libcap2 libcc1-0 libcom-err2 libcrypt-dev libcrypt1 libcryptsetup12 libctf-nobfd0 libctf0 libdb5.3 libdebconfclient0 libdevmapper1.02.1 libdpkg-perl libext2fs2 libfakeroot libfdisk1 libgcc-12-dev libgcc-s1 libgcrypt20 libgnutls30 libgomp1 libgprofng0 libgssapi-krb5-2 libisl23 libitm1 libk5crypto3 libkmod2 libkrb5-3 libkrb5support0 liblsan0 liblzma5 libmd0 libmount1 libmpfr6 libncurses6 libncursesw6 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpcre2-8-0 libperl5.36 libpng16-16 libquadmath0 libreadline8 libseccomp2 libselinux1 libsemanage-common libsemanage2 libsepol2 libsmartcols1 libsqlite3-0 libss2 libssl3 libstdc++-12-dev libstdc++6 libsystemd-shared libsystemd0 libtinfo6 libtsan2 libubsan1 libudev1 libuuid1 libzstd1 linux-libc-dev logsave lsb-base lto-disabled-list mawk mount ncurses-base ncurses-bin openssl perl perl-base perl-modules-5.36 pkgbinarymangler procps readline-common sed sensible-utils systemd systemd-sysv sysvinit-utils tar tzdata usrmerge util-linux util-linux-extra xz-utils zlib1g 139 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 111 MB of archives. After this operation, 286 kB disk space will be freed. Get:1 http://ftpmaster.internal/ubuntu mantic/main amd64 libcrypt-dev amd64 1:4.4.35-1 [112 kB] Get:2 http://ftpmaster.internal/ubuntu mantic/main amd64 libc6-dev amd64 2.37-0ubuntu2 [2092 kB] Get:3 http://ftpmaster.internal/ubuntu mantic/main amd64 libc-dev-bin amd64 2.37-0ubuntu2 [20.0 kB] Get:4 http://ftpmaster.internal/ubuntu mantic/main amd64 libcrypt1 amd64 1:4.4.35-1 [82.1 kB] Get:5 http://ftpmaster.internal/ubuntu mantic/main amd64 linux-libc-dev amd64 6.3.0-7.7 [1544 kB] Get:6 http://ftpmaster.internal/ubuntu mantic/main amd64 libc6 amd64 2.37-0ubuntu2 [3179 kB] Get:7 http://ftpmaster.internal/ubuntu mantic/main amd64 libc-bin amd64 2.37-0ubuntu2 [669 kB] Get:8 http://ftpmaster.internal/ubuntu mantic/main amd64 gcc-13-base amd64 13.1.0-6ubuntu1 [42.0 kB] Get:9 http://ftpmaster.internal/ubuntu mantic/main amd64 libgcc-s1 amd64 13.1.0-6ubuntu1 [62.5 kB] Get:10 http://ftpmaster.internal/ubuntu mantic/main amd64 base-files amd64 13ubuntu1 [74.0 kB] Get:11 http://ftpmaster.internal/ubuntu mantic/main amd64 bash amd64 5.2.15-2ubuntu1 [795 kB] Get:12 http://ftpmaster.internal/ubuntu mantic/main amd64 bsdutils amd64 1:2.38.1-5ubuntu2 [91.5 kB] Get:13 http://ftpmaster.internal/ubuntu mantic/main amd64 coreutils amd64 9.1-1ubuntu2 [1407 kB] Get:14 http://ftpmaster.internal/ubuntu mantic/main amd64 liblzma5 amd64 5.4.1-0.2 [125 kB] Get:15 http://ftpmaster.internal/ubuntu mantic/main amd64 libgcrypt20 amd64 1.10.1-3ubuntu1 [529 kB] Get:16 http://ftpmaster.internal/ubuntu mantic/main amd64 libstdc++6 amd64 13.1.0-6ubuntu1 [772 kB] Get:17 http://ftpmaster.internal/ubuntu mantic/main amd64 libacl1 amd64 2.3.1-3 [16.4 kB] Get:18 http://ftpmaster.internal/ubuntu mantic/main amd64 libapparmor1 amd64 3.0.8-1ubuntu3 [46.3 kB] Get:19 http://ftpmaster.internal/ubuntu mantic/main amd64 libaudit-common all 1:3.0.9-1 [5142 B] Get:20 http://ftpmaster.internal/ubuntu mantic/main amd64 libcap-ng0 amd64 0.8.3-1build2 [15.3 kB] Get:21 http://ftpmaster.internal/ubuntu mantic/main amd64 libaudit1 amd64 1:3.0.9-1 [46.0 kB] Get:22 http://ftpmaster.internal/ubuntu mantic/main amd64 libblkid1 amd64 2.38.1-5ubuntu2 [111 kB] Get:23 http://ftpmaster.internal/ubuntu mantic/main amd64 libcap2 amd64 1:2.66-4ubuntu1 [29.4 kB] Get:24 http://ftpmaster.internal/ubuntu mantic/main amd64 libperl5.36 amd64 5.36.0-7ubuntu1 [4834 kB] Get:25 http://ftpmaster.internal/ubuntu mantic/main amd64 perl amd64 5.36.0-7ubuntu1 [235 kB] Get:26 http://ftpmaster.internal/ubuntu mantic/main amd64 perl-base amd64 5.36.0-7ubuntu1 [1784 kB] Get:27 http://ftpmaster.internal/ubuntu mantic/main amd64 perl-modules-5.36 all 5.36.0-7ubuntu1 [2984 kB] Get:28 http://ftpmaster.internal/ubuntu mantic/main amd64 libdb5.3 amd64 5.3.28+dfsg2-1 [742 kB] Get:29 http://ftpmaster.internal/ubuntu mantic/main amd64 zlib1g amd64 1:1.2.13.dfsg-1ubuntu4 [61.2 kB] Get:30 http://ftpmaster.internal/ubuntu mantic/main amd64 debconf all 1.5.82 [125 kB] Get:31 http://ftpmaster.internal/ubuntu mantic/main amd64 libssl3 amd64 3.0.9-1ubuntu1 [1901 kB] Get:32 http://ftpmaster.internal/ubuntu mantic/main amd64 libzstd1 amd64 1.5.4+dfsg2-5 [292 kB] Get:33 http://ftpmaster.internal/ubuntu mantic/main amd64 libkmod2 amd64 30+20221128-1ubuntu1 [49.5 kB] Get:34 http://ftpmaster.internal/ubuntu mantic/main amd64 libpcre2-8-0 amd64 10.42-1 [228 kB] Get:35 http://ftpmaster.internal/ubuntu mantic/main amd64 libselinux1 amd64 3.4-1build4 [78.1 kB] Get:36 http://ftpmaster.internal/ubuntu mantic/main amd64 libmount1 amd64 2.38.1-5ubuntu2 [121 kB] Get:37 http://ftpmaster.internal/ubuntu mantic/main amd64 libpam0g amd64 1.5.2-6ubuntu1 [65.9 kB] Get:38 http://ftpmaster.internal/ubuntu mantic/main amd64 libseccomp2 amd64 2.5.4-1ubuntu3 [49.1 kB] Get:39 http://ftpmaster.internal/ubuntu mantic/main amd64 systemd-sysv amd64 252.5-2ubuntu3 [11.5 kB] Get:40 http://ftpmaster.internal/ubuntu mantic/main amd64 systemd amd64 252.5-2ubuntu3 [3002 kB] Get:41 http://ftpmaster.internal/ubuntu mantic/main amd64 libsystemd-shared amd64 252.5-2ubuntu3 [1832 kB] Get:42 http://ftpmaster.internal/ubuntu mantic/main amd64 libargon2-1 amd64 0~20190702+dfsg-3 [20.3 kB] Get:43 http://ftpmaster.internal/ubuntu mantic/main amd64 libudev1 amd64 252.5-2ubuntu3 [150 kB] Get:44 http://ftpmaster.internal/ubuntu mantic/main amd64 libdevmapper1.02.1 amd64 2:1.02.185-2ubuntu1 [139 kB] Get:45 http://ftpmaster.internal/ubuntu mantic/main amd64 libuuid1 amd64 2.38.1-5ubuntu2 [32.7 kB] Get:46 http://ftpmaster.internal/ubuntu mantic/main amd64 libcryptsetup12 amd64 2:2.6.1-4ubuntu1 [243 kB] Get:47 http://ftpmaster.internal/ubuntu mantic/main amd64 libfdisk1 amd64 2.38.1-5ubuntu2 [144 kB] Get:48 http://ftpmaster.internal/ubuntu mantic/main amd64 libp11-kit0 amd64 0.24.1-2ubuntu1 [248 kB] Get:49 http://ftpmaster.internal/ubuntu mantic/main amd64 mount amd64 2.38.1-5ubuntu2 [114 kB] Get:50 http://ftpmaster.internal/ubuntu mantic/main amd64 libsystemd0 amd64 252.5-2ubuntu3 [389 kB] Get:51 http://ftpmaster.internal/ubuntu mantic/main amd64 libapt-pkg6.0 amd64 2.7.1 [930 kB] Get:52 http://ftpmaster.internal/ubuntu mantic/main amd64 tar amd64 1.34+dfsg-1.2ubuntu1 [293 kB] Get:53 http://ftpmaster.internal/ubuntu mantic/main amd64 dpkg amd64 1.21.22ubuntu1 [1393 kB] Get:54 http://ftpmaster.internal/ubuntu mantic/main amd64 dash amd64 0.5.12-2ubuntu1 [88.2 kB] Get:55 http://ftpmaster.internal/ubuntu mantic/main amd64 diffutils amd64 1:3.8-4 [176 kB] Get:56 http://ftpmaster.internal/ubuntu mantic/main amd64 findutils amd64 4.9.0-4ubuntu1 [299 kB] Get:57 http://ftpmaster.internal/ubuntu mantic/main amd64 grep amd64 3.8-5 [160 kB] Get:58 http://ftpmaster.internal/ubuntu mantic/main amd64 hostname amd64 3.23+nmu1ubuntu1 [11.0 kB] Get:59 http://ftpmaster.internal/ubuntu mantic/main amd64 ncurses-bin amd64 6.4-4 [185 kB] Get:60 http://ftpmaster.internal/ubuntu mantic/main amd64 sed amd64 4.9-1 [193 kB] Get:61 http://ftpmaster.internal/ubuntu mantic/main amd64 libsmartcols1 amd64 2.38.1-5ubuntu2 [59.5 kB] Get:62 http://ftpmaster.internal/ubuntu mantic/main amd64 util-linux-extra amd64 2.38.1-5ubuntu2 [83.8 kB] Get:63 http://ftpmaster.internal/ubuntu mantic/main amd64 util-linux amd64 2.38.1-5ubuntu2 [1075 kB] Get:64 http://ftpmaster.internal/ubuntu mantic/main amd64 ncurses-base all 6.4-4 [23.3 kB] Get:65 http://ftpmaster.internal/ubuntu mantic/main amd64 sysvinit-utils amd64 3.06-4ubuntu1 [33.0 kB] Get:66 http://ftpmaster.internal/ubuntu mantic/main amd64 lsb-base all 11.6 [4606 B] Get:67 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 adduser all 3.134ubuntu1 [136 kB] Get:68 http://ftpmaster.internal/ubuntu mantic/main amd64 gpgv amd64 2.2.40-1.1ubuntu1 [140 kB] Get:69 http://ftpmaster.internal/ubuntu mantic/main amd64 libgnutls30 amd64 3.7.9-2ubuntu1 [999 kB] Get:70 http://ftpmaster.internal/ubuntu mantic/main amd64 apt amd64 2.7.1 [1359 kB] Get:71 http://ftpmaster.internal/ubuntu mantic/main amd64 libpam-modules-bin amd64 1.5.2-6ubuntu1 [47.3 kB] Get:72 http://ftpmaster.internal/ubuntu mantic/main amd64 libpam-modules amd64 1.5.2-6ubuntu1 [284 kB] Get:73 http://ftpmaster.internal/ubuntu mantic/main amd64 logsave amd64 1.47.0-1ubuntu1 [14.2 kB] Get:74 http://ftpmaster.internal/ubuntu mantic/main amd64 libext2fs2 amd64 1.47.0-1ubuntu1 [212 kB] Get:75 http://ftpmaster.internal/ubuntu mantic/main amd64 e2fsprogs amd64 1.47.0-1ubuntu1 [598 kB] Get:76 http://ftpmaster.internal/ubuntu mantic/main amd64 libattr1 amd64 1:2.5.1-4 [12.4 kB] Get:77 http://ftpmaster.internal/ubuntu mantic/main amd64 libdebconfclient0 amd64 0.267ubuntu1 [7892 B] Get:78 http://ftpmaster.internal/ubuntu mantic/main amd64 libmd0 amd64 1.1.0-1 [26.9 kB] Get:79 http://ftpmaster.internal/ubuntu mantic/main amd64 libpam-runtime all 1.5.2-6ubuntu1 [41.5 kB] Get:80 http://ftpmaster.internal/ubuntu mantic/main amd64 libsemanage-common all 3.4-1build4 [9852 B] Get:81 http://ftpmaster.internal/ubuntu mantic/main amd64 libsepol2 amd64 3.4-2.1 [301 kB] Get:82 http://ftpmaster.internal/ubuntu mantic/main amd64 libsemanage2 amd64 3.4-1build4 [92.7 kB] Get:83 http://ftpmaster.internal/ubuntu mantic/main amd64 libncurses6 amd64 6.4-4 [112 kB] Get:84 http://ftpmaster.internal/ubuntu mantic/main amd64 libncursesw6 amd64 6.4-4 [147 kB] Get:85 http://ftpmaster.internal/ubuntu mantic/main amd64 libtinfo6 amd64 6.4-4 [103 kB] Get:86 http://ftpmaster.internal/ubuntu mantic/main amd64 usrmerge all 35ubuntu1 [58.2 kB] Get:87 http://ftpmaster.internal/ubuntu mantic/main amd64 libcom-err2 amd64 1.47.0-1ubuntu1 [14.5 kB] Get:88 http://ftpmaster.internal/ubuntu mantic/main amd64 libproc2-0 amd64 2:4.0.3-1ubuntu1 [55.9 kB] Get:89 http://ftpmaster.internal/ubuntu mantic/main amd64 libss2 amd64 1.47.0-1ubuntu1 [16.8 kB] Get:90 http://ftpmaster.internal/ubuntu mantic/main amd64 mawk amd64 1.3.4.20230525-1 [113 kB] Get:91 http://ftpmaster.internal/ubuntu mantic/main amd64 procps amd64 2:4.0.3-1ubuntu1 [609 kB] Get:92 http://ftpmaster.internal/ubuntu mantic/main amd64 sensible-utils all 0.0.20 [19.6 kB] Get:93 http://ftpmaster.internal/ubuntu mantic/main amd64 openssl amd64 3.0.9-1ubuntu1 [1189 kB] Get:94 http://ftpmaster.internal/ubuntu mantic/main amd64 ca-certificates all 20230311ubuntu1 [152 kB] Get:95 http://ftpmaster.internal/ubuntu mantic/main amd64 libgssapi-krb5-2 amd64 1.20.1-2 [142 kB] Get:96 http://ftpmaster.internal/ubuntu mantic/main amd64 libkrb5-3 amd64 1.20.1-2 [346 kB] Get:97 http://ftpmaster.internal/ubuntu mantic/main amd64 libkrb5support0 amd64 1.20.1-2 [32.7 kB] Get:98 http://ftpmaster.internal/ubuntu mantic/main amd64 libk5crypto3 amd64 1.20.1-2 [81.1 kB] Get:99 http://ftpmaster.internal/ubuntu mantic/main amd64 readline-common all 8.2-1.3 [55.7 kB] Get:100 http://ftpmaster.internal/ubuntu mantic/main amd64 libreadline8 amd64 8.2-1.3 [151 kB] Get:101 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libsqlite3-0 amd64 3.42.0-1 [668 kB] Get:102 http://ftpmaster.internal/ubuntu mantic/main amd64 tzdata all 2023c-4exp1ubuntu1 [271 kB] Get:103 http://ftpmaster.internal/ubuntu mantic-proposed/main amd64 libpng16-16 amd64 1.6.40-1 [186 kB] Get:104 http://ftpmaster.internal/ubuntu mantic/main amd64 xz-utils amd64 5.4.1-0.2 [270 kB] Get:105 http://ftpmaster.internal/ubuntu mantic/main amd64 advancecomp amd64 2.5-1 [180 kB] Get:106 http://ftpmaster.internal/ubuntu mantic/main amd64 libgprofng0 amd64 2.40.50.20230622-1ubuntu1 [902 kB] Get:107 http://ftpmaster.internal/ubuntu mantic/main amd64 libctf0 amd64 2.40.50.20230622-1ubuntu1 [97.1 kB] Get:108 http://ftpmaster.internal/ubuntu mantic/main amd64 libctf-nobfd0 amd64 2.40.50.20230622-1ubuntu1 [99.7 kB] Get:109 http://ftpmaster.internal/ubuntu mantic/main amd64 binutils-x86-64-linux-gnu amd64 2.40.50.20230622-1ubuntu1 [2524 kB] Get:110 http://ftpmaster.internal/ubuntu mantic/main amd64 libbinutils amd64 2.40.50.20230622-1ubuntu1 [631 kB] Get:111 http://ftpmaster.internal/ubuntu mantic/main amd64 binutils amd64 2.40.50.20230622-1ubuntu1 [18.7 kB] Get:112 http://ftpmaster.internal/ubuntu mantic/main amd64 binutils-common amd64 2.40.50.20230622-1ubuntu1 [252 kB] Get:113 http://ftpmaster.internal/ubuntu mantic/main amd64 libisl23 amd64 0.26-3 [741 kB] Get:114 http://ftpmaster.internal/ubuntu mantic/main amd64 libmpfr6 amd64 4.2.0-1 [352 kB] Get:115 http://ftpmaster.internal/ubuntu mantic/main amd64 g++-12 amd64 12.3.0-3ubuntu1 [12.1 MB] Get:116 http://ftpmaster.internal/ubuntu mantic/main amd64 gcc-12 amd64 12.3.0-3ubuntu1 [21.6 MB] Get:117 http://ftpmaster.internal/ubuntu mantic/main amd64 cpp-12 amd64 12.3.0-3ubuntu1 [10.7 MB] Get:118 http://ftpmaster.internal/ubuntu mantic/main amd64 libubsan1 amd64 13.1.0-6ubuntu1 [1104 kB] Get:119 http://ftpmaster.internal/ubuntu mantic/main amd64 libstdc++-12-dev amd64 12.3.0-3ubuntu1 [2180 kB] Get:120 http://ftpmaster.internal/ubuntu mantic/main amd64 libgomp1 amd64 13.1.0-6ubuntu1 [142 kB] Get:121 http://ftpmaster.internal/ubuntu mantic/main amd64 libitm1 amd64 13.1.0-6ubuntu1 [29.5 kB] Get:122 http://ftpmaster.internal/ubuntu mantic/main amd64 libatomic1 amd64 13.1.0-6ubuntu1 [10.4 kB] Get:123 http://ftpmaster.internal/ubuntu mantic/main amd64 libasan8 amd64 13.1.0-6ubuntu1 [2827 kB] Get:124 http://ftpmaster.internal/ubuntu mantic/main amd64 liblsan0 amd64 13.1.0-6ubuntu1 [1203 kB] Get:125 http://ftpmaster.internal/ubuntu mantic/main amd64 libquadmath0 amd64 13.1.0-6ubuntu1 [153 kB] Get:126 http://ftpmaster.internal/ubuntu mantic/main amd64 libgcc-12-dev amd64 12.3.0-3ubuntu1 [2575 kB] Get:127 http://ftpmaster.internal/ubuntu mantic/main amd64 libtsan2 amd64 13.1.0-6ubuntu1 [2599 kB] Get:128 http://ftpmaster.internal/ubuntu mantic/main amd64 libcc1-0 amd64 13.1.0-6ubuntu1 [48.1 kB] Get:129 http://ftpmaster.internal/ubuntu mantic/main amd64 gcc-12-base amd64 12.3.0-3ubuntu1 [42.7 kB] Get:130 http://ftpmaster.internal/ubuntu mantic/main amd64 g++ amd64 4:12.2.0-3ubuntu1 [1120 B] Get:131 http://ftpmaster.internal/ubuntu mantic/main amd64 gcc amd64 4:12.2.0-3ubuntu1 [5160 B] Get:132 http://ftpmaster.internal/ubuntu mantic/main amd64 cpp amd64 4:12.2.0-3ubuntu1 [27.8 kB] Get:133 http://ftpmaster.internal/ubuntu mantic/main amd64 dpkg-dev all 1.21.22ubuntu1 [1118 kB] Get:134 http://ftpmaster.internal/ubuntu mantic/main amd64 libdpkg-perl all 1.21.22ubuntu1 [247 kB] Get:135 http://ftpmaster.internal/ubuntu mantic/main amd64 lto-disabled-list all 41 [12.4 kB] Get:136 http://ftpmaster.internal/ubuntu mantic/main amd64 libfakeroot amd64 1.31-1.2 [32.0 kB] Get:137 http://ftpmaster.internal/ubuntu mantic/main amd64 fakeroot amd64 1.31-1.2 [60.1 kB] Get:138 http://ftpmaster.internal/ubuntu mantic/main amd64 gpg amd64 2.2.40-1.1ubuntu1 [523 kB] Get:139 http://ftpmaster.internal/ubuntu mantic/main amd64 gpgconf amd64 2.2.40-1.1ubuntu1 [96.3 kB] Get:140 http://ftpmaster.internal/ubuntu mantic/main amd64 gpg-agent amd64 2.2.40-1.1ubuntu1 [216 kB] Get:141 http://ftpmaster.internal/ubuntu mantic/main amd64 pkgbinarymangler all 153 [16.3 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 111 MB in 1s (97.9 MB/s) (Reading database ... 13093 files and directories currently installed.) 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Setting up libitm1:amd64 (13.1.0-6ubuntu1) ... Setting up libkmod2:amd64 (30+20221128-1ubuntu1) ... Setting up libctf0:amd64 (2.40.50.20230622-1ubuntu1) ... Setting up cpp-12 (12.3.0-3ubuntu1) ... Setting up pkgbinarymangler (153) ... Setting up libreadline8:amd64 (8.2-1.3) ... Setting up e2fsprogs (1.47.0-1ubuntu1) ... Installing new version of config file /etc/mke2fs.conf ... Setting up ca-certificates (20230311ubuntu1) ... Updating certificates in /etc/ssl/certs... rehash: warning: skipping ca-certificates.crt,it does not contain exactly one certificate or CRL 19 added, 6 removed; done. Setting up perl (5.36.0-7ubuntu1) ... Setting up libgprofng0:amd64 (2.40.50.20230622-1ubuntu1) ... Setting up libgcc-12-dev:amd64 (12.3.0-3ubuntu1) ... Setting up libgssapi-krb5-2:amd64 (1.20.1-2) ... Setting up libsystemd-shared:amd64 (252.5-2ubuntu3) ... Setting up libdpkg-perl (1.21.22ubuntu1) ... Setting up cpp (4:12.2.0-3ubuntu1) ... Setting up gpgconf (2.2.40-1.1ubuntu1) ... Setting up libc6-dev:amd64 (2.37-0ubuntu2) ... Setting up gpg (2.2.40-1.1ubuntu1) ... Setting up binutils-x86-64-linux-gnu (2.40.50.20230622-1ubuntu1) ... Setting up gpg-agent (2.2.40-1.1ubuntu1) ... Setting up libstdc++-12-dev:amd64 (12.3.0-3ubuntu1) ... Setting up systemd (252.5-2ubuntu3) ... Installing new version of config file /etc/systemd/logind.conf ... Installing new version of config file /etc/systemd/system.conf ... Installing new version of config file /etc/systemd/user.conf ... Initializing machine ID from random generator. Setting up binutils (2.40.50.20230622-1ubuntu1) ... Setting up dpkg-dev (1.21.22ubuntu1) ... Setting up gcc-12 (12.3.0-3ubuntu1) ... Setting up g++-12 (12.3.0-3ubuntu1) ... Setting up systemd-sysv (252.5-2ubuntu3) ... Setting up gcc (4:12.2.0-3ubuntu1) ... Setting up g++ (4:12.2.0-3ubuntu1) ... Processing triggers for libc-bin (2.37-0ubuntu2) ... Processing triggers for debianutils (5.7-0.4) ... Processing triggers for ca-certificates (20230311ubuntu1) ... 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-26337829 amd64 mantic-proposed -c chroot:build-PACKAGEBUILD-26337829 --arch=amd64 --dist=mantic-proposed --nolog -A drop-seq_2.5.3+dfsg-1.dsc Initiating build PACKAGEBUILD-26337829 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 5.4.0-152-generic #169-Ubuntu SMP Tue Jun 6 22:23:09 UTC 2023 x86_64 sbuild (Debian sbuild) 0.79.0 (05 February 2020) on lcy02-amd64-063.buildd +==============================================================================+ | drop-seq 2.5.3+dfsg-1 (amd64) Sun, 25 Jun 2023 17:15:03 +0000 | +==============================================================================+ Package: drop-seq Version: 2.5.3+dfsg-1 Source Version: 2.5.3+dfsg-1 Distribution: mantic-proposed Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: binary I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-26337829/chroot-autobuild' with '<>' I: NOTICE: Log filtering will replace 'build/drop-seq-P752Dl/resolver-VVsqMS' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- drop-seq_2.5.3+dfsg-1.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/drop-seq-P752Dl/drop-seq-2.5.3+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/drop-seq-P752Dl' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), javahelper, default-jdk-headless, build-essential, fakeroot, libbiojava6-java, libhtsjdk-java, libpicard-java, libcommons-collections4-java, libcommons-lang-java, libguava-java, libyaml-snake-java, libla4j-java, libjcommander-java, junit4, testng Filtered Build-Depends: debhelper-compat (= 13), javahelper, default-jdk-headless, build-essential, fakeroot, libbiojava6-java, libhtsjdk-java, libpicard-java, libcommons-collections4-java, libcommons-lang-java, libguava-java, libyaml-snake-java, libla4j-java, libjcommander-java, junit4, testng 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 [490 B] Get:5 copy:/<>/apt_archive ./ Packages [552 B] Fetched 1999 B in 0s (0 B/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: ant ant-optional autoconf automake autopoint autotools-dev bsdextrautils ca-certificates-java dctrl-tools debhelper debugedit default-jdk-headless default-jre-headless devscripts dh-autoreconf dh-strip-nondeterminism dirmngr dwz file fontconfig-config fonts-dejavu-core gettext gettext-base gnupg gnupg-l10n gnupg-utils gpg-wks-client gpg-wks-server gpgsm groff-base intltool-debian java-common javahelper junit4 libactivation-java libantlr4-runtime-java libaopalliance-java libapache-pom-java libapfloat-java libarchive-zip-perl libargs4j-java libasm-java libasound2 libasound2-data libatinject-jsr330-api-java libavahi-client3 libavahi-common-data libavahi-common3 libb-hooks-op-check-perl libbarclay-java libbiojava6-java libbrotli1 libbsh-java libcdi-api-java libciftools-java libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libcodemodel-java libcommons-cli-java libcommons-codec-java libcommons-collections4-java libcommons-compress-java libcommons-exec-java libcommons-io-java libcommons-jexl2-java libcommons-lang-java libcommons-lang3-java libcommons-logging-java libcommons-math-java libcommons-math3-java libcommons-parent-java libcommons-text-java libcups2 libdbus-1-3 libdebhelper-perl libdevel-callchecker-perl libdom4j-java libdtd-parser-java libdw1 libdynaloader-functions-perl libelf1 libencode-locale-perl liberror-prone-java libexec-maven-plugin-java libexpat1 libfastinfoset-java libfastutil-java libfile-dirlist-perl libfile-homedir-perl libfile-listing-perl libfile-stripnondeterminism-perl libfile-touch-perl libfile-which-perl libfontconfig1 libfreemarker-java libfreetype6 libgatk-native-bindings-java libgeronimo-annotation-1.3-spec-java libgeronimo-interceptor-3.0-spec-java libgkl-java libglib2.0-0 libgoogle-gson-java libgraphite2-3 libguava-java libguice-java libhamcrest-java libharfbuzz0b libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libhtsjdk-java libhttp-cookiejar-perl libhttp-cookies-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libhttpclient-java libhttpcore-java libicu72 libimport-into-perl libinchi1 libio-html-perl libio-pty-perl libio-socket-ssl-perl libipc-run-perl libistack-commons-java libitext5-java libjackson2-annotations-java libjackson2-core-java libjackson2-databind-java libjaxb-api-java libjaxb-java libjaxen-java libjcommander-java libjgrapht-java libjgraphx-java libjheaps-java libjmol-java libjni-inchi-java libjni-inchi-jni libjoptsimple-java libjpeg-turbo8 libjpeg8 libjson-simple-java libjsoup-java libjsr305-java libksba8 libla4j-java liblcms2-2 libldap2 liblightcouch-java liblog4j1.2-java liblog4j2-java liblwp-mediatypes-perl liblwp-protocol-https-perl libmagic-mgc libmagic1 libmaven-archiver-java libmaven-compiler-plugin-java libmaven-file-management-java libmaven-jar-plugin-java libmaven-parent-java libmaven-resolver-java libmaven-shared-incremental-java libmaven-shared-io-java libmaven-shared-utils-java libmaven3-core-java libmbedcrypto7 libmbedtls14 libmbedx509-1 libmjson-java libmmtf-java libmodule-runtime-perl libmongodb-java libmoo-perl libmsgpack-java libnaga-java libncbi-ngs3 libncbi-vdb3 libnet-http-perl libnet-ssleay-perl libngs-java libngs-jni libnspr4 libnss3 libparams-classify-perl libpcsclite1 libpicard-java libpipeline1 libplexus-archiver-java libplexus-cipher-java libplexus-classworlds-java libplexus-compiler-java libplexus-component-annotations-java libplexus-container-default-java libplexus-interpolation-java libplexus-io-java libplexus-languages-java libplexus-sec-dispatcher-java libplexus-utils2-java libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib libqdox2-java librelaxng-datatype-java librhino-java librngom-java librole-tiny-perl libsasl2-2 libsasl2-modules-db libsisu-inject-java libsisu-plexus-java libslf4j-java libsnappy-java libsnappy-jni libsnappy1v5 libstax-ex-java libstreambuffer-java libsub-override-perl libsub-quote-perl libtimedate-perl libtool libtry-tiny-perl libtxw2-java libuchardet0 liburi-perl libvecmath-java libwagon-http-java libwagon-provider-api-java libwww-perl libwww-robotrules-perl libxbean-reflect-java libxerces2-java libxml-commons-external-java libxml-commons-resolver1.1-java libxml2 libxsom-java libxz-java libyaml-snake-java m4 man-db media-types ncbi-vdb-data netbase openjdk-17-jdk-headless openjdk-17-jre-headless patchutils perl-openssl-defaults po-debconf python3 python3-minimal python3.11 python3.11-minimal testng wdiff Suggested packages: ant-doc antlr javacc junit jython libbcel-java libbsf-java libcommons-net-java libmail-java libjaxp1.3-java libjdepend-java libjsch-java liboro-java libregexp-java libxalan2-java autoconf-archive gnu-standards autoconf-doc debtags dh-make default-jre adequate at autopkgtest bls-standalone bsd-mailx | mailx check-all-the-things cvs-buildpackage diffoscope disorderfs dose-extra duck elpa-devscripts faketime gnuplot how-can-i-help libauthen-sasl-perl libdbd-pg-perl libfile-desktopentry-perl libterm-size-perl libyaml-syck-perl mmdebstrap mozilla-devscripts mutt piuparts postgresql-client pristine-lfs quilt ratt reprotest ssh-client svn-buildpackage w3m debian-keyring equivs libsoap-lite-perl pristine-tar dbus-user-session libpam-systemd pinentry-gnome3 tor gettext-doc libasprintf-dev libgettextpo-dev parcimonie xloadimage groff libasound2-plugins alsa-utils libatinject-jsr330-api-java-doc libbiojava6-java-doc libel-api-java libcommons-collections4-java-doc libcommons-io-java-doc libcommons-lang-java-doc libcommons-lang3-java-doc libavalon-framework-java libcommons-logging-java-doc libexcalibur-logkit-java cups-common libmsv-java libxpp2-java libxpp3-java libjdom1-java low-memory-monitor libgoogle-gson-java-doc libcglib-java libdata-dump-perl picard-tools libio-compress-brotli-perl libbcpkix-java libbcprov-java libxml-security-java libjackson2-annotations-java-doc libxom-java libjcommander-java-doc libjmol-java-doc libjoptsimple-java-doc libjson-simple-doc libjsoup-java-doc libjsr305-java-doc liblcms2-utils liblog4j1.2-java-doc libcommons-csv-java libconversant-disruptor-java libdisruptor-java libgeronimo-jms-1.1-spec-java libjackson2-dataformat-xml-java libjackson2-dataformat-yaml libjansi-java libjctools-java libjeromq-java libwoodstox-java libcrypt-ssleay-perl libmaven-file-management-java-doc libmaven-shared-incremental-java-doc libmaven-shared-utils-java-doc liblogback-java libmmtf-java-doc libngs-java-doc libscalar-number-perl pcscd libeclipse-jdt-core-java libplexus-utils2-java-doc rhino libxstring-perl libtool-doc gfortran | fortran95-compiler gcj-jdk libsub-name-perl libbusiness-isbn-perl libregexp-ipv6-perl libauthen-ntlm-perl libxerces2-java-doc libxml-commons-resolver1.1-java-doc m4-doc apparmor less www-browser openjdk-17-demo openjdk-17-source libnss-mdns fonts-dejavu-extra fonts-ipafont-gothic fonts-ipafont-mincho fonts-wqy-microhei | fonts-wqy-zenhei fonts-indic libmail-box-perl python3-doc python3-tk python3-venv python3.11-venv python3.11-doc binfmt-support wdiff-doc Recommended packages: dput | dupload libdistro-info-perl libgit-wrapper-perl libgitlab-api-v4-perl liblist-compare-perl libstring-shellquote-perl licensecheck lintian python3-apt python3-debian python3-magic python3-requests python3-unidiff python3-xdg strace unzip wget | curl curl | wget | lynx alsa-ucm-conf alsa-topology-conf dbus libarchive-cpio-perl libgkl-jni libglib2.0-data shared-mime-info xdg-user-dirs libhtml-format-perl libldap-common libjansi-java libnamespace-clean-perl r-base-core libsasl2-modules libltdl-dev libdata-dump-perl libhtml-form-perl libhttp-daemon-perl libmailtools-perl libmail-sendmail-perl The following NEW packages will be installed: ant ant-optional autoconf automake autopoint autotools-dev bsdextrautils ca-certificates-java dctrl-tools debhelper debugedit default-jdk-headless default-jre-headless devscripts dh-autoreconf dh-strip-nondeterminism dirmngr dwz file fontconfig-config fonts-dejavu-core gettext gettext-base gnupg gnupg-l10n gnupg-utils gpg-wks-client gpg-wks-server gpgsm groff-base intltool-debian java-common javahelper junit4 libactivation-java libantlr4-runtime-java libaopalliance-java libapache-pom-java libapfloat-java libarchive-zip-perl libargs4j-java libasm-java libasound2 libasound2-data libatinject-jsr330-api-java libavahi-client3 libavahi-common-data libavahi-common3 libb-hooks-op-check-perl libbarclay-java libbiojava6-java libbrotli1 libbsh-java libcdi-api-java libciftools-java libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libcodemodel-java libcommons-cli-java libcommons-codec-java libcommons-collections4-java libcommons-compress-java libcommons-exec-java libcommons-io-java libcommons-jexl2-java libcommons-lang-java libcommons-lang3-java libcommons-logging-java libcommons-math-java libcommons-math3-java libcommons-parent-java libcommons-text-java libcups2 libdbus-1-3 libdebhelper-perl libdevel-callchecker-perl libdom4j-java libdtd-parser-java libdw1 libdynaloader-functions-perl libelf1 libencode-locale-perl liberror-prone-java libexec-maven-plugin-java libexpat1 libfastinfoset-java libfastutil-java libfile-dirlist-perl libfile-homedir-perl libfile-listing-perl libfile-stripnondeterminism-perl libfile-touch-perl libfile-which-perl libfontconfig1 libfreemarker-java libfreetype6 libgatk-native-bindings-java libgeronimo-annotation-1.3-spec-java libgeronimo-interceptor-3.0-spec-java libgkl-java libglib2.0-0 libgoogle-gson-java libgraphite2-3 libguava-java libguice-java libhamcrest-java libharfbuzz0b libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libhtsjdk-java libhttp-cookiejar-perl libhttp-cookies-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libhttpclient-java libhttpcore-java libicu72 libimport-into-perl libinchi1 libio-html-perl libio-pty-perl libio-socket-ssl-perl libipc-run-perl libistack-commons-java libitext5-java libjackson2-annotations-java libjackson2-core-java libjackson2-databind-java libjaxb-api-java libjaxb-java libjaxen-java libjcommander-java libjgrapht-java libjgraphx-java libjheaps-java libjmol-java libjni-inchi-java libjni-inchi-jni libjoptsimple-java libjpeg-turbo8 libjpeg8 libjson-simple-java libjsoup-java libjsr305-java libksba8 libla4j-java liblcms2-2 libldap2 liblightcouch-java liblog4j1.2-java liblog4j2-java liblwp-mediatypes-perl liblwp-protocol-https-perl libmagic-mgc libmagic1 libmaven-archiver-java libmaven-compiler-plugin-java libmaven-file-management-java libmaven-jar-plugin-java libmaven-parent-java libmaven-resolver-java libmaven-shared-incremental-java libmaven-shared-io-java libmaven-shared-utils-java libmaven3-core-java libmbedcrypto7 libmbedtls14 libmbedx509-1 libmjson-java libmmtf-java libmodule-runtime-perl libmongodb-java libmoo-perl libmsgpack-java libnaga-java libncbi-ngs3 libncbi-vdb3 libnet-http-perl libnet-ssleay-perl libngs-java libngs-jni libnspr4 libnss3 libparams-classify-perl libpcsclite1 libpicard-java libpipeline1 libplexus-archiver-java libplexus-cipher-java libplexus-classworlds-java libplexus-compiler-java libplexus-component-annotations-java libplexus-container-default-java libplexus-interpolation-java libplexus-io-java libplexus-languages-java libplexus-sec-dispatcher-java libplexus-utils2-java libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib libqdox2-java librelaxng-datatype-java librhino-java librngom-java librole-tiny-perl libsasl2-2 libsasl2-modules-db libsisu-inject-java libsisu-plexus-java libslf4j-java libsnappy-java libsnappy-jni libsnappy1v5 libstax-ex-java libstreambuffer-java libsub-override-perl libsub-quote-perl libtimedate-perl libtool libtry-tiny-perl libtxw2-java libuchardet0 liburi-perl libvecmath-java libwagon-http-java libwagon-provider-api-java libwww-perl libwww-robotrules-perl libxbean-reflect-java libxerces2-java libxml-commons-external-java libxml-commons-resolver1.1-java libxml2 libxsom-java libxz-java libyaml-snake-java m4 man-db media-types ncbi-vdb-data netbase openjdk-17-jdk-headless openjdk-17-jre-headless patchutils perl-openssl-defaults po-debconf python3 python3-minimal python3.11 python3.11-minimal sbuild-build-depends-main-dummy testng wdiff 0 upgraded, 257 newly installed, 0 to remove and 0 not upgraded. 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all 5.0.0+dfsg-1 [108 kB] Get:151 http://ftpmaster.internal/ubuntu mantic/universe amd64 libgeronimo-annotation-1.3-spec-java all 1.3-1 [11.2 kB] Get:152 http://ftpmaster.internal/ubuntu mantic/universe amd64 libciftools-java all 5.0.1-1 [2191 kB] Get:153 http://ftpmaster.internal/ubuntu mantic/universe amd64 libcommons-math-java all 2.2-8 [921 kB] Get:154 http://ftpmaster.internal/ubuntu mantic/universe amd64 liberror-prone-java all 2.18.0-1 [22.5 kB] Get:155 http://ftpmaster.internal/ubuntu mantic/universe amd64 libjsr305-java all 0.1~+svn49-11 [27.0 kB] Get:156 http://ftpmaster.internal/ubuntu mantic-proposed/universe amd64 libguava-java all 32.0.1-1 [2692 kB] Get:157 http://ftpmaster.internal/ubuntu mantic/universe amd64 libitext5-java all 5.5.13.3-2 [2650 kB] Get:158 http://ftpmaster.internal/ubuntu mantic/universe amd64 libjackson2-annotations-java all 2.14.0-1 [64.7 kB] Get:159 http://ftpmaster.internal/ubuntu mantic/universe amd64 libjackson2-core-java all 2.14.1-1 [432 kB] Get:160 http://ftpmaster.internal/ubuntu mantic/universe amd64 libjackson2-databind-java all 2.14.0-1 [1531 kB] Get:161 http://ftpmaster.internal/ubuntu mantic/universe amd64 libjaxb-api-java all 2.3.1-1 [119 kB] Get:162 http://ftpmaster.internal/ubuntu mantic/universe amd64 libjaxen-java all 1.1.6-4 [214 kB] Get:163 http://ftpmaster.internal/ubuntu mantic/universe amd64 libdom4j-java all 2.1.3-2 [307 kB] Get:164 http://ftpmaster.internal/ubuntu mantic/universe amd64 libcommons-io-java all 2.11.0-2 [297 kB] Get:165 http://ftpmaster.internal/ubuntu mantic/universe amd64 libmaven-shared-utils-java all 3.3.4-1 [137 kB] Get:166 http://ftpmaster.internal/ubuntu mantic/universe amd64 libcommons-cli-java all 1.5.0-1 [59.3 kB] Get:167 http://ftpmaster.internal/ubuntu mantic/universe amd64 libaopalliance-java all 20070526-7 [8166 B] Get:168 http://ftpmaster.internal/ubuntu mantic/universe amd64 libguice-java all 4.2.3-2 [1434 kB] Get:169 http://ftpmaster.internal/ubuntu mantic/universe amd64 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libgeronimo-interceptor-3.0-spec-java all 1.0.1-4fakesync [8616 B] Get:179 http://ftpmaster.internal/ubuntu mantic/universe amd64 libcdi-api-java all 1.2-3 [54.3 kB] Get:180 http://ftpmaster.internal/ubuntu mantic/universe amd64 libsisu-inject-java all 0.3.4-2 [347 kB] Get:181 http://ftpmaster.internal/ubuntu mantic/universe amd64 libsisu-plexus-java all 0.3.4-3 [181 kB] Get:182 http://ftpmaster.internal/ubuntu mantic/universe amd64 libmaven3-core-java all 3.8.7-1 [1565 kB] Get:183 http://ftpmaster.internal/ubuntu mantic/universe amd64 libmaven-shared-io-java all 3.0.0-4 [32.6 kB] Get:184 http://ftpmaster.internal/ubuntu mantic/universe amd64 libmaven-file-management-java all 3.0.0-1 [35.1 kB] Get:185 http://ftpmaster.internal/ubuntu mantic/universe amd64 libcommons-compress-java all 1.23.0-1 [602 kB] Get:186 http://ftpmaster.internal/ubuntu mantic/universe amd64 libplexus-io-java all 3.3.1-2 [64.4 kB] Get:187 http://ftpmaster.internal/ubuntu mantic/main amd64 libsnappy1v5 amd64 1.1.9-3 [27.9 kB] Get:188 http://ftpmaster.internal/ubuntu mantic/universe amd64 libsnappy-jni amd64 1.1.8.3-1 [6756 B] Get:189 http://ftpmaster.internal/ubuntu mantic/universe amd64 libsnappy-java all 1.1.8.3-1 [93.9 kB] Get:190 http://ftpmaster.internal/ubuntu mantic/universe amd64 libxz-java all 1.9-1 [140 kB] Get:191 http://ftpmaster.internal/ubuntu mantic/universe amd64 libplexus-archiver-java all 4.6.1-1 [185 kB] Get:192 http://ftpmaster.internal/ubuntu mantic/universe amd64 libjsoup-java all 1.15.3-1 [407 kB] Get:193 http://ftpmaster.internal/ubuntu mantic/universe amd64 libwagon-http-java all 3.5.3-1 [48.8 kB] Get:194 http://ftpmaster.internal/ubuntu mantic/universe amd64 libistack-commons-java all 3.0.6-5 [145 kB] Get:195 http://ftpmaster.internal/ubuntu mantic/universe amd64 libcodemodel-java all 2.6+jaxb2.3.0.1-10.1 [164 kB] Get:196 http://ftpmaster.internal/ubuntu mantic/universe amd64 librelaxng-datatype-java all 1.0+ds1-3.1 [11.8 kB] Get:197 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amd64 libjcommander-java all 1.71-4 [68.5 kB] Get:254 http://ftpmaster.internal/ubuntu mantic/universe amd64 libla4j-java all 0.6.0-4 [224 kB] Get:255 http://ftpmaster.internal/ubuntu mantic/universe amd64 libpicard-java all 2.27.5+dfsg-2 [1711 kB] Get:256 http://ftpmaster.internal/ubuntu mantic/universe amd64 testng all 6.9.12-4 [773 kB] Get:257 http://ftpmaster.internal/ubuntu mantic/universe amd64 libyaml-snake-java all 1.33-2 [320 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 243 MB in 2s (132 MB/s) Selecting previously unselected package libpython3.11-minimal:amd64. (Reading database ... 12590 files and directories currently installed.) Preparing to unpack .../libpython3.11-minimal_3.11.4-1_amd64.deb ... Unpacking libpython3.11-minimal:amd64 (3.11.4-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.5.0-2_amd64.deb ... Unpacking libexpat1:amd64 (2.5.0-2) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../python3.11-minimal_3.11.4-1_amd64.deb ... Unpacking python3.11-minimal (3.11.4-1) ... Setting up libpython3.11-minimal:amd64 (3.11.4-1) ... Setting up libexpat1:amd64 (2.5.0-2) ... Setting up python3.11-minimal (3.11.4-1) ... Selecting previously unselected package python3-minimal. (Reading database ... 12904 files and directories currently installed.) Preparing to unpack .../python3-minimal_3.11.2-1_amd64.deb ... Unpacking python3-minimal (3.11.2-1) ... Selecting previously unselected package media-types. Preparing to unpack .../media-types_10.0.0_all.deb ... 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Setting up libjackson2-annotations-java (2.14.0-1) ... Setting up libdtd-parser-java (1.2-1) ... Setting up wdiff (1.2.2-5) ... Setting up libslf4j-java (1.7.32-1) ... Setting up libfile-which-perl (1.27-2) ... Setting up libplexus-utils2-java (3.4.2-1) ... Setting up libplexus-classworlds-java (2.7.0-1) ... Setting up libicu72:amd64 (72.1-3ubuntu2) ... Setting up libjsr305-java (0.1~+svn49-11) ... Setting up bsdextrautils (2.38.1-5ubuntu2) ... Setting up libgatk-native-bindings-java (1.0.0+dfsg-2) ... Setting up java-common (0.74) ... Setting up libdynaloader-functions-perl (0.003-3) ... Setting up libclass-method-modifiers-perl (2.15-1) ... Setting up libqdox2-java (2.0.3-1) ... Setting up libla4j-java (0.6.0-4) ... Setting up libaopalliance-java (20070526-7) ... Setting up libcommons-cli-java (1.5.0-1) ... Setting up libjheaps-java (0.14-2) ... Setting up libio-pty-perl (1:1.17-1) ... Setting up libmagic-mgc (1:5.44-3) ... Setting up libcommons-exec-java (1.3-2) ... Setting up libvecmath-java (1.5.2-7) ... Setting up libclone-perl:amd64 (0.46-1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglib2.0-0:amd64 (2.76.3-1ubuntu1) ... No schema files found: doing nothing. Setting up libgoogle-gson-java (2.10-1) ... Setting up libmjson-java (1.4.0-3) ... Setting up libhtml-tagset-perl (3.20-6) ... Setting up libpython3.11-stdlib:amd64 (3.11.4-1) ... Setting up libdebhelper-perl (13.11.4ubuntu3) ... Setting up libbrotli1:amd64 (1.0.9-2build8) ... Setting up gpgsm (2.2.40-1.1ubuntu1) ... Setting up liblwp-mediatypes-perl (6.04-2) ... Setting up libasm-java (9.4-1) ... Setting up libtry-tiny-perl (0.31-2) ... Setting up libmagic1:amd64 (1:5.44-3) ... Setting up perl-openssl-defaults:amd64 (7) ... Setting up liblog4j1.2-java (1.2.17-11) ... Setting up gettext-base (0.21-12) ... Setting up m4 (1.4.19-3) ... Setting up libencode-locale-perl (1.05-3) ... Setting up libplexus-component-annotations-java (2.1.1-1) ... Setting up libantlr4-runtime-java (4.7.2-5) ... Setting up file (1:5.44-3) ... Setting up libjson-simple-java (2.3.0-1) ... Setting up libsnappy1v5:amd64 (1.1.9-3) ... Setting up libexec-maven-plugin-java (3.1.0-1) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-1) ... Setting up libgeronimo-annotation-1.3-spec-java (1.3-1) ... Setting up libgeronimo-interceptor-3.0-spec-java (1.0.1-4fakesync) ... Setting up libasound2-data (1.2.9-1) ... Setting up patchutils (0.4.2-1build2) ... Setting up librhino-java (1.7.14-2.1) ... Setting up autotools-dev (20220109.1) ... Setting up libjaxen-java (1.1.6-4) ... Setting up libfreetype6:amd64 (2.12.1+dfsg-5) ... Setting up libmbedcrypto7:amd64 (2.28.3-1) ... Setting up libnspr4:amd64 (2:4.35-1.1) ... Setting up gnupg-l10n (2.2.40-1.1ubuntu1) ... Setting up libapache-pom-java (29-2) ... Setting up libavahi-common-data:amd64 (0.8-10ubuntu1) ... Setting up libatinject-jsr330-api-java (1.0+ds1-5) ... Setting up libdbus-1-3:amd64 (1.14.6-1ubuntu1) ... Setting up libplexus-interpolation-java (1.26-1) ... Setting up libitext5-java (5.5.13.3-2) ... Setting up libxml-commons-resolver1.1-java (1.2-11) ... Setting up libxz-java (1.9-1) ... Setting up libio-html-perl (1.004-3) ... Setting up autopoint (0.21-12) ... Setting up libb-hooks-op-check-perl:amd64 (0.22-2build1) ... Setting up fonts-dejavu-core (2.37-6) ... Setting up libipc-run-perl (20220807.0-1) ... Setting up libpcsclite1:amd64 (2.0.0-1) ... Setting up libmongodb-java (3.6.3-2) ... Setting up libjpeg-turbo8:amd64 (2.1.5-2ubuntu1) ... Setting up libactivation-java (1.2.0-2) ... Setting up libhamcrest-java (2.2-1) ... Setting up libbsh-java (2.0b4-20) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-1) ... Setting up autoconf (2.71-3) ... Setting up libapfloat-java (1.10.1-2) ... Setting up libtimedate-perl (2.3300-2) ... Setting up gpg-wks-server (2.2.40-1.1ubuntu1) ... Setting up libfreemarker-java (2.3.31-2) ... Setting up libjsoup-java (1.15.3-1) ... Setting up libcommons-math-java (2.2-8) ... Setting up libuchardet0:amd64 (0.0.7-1build2) ... Setting up libxml-commons-external-java (1.4.01-5) ... Setting up libxbean-reflect-java (4.5-8) ... Setting up libasound2:amd64 (1.2.9-1) ... Setting up librole-tiny-perl (2.002004-1) ... Setting up libjackson2-core-java (2.14.1-1) ... Setting up libsub-override-perl (0.09-4) ... Setting up libharfbuzz0b:amd64 (6.0.0+dfsg-3build1) ... Setting up ncbi-vdb-data (3.0.2+dfsg-2) ... Setting up netbase (6.4) ... Setting up libcommons-math3-java (3.6.1-3) ... Setting up libsub-quote-perl (2.006008-1ubuntu1) ... Setting up libclass-xsaccessor-perl (1.19-4build1) ... Setting up libhttpcore-java (4.4.16-1) ... Setting up libjoptsimple-java (5.0.4-4) ... Setting up ca-certificates-java (20230103ubuntu1) ... No JRE found. Skipping Java certificates setup. Setting up libxerces2-java (2.12.2-1) ... Setting up libfile-dirlist-perl (0.05-3) ... Setting up libfile-homedir-perl (1.006-2) ... Setting up librelaxng-datatype-java (1.0+ds1-3.1) ... Setting up libyaml-snake-java (1.33-2) ... Setting up libcdi-api-java (1.2-3) ... Setting up libelf1:amd64 (0.188-2.1) ... Setting up libsnappy-jni (1.1.8.3-1) ... Setting up libxml2:amd64 (2.9.14+dfsg-1.2) ... Setting up libldap2:amd64 (2.6.3+dfsg-1~exp1ubuntu2) ... Setting up liburi-perl (5.19-2) ... Setting up libargs4j-java (2.33-2) ... Setting up libfile-touch-perl (0.12-2) ... Setting up dctrl-tools (2.24-3build2) ... Setting up libpython3-stdlib:amd64 (3.11.2-1) ... Setting up libinchi1 (1.03+dfsg-4) ... Setting up gnupg-utils (2.2.40-1.1ubuntu1) ... Setting up libnaga-java (3.0+svn80-5) ... Setting up libnet-ssleay-perl:amd64 (1.92-2build2) ... Setting up libjpeg8:amd64 (8c-2ubuntu11) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libdom4j-java (2.1.3-2) ... Setting up libjaxb-api-java (2.3.1-1) ... Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up libwagon-provider-api-java (3.5.3-1) ... Setting up python3.11 (3.11.4-1) ... Setting up libhttp-date-perl (6.05-2) ... Setting up libdw1:amd64 (0.188-2.1) ... Setting up libhttp-cookiejar-perl (0.014-1) ... Setting up gettext (0.21-12) ... Setting up libfile-listing-perl (6.15-1) ... Setting up libmbedx509-1:amd64 (2.28.3-1) ... Setting up libplexus-languages-java (1.1.1-2) ... Setting up libmbedtls14:amd64 (2.28.3-1) ... Setting up libtool (2.4.7-5) ... Setting up fontconfig-config (2.14.1-4ubuntu1) ... Setting up libstax-ex-java (1.7.8-3) ... Setting up libmaven-parent-java (35-1) ... Setting up libcommons-parent-java (56-1) ... Setting up libavahi-common3:amd64 (0.8-10ubuntu1) ... Setting up libncbi-vdb3:amd64 (3.0.2+dfsg-2) ... Setting up libcommons-logging-java (1.2-3) ... Setting up libnet-http-perl (6.22-1) ... Setting up libsisu-inject-java (0.3.4-2) ... Setting up python3 (3.11.2-1) ... Setting up libnss3:amd64 (2:3.90-3) ... Setting up libciftools-java (5.0.1-1) ... Setting up libdevel-callchecker-perl:amd64 (0.008-2) ... Setting up libcommons-lang-java (2.6-10) ... Setting up libjackson2-databind-java (2.14.0-1) ... Setting up libplexus-cipher-java (2.0-1) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libcommons-jexl2-java (2.1.1-6) ... Setting up dirmngr (2.2.40-1.1ubuntu1) ... Created symlink /etc/systemd/user/sockets.target.wants/dirmngr.socket → /usr/lib/systemd/user/dirmngr.socket. Setting up libsisu-plexus-java (0.3.4-3) ... Setting up testng (6.9.12-4) ... Setting up libstreambuffer-java (1.5.4-1.1) ... Setting up libcommons-collections4-java (4.4-2) ... Setting up libcommons-lang3-java (3.12.0-2) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up libwww-robotrules-perl (6.02-1) ... Setting up librngom-java (2.3.0.1-10.1) ... Setting up libjni-inchi-jni (0.8+dfsg-7) ... Setting up dwz (0.15-1) ... Setting up libjgraphx-java (2.1.0.7-3) ... Setting up groff-base (1.22.4-10) ... Setting up libhtml-parser-perl:amd64 (3.81-1) ... Setting up debugedit (1:5.0-5) ... Setting up libplexus-sec-dispatcher-java (2.0-3) ... Setting up libsnappy-java (1.1.8.3-1) ... Setting up libfontconfig1:amd64 (2.14.1-4ubuntu1) ... Setting up libxsom-java (2.3.0.1-10.1) ... Setting up libcommons-codec-java (1.15-1) ... Setting up libavahi-client3:amd64 (0.8-10ubuntu1) ... Setting up libio-socket-ssl-perl (2.083-1) ... Setting up libhttp-message-perl (6.44-2ubuntu1) ... Setting up libncbi-ngs3:amd64 (3.0.3+dfsg-5ubuntu1) ... Setting up libhttp-negotiate-perl (6.01-2) ... Setting up libngs-jni:amd64 (3.0.3+dfsg-5ubuntu1) ... Setting up gpg-wks-client (2.2.40-1.1ubuntu1) ... Setting up libcommons-compress-java (1.23.0-1) ... Setting up libhttp-cookies-perl (6.10-1) ... Setting up libcommons-io-java (2.11.0-2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libhtml-tree-perl (5.07-3) ... Setting up libparams-classify-perl:amd64 (0.015-2build2) ... Setting up man-db (2.11.2-2) ... Not building database; man-db/auto-update is not 'true'. Created symlink /etc/systemd/system/timers.target.wants/man-db.timer → /lib/systemd/system/man-db.timer. Setting up libmaven-resolver-java (1.6.3-1) ... Setting up libmodule-runtime-perl (0.016-2) ... Setting up libcups2:amd64 (2.4.5-0ubuntu2) ... Setting up libhttpclient-java (4.5.14-1) ... Setting up gnupg (2.2.40-1.1ubuntu1) ... Setting up liblightcouch-java (0.2.0-1) ... Setting up libwagon-http-java (3.5.3-1) ... Setting up libmaven-shared-utils-java (3.3.4-1) ... Setting up libfastinfoset-java (1.2.12-3) ... Setting up libngs-java:amd64 (3.0.3+dfsg-5ubuntu1) ... Setting up libhtsjdk-java (3.0.5+dfsg-1) ... Setting up libplexus-io-java (3.3.1-2) ... Setting up libimport-into-perl (1.002005-2) ... Setting up libmoo-perl (2.005005-1) ... Setting up liblog4j2-java (2.19.0-2) ... Setting up debhelper (13.11.4ubuntu3) ... Setting up openjdk-17-jre-headless:amd64 (17.0.7+7~us1-0ubuntu1) ... update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up libplexus-archiver-java (4.6.1-1) ... Setting up libbarclay-java (5.0.0+dfsg-1) ... Setting up libgkl-java (0.8.10+dfsg-3) ... Setting up libmaven-archiver-java (3.6.0-1) ... Setting up libpicard-java (2.27.5+dfsg-2) ... Setting up liblwp-protocol-https-perl (6.10-1) ... Setting up liberror-prone-java (2.18.0-1) ... Setting up libwww-perl (6.71-1) ... Setting up devscripts (2.23.5) ... Setting up libguava-java (32.0.1-1) ... Setting up javahelper (0.78) ... Setting up libplexus-container-default-java (2.1.1-1) ... Setting up libguice-java (4.2.3-2) ... Setting up libmaven3-core-java (3.8.7-1) ... Setting up libmaven-shared-incremental-java (1.1-3) ... Setting up libmaven-shared-io-java (3.0.0-4) ... Setting up libplexus-compiler-java (2.12.1-1) ... Setting up libmaven-compiler-plugin-java (3.10.1-2) ... Setting up libjni-inchi-java (0.8+dfsg-7) ... Setting up libmaven-file-management-java (3.0.0-1) ... Setting up libjmol-java (14.32.83+dfsg-2) ... Setting up libmaven-jar-plugin-java (3.3.0-2) ... Setting up libcommons-text-java (1.10.0-1) ... Setting up libmsgpack-java (0.9.3-1) ... Setting up libmmtf-java (1.0.11-1) ... Setting up libjgrapht-java (1.5.2-1) ... Processing triggers for libc-bin (2.37-0ubuntu2) ... Processing triggers for systemd (252.5-2ubuntu3) ... Processing triggers for ca-certificates-java (20230103ubuntu1) ... Adding debian:ACCVRAIZ1.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem Adding debian:ANF_Secure_Server_Root_CA.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:AffirmTrust_Networking.pem Adding debian:AffirmTrust_Premium.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068_2.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:Certainly_Root_E1.pem Adding debian:Certainly_Root_R1.pem Adding debian:Certigna.pem Adding debian:Certigna_Root_CA.pem Adding debian:Certum_EC-384_CA.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:Certum_Trusted_Root_CA.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:D-TRUST_BR_Root_CA_1_2020.pem Adding debian:D-TRUST_EV_Root_CA_1_2020.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:DigiCert_TLS_ECC_P384_Root_G5.pem Adding debian:DigiCert_TLS_RSA4096_Root_G5.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:E-Tugra_Certification_Authority.pem Adding debian:E-Tugra_Global_Root_CA_ECC_v3.pem Adding debian:E-Tugra_Global_Root_CA_RSA_v3.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:Entrust_Root_Certification_Authority_-_G4.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:GLOBALTRUST_2020.pem Adding debian:GTS_Root_R1.pem Adding debian:GTS_Root_R2.pem Adding debian:GTS_Root_R3.pem Adding debian:GTS_Root_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:GlobalSign_Root_E46.pem Adding debian:GlobalSign_Root_R46.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:HARICA_TLS_ECC_Root_CA_2021.pem Adding debian:HARICA_TLS_RSA_Root_CA_2021.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:HiPKI_Root_CA_-_G1.pem Adding debian:Hongkong_Post_Root_CA_1.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:ISRG_Root_X1.pem Adding debian:ISRG_Root_X2.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:Izenpe.com.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem Adding debian:NAVER_Global_Root_Certification_Authority.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:SecureSign_RootCA11.pem Adding debian:SecureTrust_CA.pem Adding debian:Secure_Global_CA.pem Adding debian:Security_Communication_ECC_RootCA1.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:Security_Communication_RootCA3.pem Adding debian:Security_Communication_Root_CA.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:SwissSign_Silver_CA_-_G2.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:Telia_Root_CA_v2.pem Adding debian:Trustwave_Global_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem Adding debian:TunTrust_Root_CA.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:certSIGN_Root_CA_G2.pem Adding debian:e-Szigno_Root_CA_2017.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:emSign_Root_CA_-_G1.pem Adding debian:vTrus_ECC_Root_CA.pem Adding debian:vTrus_Root_CA.pem done. Setting up openjdk-17-jdk-headless:amd64 (17.0.7+7~us1-0ubuntu1) ... update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jar to provide /usr/bin/jar (jar) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jarsigner to provide /usr/bin/jarsigner (jarsigner) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/javac to provide /usr/bin/javac (javac) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/javadoc to provide /usr/bin/javadoc (javadoc) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/javap to provide /usr/bin/javap (javap) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jcmd to provide /usr/bin/jcmd (jcmd) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jdb to provide /usr/bin/jdb (jdb) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jdeprscan to provide /usr/bin/jdeprscan (jdeprscan) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jdeps to provide /usr/bin/jdeps (jdeps) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jfr to provide /usr/bin/jfr (jfr) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jimage to provide /usr/bin/jimage (jimage) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jinfo to provide /usr/bin/jinfo (jinfo) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jlink to provide /usr/bin/jlink (jlink) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jmap to provide /usr/bin/jmap (jmap) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jmod to provide /usr/bin/jmod (jmod) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jps to provide /usr/bin/jps (jps) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jrunscript to provide /usr/bin/jrunscript (jrunscript) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jshell to provide /usr/bin/jshell (jshell) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jstack to provide /usr/bin/jstack (jstack) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jstat to provide /usr/bin/jstat (jstat) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jstatd to provide /usr/bin/jstatd (jstatd) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/serialver to provide /usr/bin/serialver (serialver) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jhsdb to provide /usr/bin/jhsdb (jhsdb) in auto mode Setting up ant (1.10.13-1) ... Setting up junit4 (4.13.2-3) ... Setting up default-jre-headless (2:1.17-74) ... Setting up ant-optional (1.10.13-1) ... Setting up default-jdk-headless (2:1.17-74) ... Setting up libistack-commons-java (3.0.6-5) ... Setting up libcodemodel-java (2.6+jaxb2.3.0.1-10.1) ... Setting up libtxw2-java (2.3.0.1-10.1) ... Setting up libjaxb-java (2.3.0.1-10.1) ... Setting up libbiojava6-java (6.1.0+dfsg-4) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in all) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.4.0-152-generic #169-Ubuntu SMP Tue Jun 6 22:23:09 UTC 2023 amd64 (x86_64) Toolchain package versions: binutils_2.40.50.20230622-1ubuntu1 dpkg-dev_1.21.22ubuntu1 g++-12_12.3.0-3ubuntu1 gcc-12_12.3.0-3ubuntu1 libc6-dev_2.37-0ubuntu2 libstdc++-12-dev_12.3.0-3ubuntu1 libstdc++6_13.1.0-6ubuntu1 linux-libc-dev_6.3.0-7.7 Package versions: adduser_3.134ubuntu1 advancecomp_2.5-1 ant_1.10.13-1 ant-optional_1.10.13-1 apt_2.7.1 autoconf_2.71-3 automake_1:1.16.5-1.3 autopoint_0.21-12 autotools-dev_20220109.1 base-files_13ubuntu1 base-passwd_3.6.1 bash_5.2.15-2ubuntu1 binutils_2.40.50.20230622-1ubuntu1 binutils-common_2.40.50.20230622-1ubuntu1 binutils-x86-64-linux-gnu_2.40.50.20230622-1ubuntu1 bsdextrautils_2.38.1-5ubuntu2 bsdutils_1:2.38.1-5ubuntu2 build-essential_12.9ubuntu3 bzip2_1.0.8-5build1 ca-certificates_20230311ubuntu1 ca-certificates-java_20230103ubuntu1 coreutils_9.1-1ubuntu2 cpp_4:12.2.0-3ubuntu1 cpp-12_12.3.0-3ubuntu1 dash_0.5.12-2ubuntu1 dctrl-tools_2.24-3build2 debconf_1.5.82 debhelper_13.11.4ubuntu3 debianutils_5.7-0.4 debugedit_1:5.0-5 default-jdk-headless_2:1.17-74 default-jre-headless_2:1.17-74 devscripts_2.23.5 dh-autoreconf_20 dh-strip-nondeterminism_1.13.1-1 diffutils_1:3.8-4 dirmngr_2.2.40-1.1ubuntu1 dpkg_1.21.22ubuntu1 dpkg-dev_1.21.22ubuntu1 dwz_0.15-1 e2fsprogs_1.47.0-1ubuntu1 fakeroot_1.31-1.2 file_1:5.44-3 findutils_4.9.0-4ubuntu1 fontconfig-config_2.14.1-4ubuntu1 fonts-dejavu-core_2.37-6 g++_4:12.2.0-3ubuntu1 g++-12_12.3.0-3ubuntu1 gcc_4:12.2.0-3ubuntu1 gcc-12_12.3.0-3ubuntu1 gcc-12-base_12.3.0-3ubuntu1 gcc-13-base_13.1.0-6ubuntu1 gettext_0.21-12 gettext-base_0.21-12 gnupg_2.2.40-1.1ubuntu1 gnupg-l10n_2.2.40-1.1ubuntu1 gnupg-utils_2.2.40-1.1ubuntu1 gpg_2.2.40-1.1ubuntu1 gpg-agent_2.2.40-1.1ubuntu1 gpg-wks-client_2.2.40-1.1ubuntu1 gpg-wks-server_2.2.40-1.1ubuntu1 gpgconf_2.2.40-1.1ubuntu1 gpgsm_2.2.40-1.1ubuntu1 gpgv_2.2.40-1.1ubuntu1 grep_3.8-5 groff-base_1.22.4-10 gzip_1.12-1ubuntu1 hostname_3.23+nmu1ubuntu1 init_1.65.2 init-system-helpers_1.65.2 intltool-debian_0.35.0+20060710.6 java-common_0.74 javahelper_0.78 junit4_4.13.2-3 libacl1_2.3.1-3 libactivation-java_1.2.0-2 libantlr4-runtime-java_4.7.2-5 libaopalliance-java_20070526-7 libapache-pom-java_29-2 libapfloat-java_1.10.1-2 libapparmor1_3.0.8-1ubuntu3 libapt-pkg6.0_2.7.1 libarchive-zip-perl_1.68-1 libargon2-1_0~20190702+dfsg-3 libargs4j-java_2.33-2 libasan8_13.1.0-6ubuntu1 libasm-java_9.4-1 libasound2_1.2.9-1 libasound2-data_1.2.9-1 libassuan0_2.5.5-5 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libsmartcols1_2.38.1-5ubuntu2 libsnappy-java_1.1.8.3-1 libsnappy-jni_1.1.8.3-1 libsnappy1v5_1.1.9-3 libsqlite3-0_3.42.0-1 libss2_1.47.0-1ubuntu1 libssl3_3.0.9-1ubuntu1 libstax-ex-java_1.7.8-3 libstdc++-12-dev_12.3.0-3ubuntu1 libstdc++6_13.1.0-6ubuntu1 libstreambuffer-java_1.5.4-1.1 libsub-override-perl_0.09-4 libsub-quote-perl_2.006008-1ubuntu1 libsystemd-shared_252.5-2ubuntu3 libsystemd0_252.5-2ubuntu3 libtasn1-6_4.19.0-2 libtimedate-perl_2.3300-2 libtinfo6_6.4-4 libtirpc-common_1.3.3+ds-1 libtirpc-dev_1.3.3+ds-1 libtirpc3_1.3.3+ds-1 libtool_2.4.7-5 libtry-tiny-perl_0.31-2 libtsan2_13.1.0-6ubuntu1 libtxw2-java_2.3.0.1-10.1 libubsan1_13.1.0-6ubuntu1 libuchardet0_0.0.7-1build2 libudev1_252.5-2ubuntu3 libunistring2_1.0-2 liburi-perl_5.19-2 libuuid1_2.38.1-5ubuntu2 libvecmath-java_1.5.2-7 libwagon-http-java_3.5.3-1 libwagon-provider-api-java_3.5.3-1 libwww-perl_6.71-1 libwww-robotrules-perl_6.02-1 libxbean-reflect-java_4.5-8 libxerces2-java_2.12.2-1 libxml-commons-external-java_1.4.01-5 libxml-commons-resolver1.1-java_1.2-11 libxml2_2.9.14+dfsg-1.2 libxsom-java_2.3.0.1-10.1 libxxhash0_0.8.1-1 libxz-java_1.9-1 libyaml-snake-java_1.33-2 libzstd1_1.5.4+dfsg2-5 linux-libc-dev_6.3.0-7.7 lockfile-progs_0.1.19build1 login_1:4.13+dfsg1-1ubuntu1 logsave_1.47.0-1ubuntu1 lsb-base_11.6 lto-disabled-list_41 m4_1.4.19-3 make_4.3-4.1build1 man-db_2.11.2-2 mawk_1.3.4.20230525-1 media-types_10.0.0 mount_2.38.1-5ubuntu2 ncbi-vdb-data_3.0.2+dfsg-2 ncurses-base_6.4-4 ncurses-bin_6.4-4 netbase_6.4 openjdk-17-jdk-headless_17.0.7+7~us1-0ubuntu1 openjdk-17-jre-headless_17.0.7+7~us1-0ubuntu1 openssl_3.0.9-1ubuntu1 optipng_0.7.7-2build1 passwd_1:4.13+dfsg1-1ubuntu1 patch_2.7.6-7build2 patchutils_0.4.2-1build2 perl_5.36.0-7ubuntu1 perl-base_5.36.0-7ubuntu1 perl-modules-5.36_5.36.0-7ubuntu1 perl-openssl-defaults_7 pinentry-curses_1.2.1-1ubuntu1 pkgbinarymangler_153 po-debconf_1.0.21+nmu1 policyrcd-script-zg2_0.1-3.1 procps_2:4.0.3-1ubuntu1 python3_3.11.2-1 python3-minimal_3.11.2-1 python3.11_3.11.4-1 python3.11-minimal_3.11.4-1 readline-common_8.2-1.3 rpcsvc-proto_1.4.2-0ubuntu6 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-1 sensible-utils_0.0.20 systemd_252.5-2ubuntu3 systemd-sysv_252.5-2ubuntu3 sysvinit-utils_3.06-4ubuntu1 tar_1.34+dfsg-1.2ubuntu1 testng_6.9.12-4 tzdata_2023c-4exp1ubuntu1 ubuntu-keyring_2021.03.26 usrmerge_35ubuntu1 util-linux_2.38.1-5ubuntu2 util-linux-extra_2.38.1-5ubuntu2 wdiff_1.2.2-5 xz-utils_5.4.1-0.2 zlib1g_1:1.2.13.dfsg-1ubuntu4 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: drop-seq Binary: drop-seq-tools, drop-seq-testdata Architecture: all Version: 2.5.3+dfsg-1 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Pierre Gruet Homepage: https://github.com/broadinstitute/Drop-seq/ Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/drop-seq Vcs-Git: https://salsa.debian.org/med-team/drop-seq.git Testsuite: autopkgtest Testsuite-Triggers: samtools Build-Depends: debhelper-compat (= 13), javahelper, default-jdk-headless Build-Depends-Indep: libbiojava6-java, libhtsjdk-java, libpicard-java, libcommons-collections4-java, libcommons-lang-java, libguava-java, libyaml-snake-java, libla4j-java, libjcommander-java , junit4 , testng Package-List: drop-seq-testdata deb science optional arch=all drop-seq-tools deb science optional arch=all Checksums-Sha1: 21a7affa29648d03381db313eba4fed67597b103 141176364 drop-seq_2.5.3+dfsg.orig.tar.xz 842e01ddea14d78786694f0821570654f96316d4 63396 drop-seq_2.5.3+dfsg-1.debian.tar.xz Checksums-Sha256: a664ffbb489471668cdce54575ea42735bf1588d8c15a9eac54c6e1f6ccfd821 141176364 drop-seq_2.5.3+dfsg.orig.tar.xz a36916bf47f04f4ea4dea080480049d3e4ccd01fbc6e11374f8e2d518275448b 63396 drop-seq_2.5.3+dfsg-1.debian.tar.xz Files: c35fc53e9a57a30e0bbee6c06b716ad9 141176364 drop-seq_2.5.3+dfsg.orig.tar.xz b2639de977d0eb92e671b5cc63168bfb 63396 drop-seq_2.5.3+dfsg-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEM8soQxPpC9J9y0UjYAMWptwndHYFAmSYPP4ACgkQYAMWptwn dHaKiA/8CDW4uZuGNTk9ZNCSGfBtqOIsSpvcpE7Eq3CHDtmo3C4i35cFWcX2/DnU mYT6exK8pnVRwohgLEx01ElMuVRDH4K2gBSLK8mbyfvF4SHs34KgiR9sKyHes6O6 4FDsi45c/hu+j7SAR1QRPAr6cQQnc+0hjV1OeMeylVN4fyzbMcm1XNROeXmivdcZ aZhGKNi9NL97mjBQyh08i1p6TiC0lRHPqXpzmyFHN6AI0uSUzVq3ZnzTUjSYuHmc ZRnCkfO6Cc3BlcBBy5PKoA5+OITJSQmXtuhFnssFx17Ufuf0RqDkcnBmqDIASXSA 0yAVnHyyPgtsOJzIebgp9QV2kvNVMlKiI+jELuO0vFmI2d8EDy9erykswOIqphpl SqXcmqaEvlvTbg9CPgKaNRgqY3Vc8pc3p8CQiZosaTwExCoS4IghTZGoOlxKYOFm KiC0IQ9BPG3zMVhWtv/DAFHzHtH7USI5iA2mjTSCuie2RMVJObEJia4n5yKDZLB6 D75YqgpGH01MonI4En6Tp6PQx1Xqh7XZKBA5wG4G9lAIQNdn3ghXE4Av2ytDuq7B erptneThDZN5nsJG550wck1owWbhCGXwlVpK7wxTb7noBgMNGsNbS6E/pA8d2hHz Rd1uJtfwARfJvq9bR3R3+yxh9HWn11fsBTWZadalU/aRMxs+CYU= =2u2k -----END PGP SIGNATURE----- gpgv: Signature made Sun Jun 25 13:11:26 2023 UTC gpgv: using RSA key 33CB284313E90BD27DCB4523600316A6DC277476 gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./drop-seq_2.5.3+dfsg-1.dsc: no acceptable signature found dpkg-source: info: extracting drop-seq in /<> dpkg-source: info: unpacking drop-seq_2.5.3+dfsg.orig.tar.xz dpkg-source: info: unpacking drop-seq_2.5.3+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying no_git.patch dpkg-source: info: applying debian_packaged_libs.patch dpkg-source: info: applying link_excluded_file.patch dpkg-source: info: applying paths_in_scripts.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-26337829 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-26337829 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-26337829 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 drop-seq dpkg-buildpackage: info: source version 2.5.3+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --with javahelper debian/rules override_dh_auto_clean make[1]: Entering directory '/<>' rm -Rf lib make[1]: Leaving directory '/<>' jh_clean dh_clean debian/rules binary dh binary --with javahelper dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure make[1]: Entering directory '/<>' dh_auto_configure mkdir -p lib/test ln -s /usr/share/java/commons-collections4.jar lib/commons-collections4.jar ln -s /usr/share/java/biojava6-alignment.jar lib/biojava6-alignment.jar ln -s /usr/share/java/biojava6-core.jar lib/biojava6-core.jar ln -s /usr/share/java/commons-io.jar lib/commons-io.jar ln -s /usr/share/java/commons-lang.jar lib/commons-lang.jar ln -s /usr/share/java/commons-math3.jar lib/commons-math3.jar ln -s /usr/share/java/htsjdk.jar lib/htsjdk.jar ln -s /usr/share/java/la4j.jar lib/la4j.jar ln -s /usr/share/java/picard.jar lib/picard.jar ln -s /usr/share/java/snakeyaml.jar lib/snakeyaml.jar ln -s /usr/share/java/testng.jar lib/test/testng.jar ln -s /usr/share/java/junit4.jar lib/test/junit.jar make[1]: Leaving directory '/<>' jh_linkjars dh_auto_build ant -propertyfile ./debian/ant.properties -Duser.name debian Buildfile: /<>/build.xml compile-src: [mkdir] Created dir: /<>/classes [javac] Compiling 320 source files to /<>/classes [javac] /<>/src/java/org/broadinstitute/dropseqrna/annotation/AnnotationUtils.java:61: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] functionScores.put(LocusFunction.CODING, new Integer (5)); [javac] ^ [javac] /<>/src/java/org/broadinstitute/dropseqrna/annotation/AnnotationUtils.java:62: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] functionScores.put(LocusFunction.UTR, new Integer (4)); [javac] ^ [javac] /<>/src/java/org/broadinstitute/dropseqrna/annotation/AnnotationUtils.java:63: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] functionScores.put(LocusFunction.INTRONIC, new Integer (3)); [javac] ^ [javac] /<>/src/java/org/broadinstitute/dropseqrna/annotation/AnnotationUtils.java:64: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] functionScores.put(LocusFunction.RIBOSOMAL, new Integer (2)); [javac] ^ [javac] /<>/src/java/org/broadinstitute/dropseqrna/annotation/AnnotationUtils.java:65: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] functionScores.put(LocusFunction.INTERGENIC, new Integer (1)); [javac] ^ [javac] /<>/src/java/org/broadinstitute/dropseqrna/annotation/GTFParser.java:131: warning: [removal] Integer(String) in Integer has been deprecated and marked for removal [javac] geneVersion = new Integer(geneVersionString); [javac] ^ [javac] /<>/src/java/org/broadinstitute/dropseqrna/annotation/ReduceGtf.java:175: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] String [] line={r.getChromosome(),new Integer(r.getStart()).toString(), new Integer(r.getEnd()).toString(), r.getStrandAsString(), r.getGeneName(), r.getGeneID(), [javac] ^ [javac] /<>/src/java/org/broadinstitute/dropseqrna/annotation/ReduceGtf.java:175: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] String [] line={r.getChromosome(),new Integer(r.getStart()).toString(), new Integer(r.getEnd()).toString(), r.getStrandAsString(), r.getGeneName(), r.getGeneID(), [javac] ^ [javac] /<>/src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/SNPBasePileUp.java:105: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] double [] q = this.qualities.stream().mapToDouble(x -> new Double(x)).toArray(); [javac] ^ [javac] /<>/src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/SummarizeUMIBaseQualities.java:143: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] baseQuals.increment(new Integer(qual)); [javac] ^ [javac] /<>/src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/CellCollectionSampleLikelihoodCollection.java:291: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] List mixture = Arrays.asList(new Double(homRefCount), new Double(hetCount), new Double(homVarCount)); [javac] ^ [javac] /<>/src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/CellCollectionSampleLikelihoodCollection.java:291: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] List mixture = Arrays.asList(new Double(homRefCount), new Double(hetCount), new Double(homVarCount)); [javac] ^ [javac] /<>/src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/CellCollectionSampleLikelihoodCollection.java:291: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] List mixture = Arrays.asList(new Double(homRefCount), new Double(hetCount), new Double(homVarCount)); [javac] ^ [javac] /<>/src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/SampleGenotypeProbabilities.java:115: warning: [removal] Character(char) in Character has been deprecated and marked for removal [javac] result.increment(new Character (StringUtil.byteToChar(b))); [javac] ^ [javac] /<>/src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/multisample/GenotypeMatrix.java:215: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] double fracHomRef=(double) counter.getCountForKey(new Integer (0)) / (double) counter.getTotalCount(); [javac] ^ [javac] /<>/src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/multisample/GenotypeMatrix.java:216: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] double fracHet=(double) counter.getCountForKey(new Integer (1)) / (double) counter.getTotalCount(); [javac] ^ [javac] /<>/src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/multisample/GenotypeMatrix.java:217: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] double fracHomVar=(double) counter.getCountForKey(new Integer (2)) / (double) counter.getTotalCount(); [javac] ^ [javac] /<>/src/java/org/broadinstitute/dropseqrna/sbarro/FilterValidRabiesBarcodes.java:164: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] return new Integer (v.length()); [javac] ^ [javac] /<>/src/java/org/broadinstitute/dropseqrna/utils/BaseQualityFilter.java:76: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] data.add(new Integer(0)); [javac] ^ [javac] /<>/src/java/org/broadinstitute/dropseqrna/utils/DownsampleBamByTag.java:350: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] if (index.contains(new Integer(recsSeen))) [javac] ^ [javac] /<>/src/java/org/broadinstitute/dropseqrna/utils/editdistance/BarcodeWithCount.java:79: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] final Integer v1 = new Integer(f1.getCount()); [javac] ^ [javac] /<>/src/java/org/broadinstitute/dropseqrna/utils/editdistance/BarcodeWithCount.java:80: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] final Integer v2 = new Integer(f2.getCount()); [javac] ^ [javac] warning: Implicitly compiled files were not subject to annotation processing. [javac] Use -proc:none to disable annotation processing or -implicit to specify a policy for implicit compilation. [javac] Note: Some input files use or override a deprecated API. [javac] Note: Recompile with -Xlint:deprecation for details. [javac] Note: Some input files use unchecked or unsafe operations. [javac] Note: Recompile with -Xlint:unchecked for details. [javac] 23 warnings compile-tests: [mkdir] Created dir: /<>/testclasses [javac] Compiling 160 source files to /<>/testclasses [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/SingleCellRnaSeqMetricsCollectorTest.java:83: warning: [removal] Long(long) in Long has been deprecated and marked for removal [javac] Assert.assertEquals(new Long (761), m.RIBOSOMAL_BASES); [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/SingleCellRnaSeqMetricsCollectorTest.java:92: warning: [removal] Long(long) in Long has been deprecated and marked for removal [javac] Assert.assertEquals(new Long (338), m.RIBOSOMAL_BASES); [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:199: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] Double [] m = {new Double(2), new Double(1), new Double(1)}; [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:199: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] Double [] m = {new Double(2), new Double(1), new Double(1)}; [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:199: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] Double [] m = {new Double(2), new Double(1), new Double(1)}; [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:207: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] Byte [] q = {new Byte ((byte)10), new Byte ((byte)10)}; [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:207: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] Byte [] q = {new Byte ((byte)10), new Byte ((byte)10)}; [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:220: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] Double [] m = {new Double(2), new Double(1), new Double(1)}; [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:220: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] Double [] m = {new Double(2), new Double(1), new Double(1)}; [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:220: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] Double [] m = {new Double(2), new Double(1), new Double(1)}; [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:227: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] List qualities =Collections.singletonList(new Byte ((byte)10)); [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:352: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] r.add(new Byte((byte)c)); [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:429: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] { new Byte((byte) 8), new Double(0.1584893) }, [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:429: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] { new Byte((byte) 8), new Double(0.1584893) }, [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:430: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] { new Byte((byte) 10), new Double(0.1) }, [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:430: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] { new Byte((byte) 10), new Double(0.1) }, [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:431: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] { new Byte((byte) 13), new Double(0.05011872) }, [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:431: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] { new Byte((byte) 13), new Double(0.05011872) }, [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:432: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] { new Byte((byte) 20), new Double(0.01) }, [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:432: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] { new Byte((byte) 20), new Double(0.01) }, [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:433: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] { new Byte((byte) 27), new Double(0.001995262) }, [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:433: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] { new Byte((byte) 27), new Double(0.001995262) }, [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:434: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] { new Byte((byte) 30), new Double(0.001) }, [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:434: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] { new Byte((byte) 30), new Double(0.001) }, [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:435: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] { new Byte((byte) 32), new Double(0.0006309573) }, [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:435: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] { new Byte((byte) 32), new Double(0.0006309573) }, [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:436: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] { new Byte((byte) 37), new Double(0.0001995262) }, [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:436: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] { new Byte((byte) 37), new Double(0.0001995262) }, [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:437: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] { new Byte((byte) 40), new Double(0.0001) }, [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:437: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] { new Byte((byte) 40), new Double(0.0001) }, [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:438: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] { new Byte((byte) 50), new Double(0.00001) }, [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:438: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] { new Byte((byte) 50), new Double(0.00001) }, [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:439: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] { new Byte((byte) 60), new Double(0.000001) } [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:439: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] { new Byte((byte) 60), new Double(0.000001) } [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/SampleGenotypeProbabilitiesTest.java:93: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] Assert.assertEquals(new Byte((byte) 8), qualResult2.get(0)); [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/SampleGenotypeProbabilitiesTest.java:128: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] Assert.assertEquals(new Byte((byte) 8), qualResult2.get(0)); [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/SampleGenotypeProbabilitiesTest.java:163: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] Assert.assertEquals(new Byte((byte) 31), qualResult2.get(0)); [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/SampleGenotypeProbabilitiesTest.java:164: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] Assert.assertEquals(new Byte((byte) 5), qualResult2.get(1)); [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/beadsynthesis/BeadSynthesisErrorDataTest.java:178: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] BeadSynthesisErrorType t= d.getErrorType(threshold, dp, new Integer (1)); [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/beadsynthesis/BeadSynthesisErrorDataTest.java:187: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] t= d.getErrorType(threshold, dp, new Integer (1)); [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/beadsynthesis/IntendedSequenceBuilderTest.java:65: warning: [removal] Character(char) in Character has been deprecated and marked for removal [javac] Assert.assertEquals(result.getDeletedBase(), new Character ('A')); [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/beadsynthesis/IntendedSequenceBuilderTest.java:66: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] Assert.assertEquals(result.getDeletedBasePos(), new Integer (5)); [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/beadsynthesis/IntendedSequenceBuilderTest.java:70: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] Assert.assertEquals(result.getIntendedSequenceUMIs(), new Integer(6130)); [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/beadsynthesis/IntendedSequenceBuilderTest.java:142: warning: [removal] Character(char) in Character has been deprecated and marked for removal [javac] Assert.assertEquals(result.getDeletedBase(), new Character ('A')); [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/beadsynthesis/IntendedSequenceBuilderTest.java:143: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] Assert.assertEquals(result.getDeletedBasePos(), new Integer (12)); [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/beadsynthesis/IntendedSequenceBuilderTest.java:147: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] Assert.assertEquals(result.getIntendedSequenceUMIs(), new Integer(50)); [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/censusseq/SNPGenomicBasePileUpTest.java:97: warning: [removal] Character(char) in Character has been deprecated and marked for removal [javac] expectedBases.add(new Character ('T')); [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/censusseq/SNPGenomicBasePileUpTest.java:102: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] expectedQuals.add(new Byte ((byte)30)); [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/censusseq/SNPGenomicBasePileUpTest.java:122: warning: [removal] Character(char) in Character has been deprecated and marked for removal [javac] expectedBases.add(new Character ('T')); [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/censusseq/SNPGenomicBasePileUpTest.java:123: warning: [removal] Character(char) in Character has been deprecated and marked for removal [javac] expectedBases.add(new Character ('A')); [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/censusseq/SNPGenomicBasePileUpTest.java:128: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] expectedQuals.add(new Byte ((byte)28)); [javac] ^ [javac] /<>/src/tests/java/org/broadinstitute/dropseqrna/censusseq/SNPGenomicBasePileUpTest.java:129: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] expectedQuals.add(new Byte ((byte)28)); [javac] ^ [javac] Note: Some input files use or override a deprecated API. [javac] Note: Recompile with -Xlint:deprecation for details. [javac] Note: Some input files use unchecked or unsafe operations. [javac] Note: Recompile with -Xlint:unchecked for details. [javac] 52 warnings compile: jar-executable: [mkdir] Created dir: /<>/dist [jar] Building jar: /<>/dist/dropseq.jar all: BUILD SUCCESSFUL Total time: 6 seconds dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install dh_install jh_installjavadoc dh_installdocs dh_installchangelogs debian/rules override_dh_installman make[1]: Entering directory '/<>' dh_installman --language=C make[1]: Leaving directory '/<>' dh_lintian dh_perl dh_link jh_installlibs jh_classpath jh_manifest jh_exec jh_depends dh_strip_nondeterminism dh_compress debian/rules override_dh_fixperms make[1]: Entering directory '/<>' dh_fixperms find debian/drop-seq-testdata/usr/share -type f -exec chmod -x \{\} \; make[1]: Leaving directory '/<>' dh_missing dh_installdeb dh_gencontrol dh_md5sums dh_builddeb INFO: pkgstriptranslations version 153 INFO: pkgstriptranslations version 153 pkgstriptranslations: processing drop-seq-testdata (in debian/drop-seq-testdata); do_strip: , oemstrip: pkgstriptranslations: processing drop-seq-tools (in debian/drop-seq-tools); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/drop-seq-testdata/DEBIAN/control, package drop-seq-testdata, directory debian/drop-seq-testdata INFO: pkgstripfiles: waiting for lock (drop-seq-testdata) ... pkgstripfiles: processing control file: debian/drop-seq-tools/DEBIAN/control, package drop-seq-tools, directory debian/drop-seq-tools pkgstripfiles: Truncating usr/share/doc/drop-seq-tools/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 4 cpus) for package drop-seq-tools ... pkgstripfiles: No PNG files. dpkg-deb: building package 'drop-seq-tools' in '../drop-seq-tools_2.5.3+dfsg-1_all.deb'. pkgstripfiles: Truncating usr/share/doc/drop-seq-testdata/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 4 cpus) for package drop-seq-testdata ... pkgstripfiles: No PNG files. dpkg-deb: building package 'drop-seq-testdata' in '../drop-seq-testdata_2.5.3+dfsg-1_all.deb'. dpkg-genbuildinfo --build=binary -O../drop-seq_2.5.3+dfsg-1_amd64.buildinfo dpkg-genchanges --build=binary -mLaunchpad Build Daemon -O../drop-seq_2.5.3+dfsg-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2023-06-25T17:16:00Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ drop-seq_2.5.3+dfsg-1_amd64.changes: ------------------------------------ Format: 1.8 Date: Sun, 25 Jun 2023 14:46:21 +0200 Source: drop-seq Binary: drop-seq-testdata drop-seq-tools Built-For-Profiles: noudeb Architecture: all Version: 2.5.3+dfsg-1 Distribution: mantic-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Pierre Gruet Description: drop-seq-testdata - analyzing Drop-seq data (testdata) drop-seq-tools - analyzing Drop-seq data Changes: drop-seq (2.5.3+dfsg-1) unstable; urgency=medium . * New upstream version 2.5.3+dfsg Checksums-Sha1: e66f26a27271cc09e6b1c2563f11343e4deb7216 141435730 drop-seq-testdata_2.5.3+dfsg-1_all.deb ca55dd1f4f07dd89c04984dd5ad96ac959d531e8 562600 drop-seq-tools_2.5.3+dfsg-1_all.deb 3dd0587bdf43b771a3776a4866383fb61f2ee426 14242 drop-seq_2.5.3+dfsg-1_amd64.buildinfo Checksums-Sha256: b427d50d22fc9d1d94cd90651529f8c896a5472046946e747d164acfd28fab46 141435730 drop-seq-testdata_2.5.3+dfsg-1_all.deb a7af89d74a5940f873daf0019906048372e22fd92e6f7f6935383954eb374f13 562600 drop-seq-tools_2.5.3+dfsg-1_all.deb 0d52849cb8c36f6a8e11df12b5de0f6fc38a07d628a1f08e22aead29641347f0 14242 drop-seq_2.5.3+dfsg-1_amd64.buildinfo Files: e8f7e8999a7f25581ce367cf276dcc7b 141435730 science optional drop-seq-testdata_2.5.3+dfsg-1_all.deb 997fd3a0bbdd0ff526bdcdfc10abf799 562600 science optional drop-seq-tools_2.5.3+dfsg-1_all.deb 2991723b6870cf7e157023d0ce9e1a54 14242 science optional drop-seq_2.5.3+dfsg-1_amd64.buildinfo /<>/drop-seq_2.5.3+dfsg-1_amd64.changes.new could not be renamed to /<>/drop-seq_2.5.3+dfsg-1_amd64.changes: Illegal seek Distribution field may be wrong!!! +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: drop-seq Binary: drop-seq-testdata drop-seq-tools Architecture: all Version: 2.5.3+dfsg-1 Checksums-Md5: e8f7e8999a7f25581ce367cf276dcc7b 141435730 drop-seq-testdata_2.5.3+dfsg-1_all.deb 997fd3a0bbdd0ff526bdcdfc10abf799 562600 drop-seq-tools_2.5.3+dfsg-1_all.deb Checksums-Sha1: e66f26a27271cc09e6b1c2563f11343e4deb7216 141435730 drop-seq-testdata_2.5.3+dfsg-1_all.deb ca55dd1f4f07dd89c04984dd5ad96ac959d531e8 562600 drop-seq-tools_2.5.3+dfsg-1_all.deb Checksums-Sha256: b427d50d22fc9d1d94cd90651529f8c896a5472046946e747d164acfd28fab46 141435730 drop-seq-testdata_2.5.3+dfsg-1_all.deb a7af89d74a5940f873daf0019906048372e22fd92e6f7f6935383954eb374f13 562600 drop-seq-tools_2.5.3+dfsg-1_all.deb Build-Origin: Ubuntu Build-Architecture: amd64 Build-Date: Sun, 25 Jun 2023 17:15:59 +0000 Build-Path: /<> Build-Tainted-By: merged-usr-via-aliased-dirs usr-local-has-programs Installed-Build-Depends: adduser (= 3.134ubuntu1), ant (= 1.10.13-1), ant-optional (= 1.10.13-1), autoconf (= 2.71-3), automake (= 1:1.16.5-1.3), autopoint (= 0.21-12), autotools-dev (= 20220109.1), base-files (= 13ubuntu1), base-passwd (= 3.6.1), bash (= 5.2.15-2ubuntu1), binutils (= 2.40.50.20230622-1ubuntu1), binutils-common (= 2.40.50.20230622-1ubuntu1), binutils-x86-64-linux-gnu (= 2.40.50.20230622-1ubuntu1), bsdextrautils (= 2.38.1-5ubuntu2), bsdutils (= 1:2.38.1-5ubuntu2), build-essential (= 12.9ubuntu3), bzip2 (= 1.0.8-5build1), ca-certificates (= 20230311ubuntu1), ca-certificates-java (= 20230103ubuntu1), coreutils (= 9.1-1ubuntu2), cpp (= 4:12.2.0-3ubuntu1), cpp-12 (= 12.3.0-3ubuntu1), dash (= 0.5.12-2ubuntu1), dctrl-tools (= 2.24-3build2), debconf (= 1.5.82), debhelper (= 13.11.4ubuntu3), debianutils (= 5.7-0.4), debugedit (= 1:5.0-5), default-jdk-headless (= 2:1.17-74), default-jre-headless (= 2:1.17-74), devscripts (= 2.23.5), dh-autoreconf (= 20), dh-strip-nondeterminism (= 1.13.1-1), diffutils (= 1:3.8-4), dirmngr (= 2.2.40-1.1ubuntu1), dpkg (= 1.21.22ubuntu1), dpkg-dev (= 1.21.22ubuntu1), dwz (= 0.15-1), fakeroot (= 1.31-1.2), file (= 1:5.44-3), findutils (= 4.9.0-4ubuntu1), fontconfig-config (= 2.14.1-4ubuntu1), fonts-dejavu-core (= 2.37-6), g++ (= 4:12.2.0-3ubuntu1), g++-12 (= 12.3.0-3ubuntu1), gcc (= 4:12.2.0-3ubuntu1), gcc-12 (= 12.3.0-3ubuntu1), gcc-12-base (= 12.3.0-3ubuntu1), gcc-13-base (= 13.1.0-6ubuntu1), gettext (= 0.21-12), gettext-base (= 0.21-12), gnupg (= 2.2.40-1.1ubuntu1), gnupg-l10n (= 2.2.40-1.1ubuntu1), gnupg-utils (= 2.2.40-1.1ubuntu1), gpg (= 2.2.40-1.1ubuntu1), gpg-agent (= 2.2.40-1.1ubuntu1), gpg-wks-client (= 2.2.40-1.1ubuntu1), gpg-wks-server (= 2.2.40-1.1ubuntu1), gpgconf (= 2.2.40-1.1ubuntu1), gpgsm (= 2.2.40-1.1ubuntu1), gpgv (= 2.2.40-1.1ubuntu1), grep (= 3.8-5), groff-base (= 1.22.4-10), gzip (= 1.12-1ubuntu1), hostname (= 3.23+nmu1ubuntu1), init-system-helpers (= 1.65.2), intltool-debian (= 0.35.0+20060710.6), java-common (= 0.74), javahelper (= 0.78), junit4 (= 4.13.2-3), libacl1 (= 2.3.1-3), libactivation-java (= 1.2.0-2), libantlr4-runtime-java (= 4.7.2-5), libaopalliance-java (= 20070526-7), libapache-pom-java (= 29-2), libapfloat-java (= 1.10.1-2), libarchive-zip-perl (= 1.68-1), libargs4j-java (= 2.33-2), libasan8 (= 13.1.0-6ubuntu1), libasm-java (= 9.4-1), libasound2 (= 1.2.9-1), libasound2-data (= 1.2.9-1), libassuan0 (= 2.5.5-5), libatinject-jsr330-api-java (= 1.0+ds1-5), libatomic1 (= 13.1.0-6ubuntu1), libattr1 (= 1:2.5.1-4), libaudit-common (= 1:3.0.9-1), libaudit1 (= 1:3.0.9-1), libavahi-client3 (= 0.8-10ubuntu1), libavahi-common-data (= 0.8-10ubuntu1), libavahi-common3 (= 0.8-10ubuntu1), libb-hooks-op-check-perl (= 0.22-2build1), libbarclay-java (= 5.0.0+dfsg-1), libbinutils (= 2.40.50.20230622-1ubuntu1), libbiojava6-java (= 6.1.0+dfsg-4), libblkid1 (= 2.38.1-5ubuntu2), libbrotli1 (= 1.0.9-2build8), libbsh-java (= 2.0b4-20), libbz2-1.0 (= 1.0.8-5build1), libc-bin (= 2.37-0ubuntu2), libc-dev-bin (= 2.37-0ubuntu2), libc6 (= 2.37-0ubuntu2), libc6-dev (= 2.37-0ubuntu2), libcap-ng0 (= 0.8.3-1build2), libcap2 (= 1:2.66-4ubuntu1), libcc1-0 (= 13.1.0-6ubuntu1), libcdi-api-java (= 1.2-3), libciftools-java (= 5.0.1-1), libclass-method-modifiers-perl (= 2.15-1), libclass-xsaccessor-perl (= 1.19-4build1), libclone-perl (= 0.46-1), libcodemodel-java (= 2.6+jaxb2.3.0.1-10.1), libcom-err2 (= 1.47.0-1ubuntu1), libcommons-cli-java (= 1.5.0-1), libcommons-codec-java (= 1.15-1), libcommons-collections4-java (= 4.4-2), libcommons-compress-java (= 1.23.0-1), libcommons-exec-java (= 1.3-2), libcommons-io-java (= 2.11.0-2), libcommons-jexl2-java (= 2.1.1-6), libcommons-lang-java (= 2.6-10), libcommons-lang3-java (= 3.12.0-2), libcommons-logging-java (= 1.2-3), libcommons-math-java (= 2.2-8), libcommons-math3-java (= 3.6.1-3), libcommons-parent-java (= 56-1), libcommons-text-java (= 1.10.0-1), libcrypt-dev (= 1:4.4.35-1), libcrypt1 (= 1:4.4.35-1), libctf-nobfd0 (= 2.40.50.20230622-1ubuntu1), libctf0 (= 2.40.50.20230622-1ubuntu1), libcups2 (= 2.4.5-0ubuntu2), libdb5.3 (= 5.3.28+dfsg2-1), libdbus-1-3 (= 1.14.6-1ubuntu1), libdebconfclient0 (= 0.267ubuntu1), libdebhelper-perl (= 13.11.4ubuntu3), libdevel-callchecker-perl (= 0.008-2), libdom4j-java (= 2.1.3-2), libdpkg-perl (= 1.21.22ubuntu1), libdtd-parser-java (= 1.2-1), libdw1 (= 0.188-2.1), libdynaloader-functions-perl (= 0.003-3), libelf1 (= 0.188-2.1), libencode-locale-perl (= 1.05-3), liberror-prone-java (= 2.18.0-1), libexec-maven-plugin-java (= 3.1.0-1), libexpat1 (= 2.5.0-2), libfakeroot (= 1.31-1.2), libfastinfoset-java (= 1.2.12-3), libfastutil-java (= 8.5.12+dfsg-1), libffi8 (= 3.4.4-1), libfile-dirlist-perl (= 0.05-3), libfile-homedir-perl (= 1.006-2), libfile-listing-perl (= 6.15-1), libfile-stripnondeterminism-perl (= 1.13.1-1), libfile-touch-perl (= 0.12-2), libfile-which-perl (= 1.27-2), libfontconfig1 (= 2.14.1-4ubuntu1), libfreemarker-java (= 2.3.31-2), libfreetype6 (= 2.12.1+dfsg-5), libgatk-native-bindings-java (= 1.0.0+dfsg-2), libgcc-12-dev (= 12.3.0-3ubuntu1), libgcc-s1 (= 13.1.0-6ubuntu1), libgcrypt20 (= 1.10.1-3ubuntu1), libgdbm-compat4 (= 1.23-3), libgdbm6 (= 1.23-3), libgeronimo-annotation-1.3-spec-java (= 1.3-1), libgeronimo-interceptor-3.0-spec-java (= 1.0.1-4fakesync), libgkl-java (= 0.8.10+dfsg-3), libglib2.0-0 (= 2.76.3-1ubuntu1), libgmp10 (= 2:6.2.1+dfsg1-1.1ubuntu1), libgnutls30 (= 3.7.9-2ubuntu1), libgomp1 (= 13.1.0-6ubuntu1), libgoogle-gson-java (= 2.10-1), libgpg-error0 (= 1.46-1), libgprofng0 (= 2.40.50.20230622-1ubuntu1), libgraphite2-3 (= 1.3.14-1build2), libgssapi-krb5-2 (= 1.20.1-2), libguava-java (= 32.0.1-1), libguice-java (= 4.2.3-2), libhamcrest-java (= 2.2-1), libharfbuzz0b (= 6.0.0+dfsg-3build1), libhogweed6 (= 3.8.1-2), libhtml-parser-perl (= 3.81-1), libhtml-tagset-perl (= 3.20-6), libhtml-tree-perl (= 5.07-3), libhtsjdk-java (= 3.0.5+dfsg-1), libhttp-cookiejar-perl (= 0.014-1), libhttp-cookies-perl (= 6.10-1), libhttp-date-perl (= 6.05-2), libhttp-message-perl (= 6.44-2ubuntu1), libhttp-negotiate-perl (= 6.01-2), libhttpclient-java (= 4.5.14-1), libhttpcore-java (= 4.4.16-1), libicu72 (= 72.1-3ubuntu2), libidn2-0 (= 2.3.3-1build1), libimport-into-perl (= 1.002005-2), libinchi1 (= 1.03+dfsg-4), libio-html-perl (= 1.004-3), libio-pty-perl (= 1:1.17-1), libio-socket-ssl-perl (= 2.083-1), libipc-run-perl (= 20220807.0-1), libisl23 (= 0.26-3), libistack-commons-java (= 3.0.6-5), libitext5-java (= 5.5.13.3-2), libitm1 (= 13.1.0-6ubuntu1), libjackson2-annotations-java (= 2.14.0-1), libjackson2-core-java (= 2.14.1-1), libjackson2-databind-java (= 2.14.0-1), libjansson4 (= 2.14-2), libjaxb-api-java (= 2.3.1-1), libjaxb-java (= 2.3.0.1-10.1), libjaxen-java (= 1.1.6-4), libjcommander-java (= 1.71-4), libjgrapht-java (= 1.5.2-1), libjgraphx-java (= 2.1.0.7-3), libjheaps-java (= 0.14-2), libjmol-java (= 14.32.83+dfsg-2), libjni-inchi-java (= 0.8+dfsg-7), libjni-inchi-jni (= 0.8+dfsg-7), libjoptsimple-java (= 5.0.4-4), libjpeg-turbo8 (= 2.1.5-2ubuntu1), libjpeg8 (= 8c-2ubuntu11), libjson-simple-java (= 2.3.0-1), libjsoup-java (= 1.15.3-1), libjsr305-java (= 0.1~+svn49-11), libk5crypto3 (= 1.20.1-2), libkeyutils1 (= 1.6.3-2), libkrb5-3 (= 1.20.1-2), libkrb5support0 (= 1.20.1-2), libksba8 (= 1.6.3-2), libla4j-java (= 0.6.0-4), liblcms2-2 (= 2.14-2), libldap2 (= 2.6.3+dfsg-1~exp1ubuntu2), liblightcouch-java (= 0.2.0-1), liblog4j1.2-java (= 1.2.17-11), liblog4j2-java (= 2.19.0-2), liblsan0 (= 13.1.0-6ubuntu1), liblwp-mediatypes-perl (= 6.04-2), liblwp-protocol-https-perl (= 6.10-1), liblz4-1 (= 1.9.4-1), liblzma5 (= 5.4.1-0.2), libmagic-mgc (= 1:5.44-3), libmagic1 (= 1:5.44-3), libmaven-archiver-java (= 3.6.0-1), libmaven-compiler-plugin-java (= 3.10.1-2), libmaven-file-management-java (= 3.0.0-1), libmaven-jar-plugin-java (= 3.3.0-2), libmaven-parent-java (= 35-1), libmaven-resolver-java (= 1.6.3-1), libmaven-shared-incremental-java (= 1.1-3), libmaven-shared-io-java (= 3.0.0-4), libmaven-shared-utils-java (= 3.3.4-1), libmaven3-core-java (= 3.8.7-1), libmbedcrypto7 (= 2.28.3-1), libmbedtls14 (= 2.28.3-1), libmbedx509-1 (= 2.28.3-1), libmd0 (= 1.1.0-1), libmjson-java (= 1.4.0-3), libmmtf-java (= 1.0.11-1), libmodule-runtime-perl (= 0.016-2), libmongodb-java (= 3.6.3-2), libmoo-perl (= 2.005005-1), libmount1 (= 2.38.1-5ubuntu2), libmpc3 (= 1.3.1-1), libmpfr6 (= 4.2.0-1), libmsgpack-java (= 0.9.3-1), libnaga-java (= 3.0+svn80-5), libncbi-ngs3 (= 3.0.3+dfsg-5ubuntu1), libncbi-vdb3 (= 3.0.2+dfsg-2), libncursesw6 (= 6.4-4), libnet-http-perl (= 6.22-1), libnet-ssleay-perl (= 1.92-2build2), libnettle8 (= 3.8.1-2), libngs-java (= 3.0.3+dfsg-5ubuntu1), libngs-jni (= 3.0.3+dfsg-5ubuntu1), libnpth0 (= 1.6-3build2), libnsl-dev (= 1.3.0-2build2), libnsl2 (= 1.3.0-2build2), libnspr4 (= 2:4.35-1.1), libnss3 (= 2:3.90-3), libp11-kit0 (= 0.24.1-2ubuntu1), libpam-modules (= 1.5.2-6ubuntu1), libpam-modules-bin (= 1.5.2-6ubuntu1), libpam-runtime (= 1.5.2-6ubuntu1), libpam0g (= 1.5.2-6ubuntu1), libparams-classify-perl (= 0.015-2build2), libpcre2-8-0 (= 10.42-1), libpcsclite1 (= 2.0.0-1), libperl5.36 (= 5.36.0-7ubuntu1), libpicard-java (= 2.27.5+dfsg-2), libpipeline1 (= 1.5.7-1), libplexus-archiver-java (= 4.6.1-1), libplexus-cipher-java (= 2.0-1), libplexus-classworlds-java (= 2.7.0-1), libplexus-compiler-java (= 2.12.1-1), libplexus-component-annotations-java (= 2.1.1-1), libplexus-container-default-java (= 2.1.1-1), libplexus-interpolation-java (= 1.26-1), libplexus-io-java (= 3.3.1-2), libplexus-languages-java (= 1.1.1-2), libplexus-sec-dispatcher-java (= 2.0-3), libplexus-utils2-java (= 3.4.2-1), libpng16-16 (= 1.6.40-1), libpython3-stdlib (= 3.11.2-1), libpython3.11-minimal (= 3.11.4-1), libpython3.11-stdlib (= 3.11.4-1), libqdox2-java (= 2.0.3-1), libquadmath0 (= 13.1.0-6ubuntu1), libreadline8 (= 8.2-1.3), librelaxng-datatype-java (= 1.0+ds1-3.1), librhino-java (= 1.7.14-2.1), librngom-java (= 2.3.0.1-10.1), librole-tiny-perl (= 2.002004-1), libsasl2-2 (= 2.1.28+dfsg1-1), libsasl2-modules-db (= 2.1.28+dfsg1-1), libseccomp2 (= 2.5.4-1ubuntu3), libselinux1 (= 3.4-1build4), libsemanage-common (= 3.4-1build4), libsemanage2 (= 3.4-1build4), libsepol2 (= 3.4-2.1), libsisu-inject-java (= 0.3.4-2), libsisu-plexus-java (= 0.3.4-3), libslf4j-java (= 1.7.32-1), libsmartcols1 (= 2.38.1-5ubuntu2), libsnappy-java (= 1.1.8.3-1), libsnappy-jni (= 1.1.8.3-1), libsnappy1v5 (= 1.1.9-3), libsqlite3-0 (= 3.42.0-1), libssl3 (= 3.0.9-1ubuntu1), libstax-ex-java (= 1.7.8-3), libstdc++-12-dev (= 12.3.0-3ubuntu1), libstdc++6 (= 13.1.0-6ubuntu1), libstreambuffer-java (= 1.5.4-1.1), libsub-override-perl (= 0.09-4), libsub-quote-perl (= 2.006008-1ubuntu1), libsystemd0 (= 252.5-2ubuntu3), libtasn1-6 (= 4.19.0-2), libtimedate-perl (= 2.3300-2), libtinfo6 (= 6.4-4), libtirpc-common (= 1.3.3+ds-1), libtirpc-dev (= 1.3.3+ds-1), libtirpc3 (= 1.3.3+ds-1), libtool (= 2.4.7-5), libtry-tiny-perl (= 0.31-2), libtsan2 (= 13.1.0-6ubuntu1), libtxw2-java (= 2.3.0.1-10.1), libubsan1 (= 13.1.0-6ubuntu1), libuchardet0 (= 0.0.7-1build2), libudev1 (= 252.5-2ubuntu3), libunistring2 (= 1.0-2), liburi-perl (= 5.19-2), libuuid1 (= 2.38.1-5ubuntu2), libvecmath-java (= 1.5.2-7), libwagon-http-java (= 3.5.3-1), libwagon-provider-api-java (= 3.5.3-1), libwww-perl (= 6.71-1), libwww-robotrules-perl (= 6.02-1), libxbean-reflect-java (= 4.5-8), libxerces2-java (= 2.12.2-1), libxml-commons-external-java (= 1.4.01-5), libxml-commons-resolver1.1-java (= 1.2-11), libxml2 (= 2.9.14+dfsg-1.2), libxsom-java (= 2.3.0.1-10.1), libxz-java (= 1.9-1), libyaml-snake-java (= 1.33-2), libzstd1 (= 1.5.4+dfsg2-5), linux-libc-dev (= 6.3.0-7.7), login (= 1:4.13+dfsg1-1ubuntu1), lsb-base (= 11.6), lto-disabled-list (= 41), m4 (= 1.4.19-3), make (= 4.3-4.1build1), man-db (= 2.11.2-2), mawk (= 1.3.4.20230525-1), media-types (= 10.0.0), ncbi-vdb-data (= 3.0.2+dfsg-2), ncurses-base (= 6.4-4), ncurses-bin (= 6.4-4), netbase (= 6.4), openjdk-17-jdk-headless (= 17.0.7+7~us1-0ubuntu1), openjdk-17-jre-headless (= 17.0.7+7~us1-0ubuntu1), openssl (= 3.0.9-1ubuntu1), passwd (= 1:4.13+dfsg1-1ubuntu1), patch (= 2.7.6-7build2), patchutils (= 0.4.2-1build2), perl (= 5.36.0-7ubuntu1), perl-base (= 5.36.0-7ubuntu1), perl-modules-5.36 (= 5.36.0-7ubuntu1), perl-openssl-defaults (= 7), pinentry-curses (= 1.2.1-1ubuntu1), po-debconf (= 1.0.21+nmu1), python3 (= 3.11.2-1), python3-minimal (= 3.11.2-1), python3.11 (= 3.11.4-1), python3.11-minimal (= 3.11.4-1), readline-common (= 8.2-1.3), rpcsvc-proto (= 1.4.2-0ubuntu6), sed (= 4.9-1), sensible-utils (= 0.0.20), sysvinit-utils (= 3.06-4ubuntu1), tar (= 1.34+dfsg-1.2ubuntu1), testng (= 6.9.12-4), usrmerge (= 35ubuntu1), util-linux (= 2.38.1-5ubuntu2), util-linux-extra (= 2.38.1-5ubuntu2), wdiff (= 1.2.2-5), xz-utils (= 5.4.1-0.2), zlib1g (= 1:1.2.13.dfsg-1ubuntu4) Environment: DEB_BUILD_OPTIONS="parallel=4" DEB_BUILD_PROFILES="noudeb" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1687697181" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ drop-seq-testdata_2.5.3+dfsg-1_all.deb -------------------------------------- new Debian package, version 2.0. size 141435730 bytes: control archive=10957 bytes. 705 bytes, 18 lines control 55563 bytes, 366 lines md5sums Package: drop-seq-testdata Source: drop-seq Version: 2.5.3+dfsg-1 Architecture: all Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 145354 Section: science Priority: optional Multi-Arch: foreign Homepage: https://github.com/broadinstitute/Drop-seq/ Description: analyzing Drop-seq data (testdata) This software provide for core computational analysis of Drop-seq data, which shows you how to transform raw sequence data into an expression measurement for each gene in each individual cell. . This package provides the test data set included into the upstream source. drwxr-xr-x root/root 0 2023-06-25 12:46 ./ drwxr-xr-x root/root 0 2023-06-25 12:46 ./usr/ drwxr-xr-x root/root 0 2023-06-25 12:46 ./usr/share/ drwxr-xr-x root/root 0 2023-06-25 12:46 ./usr/share/doc/ drwxr-xr-x root/root 0 2023-06-25 12:46 ./usr/share/doc/drop-seq-testdata/ -rw-r--r-- root/root 1067 2023-06-25 12:46 ./usr/share/doc/drop-seq-testdata/changelog.Debian.gz -rw-r--r-- root/root 1505 2023-01-22 08:18 ./usr/share/doc/drop-seq-testdata/copyright drwxr-xr-x root/root 0 2023-06-25 12:46 ./usr/share/doc/drop-seq/ drwxr-xr-x root/root 0 2023-06-25 12:46 ./usr/share/doc/drop-seq/examples/ drwxr-xr-x root/root 0 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/ drwxr-xr-x root/root 0 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/ drwxr-xr-x root/root 0 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/ drwxr-xr-x root/root 0 2023-06-25 12:46 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/annotation/ -rw-r--r-- root/root 168 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/annotation/test.bam.bai.gz -rw-r--r-- root/root 5253 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/annotation/test.bam.gz -rw-r--r-- root/root 4849 2023-06-25 12:46 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/annotation/test.gtf.gz drwxr-xr-x root/root 0 2023-06-25 12:46 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/ -rw-r--r-- root/root 175 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/6T.chimeric_read_metrics -rw-r--r-- root/root 1775 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/6T.chimeric_report.txt.gz drwxr-xr-x root/root 0 2023-06-25 12:46 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/DgeStrandFuncTest/ -rw-r--r-- root/root 4671205 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/DgeStrandFuncTest/DgeStrandFuncTest.bam.gz -rw-r--r-- root/root 130 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/DgeStrandFuncTest/DgeStrandFuncTest.cell_barcodes -rw-r--r-- root/root 1247 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/DgeStrandFuncTest/both.digital_expression_summary.txt -rw-r--r-- root/root 1248 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/DgeStrandFuncTest/func.digital_expression_summary.txt -rw-r--r-- root/root 1243 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/DgeStrandFuncTest/neither.digital_expression_summary.txt -rw-r--r-- root/root 1243 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/DgeStrandFuncTest/strand.digital_expression_summary.txt -rw-r--r-- root/root 288540 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/MarkChimericReads.6T.sam.gz -rw-r--r-- root/root 288546 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/MarkChimericReads.both.sam.gz -rw-r--r-- root/root 288409 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/MarkChimericReads.input.sam.gz -rw-r--r-- root/root 288424 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/MarkChimericReads.input2.sam.gz -rw-r--r-- root/root 288464 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/MarkChimericReads.umiReuse.sam.gz -rw-r--r-- root/root 288433 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/MarkChimericReads.umiReuse10x.sam.gz -rw-r--r-- root/root 175 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/both.chimeric_read_metrics -rw-r--r-- root/root 1779 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/both.chimeric_report.txt.gz drwxr-xr-x root/root 0 2023-06-25 12:46 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/ -rw-r--r-- root/root 91 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/clusters.txt -rw-r--r-- root/root 243 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/hek_5_cell_2_snp_testdata.bam.bai.gz -rw-r--r-- root/root 40785 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/hek_5_cell_2_snp_testdata.bam.gz -rw-r--r-- root/root 41826 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/hek_5_cell_2_snp_testdata_retagged.bam.gz -rw-r--r-- root/root 649 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/hek_5_cell_2_snp_testdata_retagged.cluster.dac.txt -rw-r--r-- root/root 190 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/hek_5_cell_2_snp_testdata_retagged.dac.allele_freq.txt -rw-r--r-- root/root 430 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/hek_5_cell_2_snp_testdata_retagged.dac.summary.txt -rw-r--r-- root/root 1435 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/hek_5_cell_2_snp_testdata_retagged.dac.txt -rw-r--r-- root/root 7578 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/hek_cells_2snps.intervals.gz -rw-r--r-- root/root 4 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/hek_cells_2snps.sample_list -rw-r--r-- root/root 4843 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/hek_cells_2snps.vcf.gz -rw-r--r-- root/root 65 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/hek_cells_cell_barcodes.txt -rw-r--r-- root/root 91 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/hek_cluster_cell_barcodes.txt -rw-r--r-- root/root 276 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/includeUntaggedReads.XC_hist.txt -rw-r--r-- root/root 118897 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/includeUntaggedReads.bam.gz -rw-r--r-- root/root 68 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/includeUntaggedReads.cell_barcodes.txt -rw-r--r-- root/root 2194 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/includeUntaggedReads.vcf.gz -rw-r--r-- root/root 213 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/includeUntaggedReads.vcf.gz.tbi -rw-r--r-- root/root 173 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/includeUntaggedReadsFalse.summary.txt -rw-r--r-- root/root 288 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/includeUntaggedReadsTrue.summary.txt -rw-r--r-- root/root 391 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/includeUntaggedReadsTrueSplitByStrand.summary.txt -rw-r--r-- root/root 20 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/multicell_2.txt -rw-r--r-- root/root 45 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/multicell_3.txt drwxr-xr-x root/root 0 2023-06-25 12:46 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/sampleassignment/ -rw-r--r-- root/root 14814 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/sampleassignment/MergeCellToSampleAssignmentTest.SplitBam.0.txt.gz -rw-r--r-- root/root 16309 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/sampleassignment/MergeCellToSampleAssignmentTest.SplitBam.1.txt.gz -rw-r--r-- root/root 29546 2023-03-23 18:12 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2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/sampleassignment/multisample/TTTGCGCGGAGC:ATTGTTTAGGAG2.sampleAssignments.txt -rw-r--r-- root/root 425 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/sampleassignment/multisample/TTTGCGCGGAGC:ATTGTTTAGGAG2.sampleAssignments.txt.unguided_donors.txt -rw-r--r-- root/root 6620 2023-06-25 12:46 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/sampleassignment/multisample/TTTGCGCGGAGC:ATTGTTTAGGAG2.sampleAssignments.txt.verbose.txt.gz -rw-r--r-- root/root 754 2023-03-23 18:12 ./usr/share/doc/drop-seq/examples/org/broadinstitute/dropseq/barnyard/digitalallelecounts/sampleassignment/multisample/TTTGCGCGGAGC:ATTGTTTAGGAG2.sampleAssignments.unguided.perDonor.txt -rw-r--r-- root/root 5728 2023-03-23 18:12 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-rw-r--r-- root/root 1664 2022-02-22 19:40 ./usr/share/doc/drop-seq/examples/ref/TagBamWithReadSequenceExtended-cellular.sam -rw-r--r-- root/root 1684 2022-02-22 19:40 ./usr/share/doc/drop-seq/examples/ref/TagBamWithReadSequenceExtended-molecular.sam -rw-r--r-- root/root 52678 2022-02-22 19:40 ./usr/share/doc/drop-seq/examples/ref/TrimStartingSequence.sam.gz drop-seq-tools_2.5.3+dfsg-1_all.deb ----------------------------------- new Debian package, version 2.0. size 562600 bytes: control archive=1122 bytes. 871 bytes, 15 lines control 1041 bytes, 14 lines md5sums Package: drop-seq-tools Source: drop-seq Version: 2.5.3+dfsg-1 Architecture: all Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 2321 Depends: libbarclay-java, libbiojava6-java, libcommons-collections4-java, libcommons-io-java, libcommons-lang-java, libcommons-math3-java, libgoogle-gson-java, libguava-java, libhtsjdk-java, libla4j-java, libpicard-java, libyaml-snake-java, default-jre, java-wrappers, picard-tools Section: science Priority: optional Homepage: https://github.com/broadinstitute/Drop-seq/ Description: analyzing Drop-seq data This software provide for core computational analysis of Drop-seq data, which shows you how to transform raw sequence data into an expression measurement for each gene in each individual cell. drwxr-xr-x root/root 0 2023-06-25 12:46 ./ drwxr-xr-x root/root 0 2023-06-25 12:46 ./usr/ drwxr-xr-x root/root 0 2023-06-25 12:46 ./usr/bin/ -rwxr-xr-x root/root 8156 2023-06-25 12:46 ./usr/bin/Drop-seq_alignment.sh -rwxr-xr-x root/root 5772 2023-06-25 12:46 ./usr/bin/create_Drop-seq_reference_metadata.sh -rwxr-xr-x root/root 346 2022-02-22 19:40 ./usr/bin/drop-seq -rwxr-xr-x root/root 2278 2023-06-25 12:46 ./usr/bin/public_clp_template.sh drwxr-xr-x root/root 0 2023-06-25 12:46 ./usr/share/ drwxr-xr-x root/root 0 2023-06-25 12:46 ./usr/share/doc/ drwxr-xr-x root/root 0 2023-06-25 12:46 ./usr/share/doc/drop-seq-tools/ -rw-r--r-- 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./usr/share/man/ drwxr-xr-x root/root 0 2023-06-25 12:46 ./usr/share/man/man1/ -rw-r--r-- root/root 535 2023-06-25 12:46 ./usr/share/man/man1/Drop-seq_alignment.sh.1.gz -rw-r--r-- root/root 767 2023-06-25 12:46 ./usr/share/man/man1/create_Drop-seq_reference_metadata.sh.1.gz +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: binary Build-Space: 463236 Build-Time: 35 Distribution: mantic-proposed Host Architecture: amd64 Install-Time: 17 Job: drop-seq_2.5.3+dfsg-1.dsc Machine Architecture: amd64 Package: drop-seq Package-Time: 57 Source-Version: 2.5.3+dfsg-1 Space: 463236 Status: successful Version: 2.5.3+dfsg-1 -------------------------------------------------------------------------------- Finished at 2023-06-25T17:16:00Z Build needed 00:00:57, 463236k disk space RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=mantic --arch=amd64 PACKAGEBUILD-26337829 Scanning for processes to kill in build PACKAGEBUILD-26337829