https://launchpad.net/ubuntu/+source/stacks/2.60+dfsg-1/+build/22362567 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux bos02-arm64-066 4.15.0-161-generic #169-Ubuntu SMP Fri Oct 15 13:41:12 UTC 2021 aarch64 Buildd toolchain package versions: launchpad-buildd_203~505~ubuntu18.04.1 python3-lpbuildd_203~505~ubuntu18.04.1 sbuild_0.75.0-1ubuntu1 bzr-builder_0.7.3+bzr174~ppa13~ubuntu16.04.1 bzr_2.7.0+bzr6622-10 git-build-recipe_0.3.6~git201906051340.ff11471~ubuntu18.04.1 git_1:2.17.1-1ubuntu0.9 dpkg-dev_1.19.0.5ubuntu2.3 python-debian_0.1.32 python3-debian_0.1.32. Syncing the system clock with the buildd NTP service... 2 Nov 00:00:51 ntpdate[1673]: adjust time server 10.211.37.1 offset 0.001684 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=jammy --arch=arm64 PACKAGEBUILD-22362567 --image-type chroot /home/buildd/filecache-default/d7d0133902b8cc1df688a841d4b96e994eeac2e0 Creating target for build PACKAGEBUILD-22362567 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=jammy --arch=arm64 PACKAGEBUILD-22362567 Starting target for build PACKAGEBUILD-22362567 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=jammy --arch=arm64 PACKAGEBUILD-22362567 'deb http://ftpmaster.internal/ubuntu jammy main universe' 'deb http://ftpmaster.internal/ubuntu jammy-security main universe' 'deb http://ftpmaster.internal/ubuntu jammy-updates main universe' 'deb http://ftpmaster.internal/ubuntu jammy-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-22362567 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=jammy --arch=arm64 PACKAGEBUILD-22362567 Updating target for build PACKAGEBUILD-22362567 Get:1 http://ftpmaster.internal/ubuntu jammy InRelease [254 kB] Get:2 http://ftpmaster.internal/ubuntu jammy-security InRelease [74.9 kB] Get:3 http://ftpmaster.internal/ubuntu jammy-updates InRelease [74.9 kB] Get:4 http://ftpmaster.internal/ubuntu jammy-proposed InRelease [105 kB] Get:5 http://ftpmaster.internal/ubuntu jammy/main arm64 Packages [1371 kB] Get:6 http://ftpmaster.internal/ubuntu jammy/main Translation-en [512 kB] Get:7 http://ftpmaster.internal/ubuntu jammy/universe arm64 Packages [12.9 MB] Get:8 http://ftpmaster.internal/ubuntu jammy/universe Translation-en [5509 kB] Get:9 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 Packages [370 kB] Get:10 http://ftpmaster.internal/ubuntu jammy-proposed/main Translation-en [129 kB] Get:11 http://ftpmaster.internal/ubuntu jammy-proposed/universe arm64 Packages [1901 kB] Get:12 http://ftpmaster.internal/ubuntu jammy-proposed/universe Translation-en [892 kB] Fetched 24.1 MB in 8s (3196 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: apt bsdutils ca-certificates cpp-11 dash debconf debianutils g++-11 gcc-11 gcc-11-base gpg gpg-agent gpgconf gpgv grep libapparmor1 libapt-pkg6.0 libasan6 libatomic1 libattr1 libblkid1 libcc1-0 libgcc-11-dev libgcc-s1 libgcrypt20 libgdbm-compat4 libgdbm6 libgomp1 libgpg-error0 libgssapi-krb5-2 libhwasan0 libidn2-0 libisl23 libitm1 libk5crypto3 libkrb5-3 libkrb5support0 liblsan0 libmount1 libmpc3 libncurses6 libncursesw6 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libseccomp2 libselinux1 libsmartcols1 libsqlite3-0 libstdc++-11-dev libstdc++6 libtasn1-6 libtinfo6 libtsan0 libubsan1 libuuid1 libzstd1 lockfile-progs make mount ncurses-base ncurses-bin sensible-utils tzdata usrmerge util-linux 68 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 184 MB of archives. After this operation, 226 kB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 bsdutils arm64 1:2.37.2-4ubuntu1 [84.5 kB] Get:2 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 debianutils arm64 5.5-1 [77.5 kB] Get:3 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 debconf all 1.5.79 [126 kB] Get:4 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 dash arm64 0.5.11+git20210903+057cd650a4ed-1 [92.1 kB] Get:5 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 grep arm64 3.7-1 [152 kB] Get:6 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libncursesw6 arm64 6.2+20210905-1 [142 kB] Get:7 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libncurses6 arm64 6.2+20210905-1 [108 kB] Get:8 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libtinfo6 arm64 6.2+20210905-1 [104 kB] Get:9 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 ncurses-bin arm64 6.2+20210905-1 [180 kB] Get:10 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libblkid1 arm64 2.37.2-4ubuntu1 [103 kB] Get:11 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libselinux1 arm64 3.1-3build3 [74.1 kB] Get:12 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libmount1 arm64 2.37.2-4ubuntu1 [120 kB] Get:13 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 util-linux arm64 2.37.2-4ubuntu1 [1059 kB] Get:14 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 ncurses-base all 6.2+20210905-1 [19.9 kB] Get:15 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libcc1-0 arm64 11.2.0-10ubuntu1 [54.2 kB] Get:16 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 gcc-11-base arm64 11.2.0-10ubuntu1 [21.0 kB] Get:17 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libgcc-s1 arm64 11.2.0-10ubuntu1 [39.3 kB] Get:18 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libgomp1 arm64 11.2.0-10ubuntu1 [115 kB] Get:19 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libitm1 arm64 11.2.0-10ubuntu1 [28.4 kB] Get:20 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libatomic1 arm64 11.2.0-10ubuntu1 [10.9 kB] Get:21 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libasan6 arm64 11.2.0-10ubuntu1 [2228 kB] Get:22 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 liblsan0 arm64 11.2.0-10ubuntu1 [942 kB] Get:23 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libtsan0 arm64 11.2.0-10ubuntu1 [2233 kB] Get:24 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libubsan1 arm64 11.2.0-10ubuntu1 [908 kB] Get:25 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libhwasan0 arm64 11.2.0-10ubuntu1 [1010 kB] Get:26 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 g++-11 arm64 11.2.0-10ubuntu1 [54.4 MB] Get:27 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libstdc++-11-dev arm64 11.2.0-10ubuntu1 [2064 kB] Get:28 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libgcc-11-dev arm64 11.2.0-10ubuntu1 [1149 kB] Get:29 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 gcc-11 arm64 11.2.0-10ubuntu1 [58.3 MB] Get:30 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 cpp-11 arm64 11.2.0-10ubuntu1 [50.0 MB] Get:31 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libstdc++6 arm64 11.2.0-10ubuntu1 [623 kB] Get:32 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libisl23 arm64 0.24-2 [690 kB] Get:33 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libmpc3 arm64 1.2.1-1 [48.1 kB] Get:34 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libzstd1 arm64 1.4.8+dfsg-3 [311 kB] Get:35 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libgpg-error0 arm64 1.42-3 [67.7 kB] Get:36 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libgcrypt20 arm64 1.9.4-3ubuntu2 [456 kB] Get:37 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libapt-pkg6.0 arm64 2.3.11 [864 kB] Get:38 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 gpgv arm64 2.2.27-2ubuntu1 [133 kB] Get:39 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libseccomp2 arm64 2.5.1-1ubuntu2 [47.8 kB] Get:40 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 apt arm64 2.3.11 [1356 kB] Get:41 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libpam0g arm64 1.4.0-10ubuntu1 [61.2 kB] Get:42 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libpam-modules-bin arm64 1.4.0-10ubuntu1 [38.4 kB] Get:43 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libpam-modules arm64 1.4.0-10ubuntu1 [277 kB] Get:44 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 mount arm64 2.37.2-4ubuntu1 [113 kB] Get:45 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libattr1 arm64 1:2.5.1-1 [13.3 kB] Get:46 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libk5crypto3 arm64 1.18.3-7 [91.5 kB] Get:47 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libkrb5support0 arm64 1.18.3-7 [32.3 kB] Get:48 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libkrb5-3 arm64 1.18.3-7 [357 kB] Get:49 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libgssapi-krb5-2 arm64 1.18.3-7 [141 kB] Get:50 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libpam-runtime all 1.4.0-10ubuntu1 [40.2 kB] Get:51 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libsmartcols1 arm64 2.37.2-4ubuntu1 [49.6 kB] Get:52 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libuuid1 arm64 2.37.2-4ubuntu1 [23.8 kB] Get:53 http://ftpmaster.internal/ubuntu jammy/main arm64 libidn2-0 arm64 2.3.2-2 [67.1 kB] Get:54 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libp11-kit0 arm64 0.24.0-5 [231 kB] Get:55 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libtasn1-6 arm64 4.17.0-2 [42.8 kB] Get:56 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 sensible-utils all 0.0.17 [20.1 kB] Get:57 http://ftpmaster.internal/ubuntu jammy/main arm64 usrmerge all 25ubuntu2 [54.7 kB] Get:58 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 ca-certificates all 20211016 [148 kB] Get:59 http://ftpmaster.internal/ubuntu jammy/main arm64 libapparmor1 arm64 3.0.3-0ubuntu2 [37.4 kB] Get:60 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libsqlite3-0 arm64 3.36.0-2 [638 kB] Get:61 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 tzdata all 2021e-1ubuntu1 [343 kB] Get:62 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libgdbm6 arm64 1.22-1 [35.1 kB] Get:63 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 gpg arm64 2.2.27-2ubuntu1 [506 kB] Get:64 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 gpgconf arm64 2.2.27-2ubuntu1 [92.2 kB] Get:65 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 gpg-agent arm64 2.2.27-2ubuntu1 [204 kB] Get:66 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libgdbm-compat4 arm64 1.22-1 [6370 B] Get:67 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 lockfile-progs arm64 0.1.19 [9778 B] Get:68 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 make arm64 4.3-4ubuntu2 [176 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 184 MB in 10s (18.2 MB/s) (Reading database ... 13240 files and directories currently installed.) Preparing to unpack .../bsdutils_1%3a2.37.2-4ubuntu1_arm64.deb ... Unpacking bsdutils (1:2.37.2-4ubuntu1) over (1:2.36.1-8ubuntu1) ... Setting up bsdutils (1:2.37.2-4ubuntu1) ... (Reading database ... 13240 files and directories currently installed.) Preparing to unpack .../debianutils_5.5-1_arm64.deb ... Unpacking debianutils (5.5-1) over (4.11.2build1) ... Setting up debianutils (5.5-1) ... update-alternatives: using /usr/bin/which.debianutils to provide /usr/bin/which (which) in auto mode (Reading database ... 13235 files and directories currently installed.) Preparing to unpack .../debconf_1.5.79_all.deb ... Unpacking debconf (1.5.79) over (1.5.77) ... Setting up debconf (1.5.79) ... (Reading database ... 13234 files and directories currently installed.) Preparing to unpack .../dash_0.5.11+git20210903+057cd650a4ed-1_arm64.deb ... Unpacking dash (0.5.11+git20210903+057cd650a4ed-1) over (0.5.11+git20210120+802ebd4-1build1) ... Setting up dash (0.5.11+git20210903+057cd650a4ed-1) ... (Reading database ... 13234 files and directories currently installed.) Preparing to unpack .../archives/grep_3.7-1_arm64.deb ... Unpacking grep (3.7-1) over (3.7-0ubuntu1) ... Setting up grep (3.7-1) ... (Reading database ... 13234 files and directories currently installed.) Preparing to unpack .../libncursesw6_6.2+20210905-1_arm64.deb ... Unpacking libncursesw6:arm64 (6.2+20210905-1) over (6.2+20201114-2build2) ... Preparing to unpack .../libncurses6_6.2+20210905-1_arm64.deb ... Unpacking libncurses6:arm64 (6.2+20210905-1) over (6.2+20201114-2build2) ... Preparing to unpack .../libtinfo6_6.2+20210905-1_arm64.deb ... Unpacking libtinfo6:arm64 (6.2+20210905-1) over (6.2+20201114-2build2) ... Setting up libtinfo6:arm64 (6.2+20210905-1) ... (Reading database ... 13234 files and directories currently installed.) Preparing to unpack .../ncurses-bin_6.2+20210905-1_arm64.deb ... Unpacking ncurses-bin (6.2+20210905-1) over (6.2+20201114-2build2) ... Setting up ncurses-bin (6.2+20210905-1) ... (Reading database ... 13234 files and directories currently installed.) Preparing to unpack .../libblkid1_2.37.2-4ubuntu1_arm64.deb ... Unpacking libblkid1:arm64 (2.37.2-4ubuntu1) over (2.36.1-8ubuntu1) ... Setting up libblkid1:arm64 (2.37.2-4ubuntu1) ... (Reading database ... 13234 files and directories currently installed.) Preparing to unpack .../libselinux1_3.1-3build3_arm64.deb ... Unpacking libselinux1:arm64 (3.1-3build3) over (3.1-3build2) ... Setting up libselinux1:arm64 (3.1-3build3) ... (Reading database ... 13234 files and directories currently installed.) Preparing to unpack .../libmount1_2.37.2-4ubuntu1_arm64.deb ... Unpacking libmount1:arm64 (2.37.2-4ubuntu1) over (2.36.1-8ubuntu1) ... Setting up libmount1:arm64 (2.37.2-4ubuntu1) ... (Reading database ... 13234 files and directories currently installed.) Preparing to unpack .../util-linux_2.37.2-4ubuntu1_arm64.deb ... Unpacking util-linux (2.37.2-4ubuntu1) over (2.36.1-8ubuntu1) ... Setting up util-linux (2.37.2-4ubuntu1) ... (Reading database ... 13229 files and directories currently installed.) Preparing to unpack .../ncurses-base_6.2+20210905-1_all.deb ... Unpacking ncurses-base (6.2+20210905-1) over (6.2+20201114-2build2) ... Setting up ncurses-base (6.2+20210905-1) ... (Reading database ... 13229 files and directories currently installed.) Preparing to unpack .../libcc1-0_11.2.0-10ubuntu1_arm64.deb ... Unpacking libcc1-0:arm64 (11.2.0-10ubuntu1) over (11.2.0-7ubuntu2) ... Preparing to unpack .../gcc-11-base_11.2.0-10ubuntu1_arm64.deb ... Unpacking gcc-11-base:arm64 (11.2.0-10ubuntu1) over (11.2.0-7ubuntu2) ... Setting up gcc-11-base:arm64 (11.2.0-10ubuntu1) ... (Reading database ... 13229 files and directories currently installed.) Preparing to unpack .../libgcc-s1_11.2.0-10ubuntu1_arm64.deb ... Unpacking libgcc-s1:arm64 (11.2.0-10ubuntu1) over (11.2.0-7ubuntu2) ... Setting up libgcc-s1:arm64 (11.2.0-10ubuntu1) ... (Reading database ... 13229 files and directories currently installed.) Preparing to unpack .../00-libgomp1_11.2.0-10ubuntu1_arm64.deb ... Unpacking libgomp1:arm64 (11.2.0-10ubuntu1) over (11.2.0-7ubuntu2) ... Preparing to unpack .../01-libitm1_11.2.0-10ubuntu1_arm64.deb ... Unpacking libitm1:arm64 (11.2.0-10ubuntu1) over (11.2.0-7ubuntu2) ... Preparing to unpack .../02-libatomic1_11.2.0-10ubuntu1_arm64.deb ... Unpacking libatomic1:arm64 (11.2.0-10ubuntu1) over (11.2.0-7ubuntu2) ... Preparing to unpack .../03-libasan6_11.2.0-10ubuntu1_arm64.deb ... Unpacking libasan6:arm64 (11.2.0-10ubuntu1) over (11.2.0-7ubuntu2) ... Preparing to unpack .../04-liblsan0_11.2.0-10ubuntu1_arm64.deb ... Unpacking liblsan0:arm64 (11.2.0-10ubuntu1) over (11.2.0-7ubuntu2) ... Preparing to unpack .../05-libtsan0_11.2.0-10ubuntu1_arm64.deb ... Unpacking libtsan0:arm64 (11.2.0-10ubuntu1) over (11.2.0-7ubuntu2) ... Preparing to unpack .../06-libubsan1_11.2.0-10ubuntu1_arm64.deb ... Unpacking libubsan1:arm64 (11.2.0-10ubuntu1) over (11.2.0-7ubuntu2) ... Preparing to unpack .../07-libhwasan0_11.2.0-10ubuntu1_arm64.deb ... Unpacking libhwasan0:arm64 (11.2.0-10ubuntu1) over (11.2.0-7ubuntu2) ... Preparing to unpack .../08-g++-11_11.2.0-10ubuntu1_arm64.deb ... Unpacking g++-11 (11.2.0-10ubuntu1) over (11.2.0-7ubuntu2) ... Preparing to unpack .../09-libstdc++-11-dev_11.2.0-10ubuntu1_arm64.deb ... Unpacking libstdc++-11-dev:arm64 (11.2.0-10ubuntu1) over (11.2.0-7ubuntu2) ... Preparing to unpack .../10-libgcc-11-dev_11.2.0-10ubuntu1_arm64.deb ... Unpacking libgcc-11-dev:arm64 (11.2.0-10ubuntu1) over (11.2.0-7ubuntu2) ... Preparing to unpack .../11-gcc-11_11.2.0-10ubuntu1_arm64.deb ... Unpacking gcc-11 (11.2.0-10ubuntu1) over (11.2.0-7ubuntu2) ... Preparing to unpack .../12-cpp-11_11.2.0-10ubuntu1_arm64.deb ... Unpacking cpp-11 (11.2.0-10ubuntu1) over (11.2.0-7ubuntu2) ... Preparing to unpack .../13-libstdc++6_11.2.0-10ubuntu1_arm64.deb ... Unpacking libstdc++6:arm64 (11.2.0-10ubuntu1) over (11.2.0-7ubuntu2) ... Setting up libstdc++6:arm64 (11.2.0-10ubuntu1) ... (Reading database ... 13229 files and directories currently installed.) Preparing to unpack .../libisl23_0.24-2_arm64.deb ... Unpacking libisl23:arm64 (0.24-2) over (0.24-1build1) ... Preparing to unpack .../libmpc3_1.2.1-1_arm64.deb ... Unpacking libmpc3:arm64 (1.2.1-1) over (1.2.0-1build2) ... Preparing to unpack .../libzstd1_1.4.8+dfsg-3_arm64.deb ... Unpacking libzstd1:arm64 (1.4.8+dfsg-3) over (1.4.8+dfsg-2.1build1) ... Setting up libzstd1:arm64 (1.4.8+dfsg-3) ... (Reading database ... 13229 files and directories currently installed.) Preparing to unpack .../libgpg-error0_1.42-3_arm64.deb ... Unpacking libgpg-error0:arm64 (1.42-3) over (1.38-2build2) ... Setting up libgpg-error0:arm64 (1.42-3) ... (Reading database ... 13229 files and directories currently installed.) Preparing to unpack .../libgcrypt20_1.9.4-3ubuntu2_arm64.deb ... Unpacking libgcrypt20:arm64 (1.9.4-3ubuntu2) over (1.8.7-5ubuntu2) ... Setting up libgcrypt20:arm64 (1.9.4-3ubuntu2) ... (Reading database ... 13229 files and directories currently installed.) Preparing to unpack .../libapt-pkg6.0_2.3.11_arm64.deb ... Unpacking libapt-pkg6.0:arm64 (2.3.11) over (2.3.9) ... Setting up libapt-pkg6.0:arm64 (2.3.11) ... (Reading database ... 13229 files and directories currently installed.) Preparing to unpack .../gpgv_2.2.27-2ubuntu1_arm64.deb ... Unpacking gpgv (2.2.27-2ubuntu1) over (2.2.20-1ubuntu4) ... Setting up gpgv (2.2.27-2ubuntu1) ... (Reading database ... 13229 files and directories currently installed.) Preparing to unpack .../libseccomp2_2.5.1-1ubuntu2_arm64.deb ... Unpacking libseccomp2:arm64 (2.5.1-1ubuntu2) over (2.5.1-1ubuntu1) ... Setting up libseccomp2:arm64 (2.5.1-1ubuntu2) ... (Reading database ... 13229 files and directories currently installed.) Preparing to unpack .../archives/apt_2.3.11_arm64.deb ... Unpacking apt (2.3.11) over (2.3.9) ... Setting up apt (2.3.11) ... (Reading database ... 13229 files and directories currently installed.) Preparing to unpack .../libpam0g_1.4.0-10ubuntu1_arm64.deb ... Unpacking libpam0g:arm64 (1.4.0-10ubuntu1) over (1.3.1-5ubuntu11) ... Setting up libpam0g:arm64 (1.4.0-10ubuntu1) ... Checking for services that may need to be restarted...Checking init scripts... Nothing to restart. (Reading database ... 13229 files and directories currently installed.) Preparing to unpack .../libpam-modules-bin_1.4.0-10ubuntu1_arm64.deb ... Unpacking libpam-modules-bin (1.4.0-10ubuntu1) over (1.3.1-5ubuntu11) ... Setting up libpam-modules-bin (1.4.0-10ubuntu1) ... (Reading database ... 13227 files and directories currently installed.) Preparing to unpack .../libpam-modules_1.4.0-10ubuntu1_arm64.deb ... Unpacking libpam-modules:arm64 (1.4.0-10ubuntu1) over (1.3.1-5ubuntu11) ... Setting up libpam-modules:arm64 (1.4.0-10ubuntu1) ... Installing new version of config file /etc/security/namespace.conf ... Installing new version of config file /etc/security/pam_env.conf ... (Reading database ... 13228 files and directories currently installed.) Preparing to unpack .../mount_2.37.2-4ubuntu1_arm64.deb ... Unpacking mount (2.37.2-4ubuntu1) over (2.36.1-8ubuntu1) ... Preparing to unpack .../libattr1_1%3a2.5.1-1_arm64.deb ... Unpacking libattr1:arm64 (1:2.5.1-1) over (1:2.4.48-6build2) ... Setting up libattr1:arm64 (1:2.5.1-1) ... Installing new version of config file /etc/xattr.conf ... (Reading database ... 13229 files and directories currently installed.) Preparing to unpack .../libk5crypto3_1.18.3-7_arm64.deb ... Unpacking libk5crypto3:arm64 (1.18.3-7) over (1.18.3-6) ... Setting up libk5crypto3:arm64 (1.18.3-7) ... (Reading database ... 13229 files and directories currently installed.) Preparing to unpack .../libkrb5support0_1.18.3-7_arm64.deb ... Unpacking libkrb5support0:arm64 (1.18.3-7) over (1.18.3-6) ... Setting up libkrb5support0:arm64 (1.18.3-7) ... (Reading database ... 13229 files and directories currently installed.) Preparing to unpack .../libkrb5-3_1.18.3-7_arm64.deb ... Unpacking libkrb5-3:arm64 (1.18.3-7) over (1.18.3-6) ... Setting up libkrb5-3:arm64 (1.18.3-7) ... (Reading database ... 13229 files and directories currently installed.) Preparing to unpack .../libgssapi-krb5-2_1.18.3-7_arm64.deb ... Unpacking libgssapi-krb5-2:arm64 (1.18.3-7) over (1.18.3-6) ... Setting up libgssapi-krb5-2:arm64 (1.18.3-7) ... (Reading database ... 13229 files and directories currently installed.) Preparing to unpack .../libpam-runtime_1.4.0-10ubuntu1_all.deb ... Unpacking libpam-runtime (1.4.0-10ubuntu1) over (1.3.1-5ubuntu11) ... Setting up libpam-runtime (1.4.0-10ubuntu1) ... (Reading database ... 13229 files and directories currently installed.) Preparing to unpack .../libsmartcols1_2.37.2-4ubuntu1_arm64.deb ... Unpacking libsmartcols1:arm64 (2.37.2-4ubuntu1) over (2.36.1-8ubuntu1) ... Setting up libsmartcols1:arm64 (2.37.2-4ubuntu1) ... (Reading database ... 13229 files and directories currently installed.) Preparing to unpack .../libuuid1_2.37.2-4ubuntu1_arm64.deb ... Unpacking libuuid1:arm64 (2.37.2-4ubuntu1) over (2.36.1-8ubuntu1) ... Setting up libuuid1:arm64 (2.37.2-4ubuntu1) ... (Reading database ... 13229 files and directories currently installed.) Preparing to unpack .../libidn2-0_2.3.2-2_arm64.deb ... Unpacking libidn2-0:arm64 (2.3.2-2) over (2.3.1-1build1) ... Setting up libidn2-0:arm64 (2.3.2-2) ... (Reading database ... 13229 files and directories currently installed.) Preparing to unpack .../libp11-kit0_0.24.0-5_arm64.deb ... Unpacking libp11-kit0:arm64 (0.24.0-5) over (0.23.22-1build1) ... Setting up libp11-kit0:arm64 (0.24.0-5) ... (Reading database ... 13229 files and directories currently installed.) Preparing to unpack .../libtasn1-6_4.17.0-2_arm64.deb ... Unpacking libtasn1-6:arm64 (4.17.0-2) over (4.16.0-2build1) ... Setting up libtasn1-6:arm64 (4.17.0-2) ... (Reading database ... 13229 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.17_all.deb ... Unpacking sensible-utils (0.0.17) over (0.0.14) ... Preparing to unpack .../01-usrmerge_25ubuntu2_all.deb ... Unpacking usrmerge (25ubuntu2) over (25ubuntu1) ... Preparing to unpack .../02-ca-certificates_20211016_all.deb ... Unpacking ca-certificates (20211016) over (20210119ubuntu1) ... Preparing to unpack .../03-libapparmor1_3.0.3-0ubuntu2_arm64.deb ... Unpacking libapparmor1:arm64 (3.0.3-0ubuntu2) over (3.0.3-0ubuntu1) ... Preparing to unpack .../04-libsqlite3-0_3.36.0-2_arm64.deb ... Unpacking libsqlite3-0:arm64 (3.36.0-2) over (3.35.5-1) ... Preparing to unpack .../05-tzdata_2021e-1ubuntu1_all.deb ... Unpacking tzdata (2021e-1ubuntu1) over (2021a-2ubuntu1) ... Preparing to unpack .../06-libgdbm6_1.22-1_arm64.deb ... Unpacking libgdbm6:arm64 (1.22-1) over (1.19-2build1) ... Preparing to unpack .../07-gpg_2.2.27-2ubuntu1_arm64.deb ... Unpacking gpg (2.2.27-2ubuntu1) over (2.2.20-1ubuntu4) ... Preparing to unpack .../08-gpgconf_2.2.27-2ubuntu1_arm64.deb ... Unpacking gpgconf (2.2.27-2ubuntu1) over (2.2.20-1ubuntu4) ... Preparing to unpack .../09-gpg-agent_2.2.27-2ubuntu1_arm64.deb ... Unpacking gpg-agent (2.2.27-2ubuntu1) over (2.2.20-1ubuntu4) ... Preparing to unpack .../10-libgdbm-compat4_1.22-1_arm64.deb ... Unpacking libgdbm-compat4:arm64 (1.22-1) over (1.19-2build1) ... Preparing to unpack .../11-lockfile-progs_0.1.19_arm64.deb ... Unpacking lockfile-progs (0.1.19) over (0.1.18build1) ... Preparing to unpack .../12-make_4.3-4ubuntu2_arm64.deb ... Unpacking make (4.3-4ubuntu2) over (4.3-4ubuntu1) ... Setting up libapparmor1:arm64 (3.0.3-0ubuntu2) ... Setting up libsqlite3-0:arm64 (3.36.0-2) ... Setting up libgomp1:arm64 (11.2.0-10ubuntu1) ... Setting up libasan6:arm64 (11.2.0-10ubuntu1) ... Setting up tzdata (2021e-1ubuntu1) ... Current default time zone: 'Etc/UTC' Local time is now: Tue Nov 2 00:01:54 UTC 2021. Universal Time is now: Tue Nov 2 00:01:54 UTC 2021. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up ca-certificates (20211016) ... Updating certificates in /etc/ssl/certs... rehash: warning: skipping ca-certificates.crt,it does not contain exactly one certificate or CRL 7 added, 8 removed; done. Setting up make (4.3-4ubuntu2) ... Setting up libncurses6:arm64 (6.2+20210905-1) ... Setting up libmpc3:arm64 (1.2.1-1) ... Setting up lockfile-progs (0.1.19) ... Setting up libatomic1:arm64 (11.2.0-10ubuntu1) ... Setting up usrmerge (25ubuntu2) ... Setting up libncursesw6:arm64 (6.2+20210905-1) ... Setting up libubsan1:arm64 (11.2.0-10ubuntu1) ... Setting up mount (2.37.2-4ubuntu1) ... Setting up sensible-utils (0.0.17) ... Setting up libhwasan0:arm64 (11.2.0-10ubuntu1) ... Setting up gpgconf (2.2.27-2ubuntu1) ... Setting up libisl23:arm64 (0.24-2) ... Setting up libcc1-0:arm64 (11.2.0-10ubuntu1) ... Setting up gpg (2.2.27-2ubuntu1) ... Setting up liblsan0:arm64 (11.2.0-10ubuntu1) ... Setting up libitm1:arm64 (11.2.0-10ubuntu1) ... Setting up libgdbm6:arm64 (1.22-1) ... Setting up libtsan0:arm64 (11.2.0-10ubuntu1) ... Setting up cpp-11 (11.2.0-10ubuntu1) ... Setting up gpg-agent (2.2.27-2ubuntu1) ... Setting up libgdbm-compat4:arm64 (1.22-1) ... Setting up libgcc-11-dev:arm64 (11.2.0-10ubuntu1) ... Setting up gcc-11 (11.2.0-10ubuntu1) ... Setting up libstdc++-11-dev:arm64 (11.2.0-10ubuntu1) ... Setting up g++-11 (11.2.0-10ubuntu1) ... Processing triggers for libc-bin (2.34-0ubuntu3) ... Processing triggers for ca-certificates (20211016) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-22362567 arm64 jammy-proposed -c chroot:build-PACKAGEBUILD-22362567 --arch=arm64 --dist=jammy-proposed --nolog stacks_2.60+dfsg-1.dsc Initiating build PACKAGEBUILD-22362567 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.15.0-161-generic #169-Ubuntu SMP Fri Oct 15 13:41:12 UTC 2021 aarch64 sbuild (Debian sbuild) 0.75.0 (21 Mar 2018) on bos02-arm64-066.buildd +==============================================================================+ | stacks 2.60+dfsg-1 (arm64) Tue, 02 Nov 2021 00:02:04 +0000 | +==============================================================================+ Package: stacks Version: 2.60+dfsg-1 Source Version: 2.60+dfsg-1 Distribution: jammy-proposed Machine Architecture: arm64 Host Architecture: arm64 Build Architecture: arm64 Build Type: any I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-22362567/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- stacks_2.60+dfsg-1.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/stacks-8by3r3/stacks-2.60+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/stacks-8by3r3' with '<>' +------------------------------------------------------------------------------+ | Install build-essential | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<>/resolver-LsfNRX/apt_archive/sbuild-build-depends-core-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-core-dummy dpkg-scanpackages: info: Wrote 1 entries to output Packages file. Ign:1 copy:/<>/resolver-LsfNRX/apt_archive ./ InRelease Get:2 copy:/<>/resolver-LsfNRX/apt_archive ./ Release [957 B] Ign:3 copy:/<>/resolver-LsfNRX/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-LsfNRX/apt_archive ./ Sources [349 B] Get:5 copy:/<>/resolver-LsfNRX/apt_archive ./ Packages [434 B] Fetched 1740 B in 0s (51.3 kB/s) Reading package lists... Reading package lists... Install core build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following NEW packages will be installed: sbuild-build-depends-core-dummy 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 650 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-LsfNRX/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [650 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 650 B in 0s (51.9 kB/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 13239 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_arm64.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (arm64 included in any) +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), zlib1g-dev, libbam-dev, libsparsehash-dev, samtools, libhts-dev Filtered Build-Depends: debhelper-compat (= 13), zlib1g-dev, libbam-dev, libsparsehash-dev, samtools, libhts-dev dpkg-deb: building package 'sbuild-build-depends-stacks-dummy' in '/<>/resolver-LsfNRX/apt_archive/sbuild-build-depends-stacks-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-stacks-dummy dpkg-scanpackages: info: Wrote 2 entries to output Packages file. Ign:1 copy:/<>/resolver-LsfNRX/apt_archive ./ InRelease Get:2 copy:/<>/resolver-LsfNRX/apt_archive ./ Release [963 B] Ign:3 copy:/<>/resolver-LsfNRX/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-LsfNRX/apt_archive ./ Sources [524 B] Get:5 copy:/<>/resolver-LsfNRX/apt_archive ./ Packages [602 B] Fetched 2089 B in 0s (63.8 kB/s) Reading package lists... Reading package lists... Install stacks build dependencies (apt-based resolver) ------------------------------------------------------ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils debhelper debugedit dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libbam-dev libbrotli1 libcurl3-gnutls libcurl4-gnutls-dev libdebhelper-perl libdeflate-dev libdeflate0 libdw1 libelf1 libfile-stripnondeterminism-perl libhts-dev libhts3 libhtscodecs2 libicu67 libldap-2.5-0 liblzma-dev libmagic-mgc libmagic1 libnghttp2-14 libpipeline1 libpsl5 librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libsparsehash-dev libssh-4 libsub-override-perl libtool libuchardet0 libxml2 m4 man-db po-debconf samtools zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc dh-make gettext-doc libasprintf-dev libgettextpo-dev groff libcurl4-doc libgnutls28-dev libidn11-dev libkrb5-dev libldap2-dev librtmp-dev libssh2-1-dev pkg-config liblzma-doc libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl cwltool Recommended packages: curl | wget | lynx libarchive-cpio-perl libldap-common publicsuffix libsasl2-modules libltdl-dev libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils debhelper debugedit dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libbam-dev libbrotli1 libcurl3-gnutls libcurl4-gnutls-dev libdebhelper-perl libdeflate-dev libdeflate0 libdw1 libelf1 libfile-stripnondeterminism-perl libhts-dev libhts3 libhtscodecs2 libicu67 libldap-2.5-0 liblzma-dev libmagic-mgc libmagic1 libnghttp2-14 libpipeline1 libpsl5 librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libsparsehash-dev libssh-4 libsub-override-perl libtool libuchardet0 libxml2 m4 man-db po-debconf samtools sbuild-build-depends-stacks-dummy zlib1g-dev 0 upgraded, 53 newly installed, 0 to remove and 0 not upgraded. Need to get 26.4 MB of archives. After this operation, 83.5 MB of additional disk space will be used. Get:1 copy:/<>/resolver-LsfNRX/apt_archive ./ sbuild-build-depends-stacks-dummy 0.invalid.0 [692 B] Get:2 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 bsdextrautils arm64 2.37.2-4ubuntu1 [70.1 kB] Get:3 http://ftpmaster.internal/ubuntu jammy/main arm64 libuchardet0 arm64 0.0.7-1build1 [76.8 kB] Get:4 http://ftpmaster.internal/ubuntu jammy/main arm64 groff-base arm64 1.22.4-7 [918 kB] Get:5 http://ftpmaster.internal/ubuntu jammy/main arm64 libpipeline1 arm64 1.5.3-1build1 [22.9 kB] Get:6 http://ftpmaster.internal/ubuntu jammy/main arm64 man-db arm64 2.9.4-2build1 [1175 kB] Get:7 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libelf1 arm64 0.185-2 [51.1 kB] Get:8 http://ftpmaster.internal/ubuntu jammy/main arm64 libicu67 arm64 67.1-7ubuntu1 [10.0 MB] Get:9 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libxml2 arm64 2.9.12+dfsg-5 [725 kB] Get:10 http://ftpmaster.internal/ubuntu jammy/main arm64 libmagic-mgc arm64 1:5.39-3build1 [236 kB] Get:11 http://ftpmaster.internal/ubuntu jammy/main arm64 libmagic1 arm64 1:5.39-3build1 [87.8 kB] Get:12 http://ftpmaster.internal/ubuntu jammy/main arm64 file arm64 1:5.39-3build1 [24.7 kB] Get:13 http://ftpmaster.internal/ubuntu jammy/main arm64 gettext-base arm64 0.21-4ubuntu3 [35.2 kB] Get:14 http://ftpmaster.internal/ubuntu jammy/main arm64 libpsl5 arm64 0.21.0-1.2build1 [57.5 kB] Get:15 http://ftpmaster.internal/ubuntu jammy/main arm64 libsigsegv2 arm64 2.13-1ubuntu2 [14.5 kB] Get:16 http://ftpmaster.internal/ubuntu jammy/main arm64 m4 arm64 1.4.18-5ubuntu1 [196 kB] Get:17 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 autoconf all 2.71-2 [338 kB] Get:18 http://ftpmaster.internal/ubuntu jammy/main arm64 autotools-dev all 20180224.1+nmu1 [39.4 kB] Get:19 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 automake all 1:1.16.5-1 [558 kB] Get:20 http://ftpmaster.internal/ubuntu jammy/main arm64 autopoint all 0.21-4ubuntu3 [422 kB] Get:21 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libdebhelper-perl all 13.3.4ubuntu3 [62.4 kB] Get:22 http://ftpmaster.internal/ubuntu jammy/main arm64 libtool all 2.4.6-15build1 [164 kB] Get:23 http://ftpmaster.internal/ubuntu jammy/main arm64 dh-autoreconf all 20 [16.1 kB] Get:24 http://ftpmaster.internal/ubuntu jammy/main arm64 libarchive-zip-perl all 1.68-1 [90.2 kB] Get:25 http://ftpmaster.internal/ubuntu jammy/main arm64 libsub-override-perl all 0.09-2 [9532 B] Get:26 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libfile-stripnondeterminism-perl all 1.12.0-2 [18.0 kB] Get:27 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 dh-strip-nondeterminism all 1.12.0-2 [5208 B] Get:28 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libdw1 arm64 0.185-2 [244 kB] Get:29 http://ftpmaster.internal/ubuntu jammy/main arm64 debugedit arm64 1:5.0-0ubuntu2 [47.0 kB] Get:30 http://ftpmaster.internal/ubuntu jammy/main arm64 dwz arm64 0.14-1build1 [102 kB] Get:31 http://ftpmaster.internal/ubuntu jammy/main arm64 gettext arm64 0.21-4ubuntu3 [775 kB] Get:32 http://ftpmaster.internal/ubuntu jammy/main arm64 intltool-debian all 0.35.0+20060710.5 [24.9 kB] Get:33 http://ftpmaster.internal/ubuntu jammy/main arm64 po-debconf all 1.0.21+nmu1 [233 kB] Get:34 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 debhelper all 13.3.4ubuntu3 [921 kB] Get:35 http://ftpmaster.internal/ubuntu jammy/main arm64 zlib1g-dev arm64 1:1.2.11.dfsg-2ubuntu7 [163 kB] Get:36 http://ftpmaster.internal/ubuntu jammy-proposed/universe arm64 libbam-dev arm64 0.1.19+dfsg-4 [114 kB] Get:37 http://ftpmaster.internal/ubuntu jammy/main arm64 libbrotli1 arm64 1.0.9-2build4 [314 kB] Get:38 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libsasl2-modules-db arm64 2.1.27+dfsg-2.2 [16.0 kB] Get:39 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libsasl2-2 arm64 2.1.27+dfsg-2.2 [51.3 kB] Get:40 http://ftpmaster.internal/ubuntu jammy/main arm64 libldap-2.5-0 arm64 2.5.6+dfsg-1~exp1ubuntu1 [184 kB] Get:41 http://ftpmaster.internal/ubuntu jammy/main arm64 libnghttp2-14 arm64 1.43.0-1build1 [75.3 kB] Get:42 http://ftpmaster.internal/ubuntu jammy/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2build3 [59.3 kB] Get:43 http://ftpmaster.internal/ubuntu jammy/main arm64 libssh-4 arm64 0.9.6-1 [184 kB] Get:44 http://ftpmaster.internal/ubuntu jammy/main arm64 libcurl3-gnutls arm64 7.74.0-1.3ubuntu2 [264 kB] Get:45 http://ftpmaster.internal/ubuntu jammy/main arm64 libcurl4-gnutls-dev arm64 7.74.0-1.3ubuntu2 [366 kB] Get:46 http://ftpmaster.internal/ubuntu jammy/main arm64 libdeflate0 arm64 1.7-2ubuntu2 [53.1 kB] Get:47 http://ftpmaster.internal/ubuntu jammy/main arm64 libdeflate-dev arm64 1.7-2ubuntu2 [47.2 kB] Get:48 http://ftpmaster.internal/ubuntu jammy-proposed/universe arm64 libhtscodecs2 arm64 1.1.1-3 [55.8 kB] Get:49 http://ftpmaster.internal/ubuntu jammy/universe arm64 libhts3 arm64 1.13+ds-2 [378 kB] Get:50 http://ftpmaster.internal/ubuntu jammy/main arm64 liblzma-dev arm64 5.2.5-2build1 [159 kB] Get:51 http://ftpmaster.internal/ubuntu jammy/universe arm64 libhts-dev arm64 1.13+ds-2 [5555 kB] Get:52 http://ftpmaster.internal/ubuntu jammy/universe arm64 libsparsehash-dev all 2.0.3-2 [71.7 kB] Get:53 http://ftpmaster.internal/ubuntu jammy-proposed/universe arm64 samtools arm64 1.13-4 [518 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 26.4 MB in 2s (14.9 MB/s) Selecting previously unselected package bsdextrautils. (Reading database ... 13239 files and directories currently installed.) Preparing to unpack .../00-bsdextrautils_2.37.2-4ubuntu1_arm64.deb ... Unpacking bsdextrautils (2.37.2-4ubuntu1) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../01-libuchardet0_0.0.7-1build1_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.7-1build1) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.4-7_arm64.deb ... Unpacking groff-base (1.22.4-7) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../03-libpipeline1_1.5.3-1build1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.3-1build1) ... Selecting previously unselected package man-db. Preparing to unpack .../04-man-db_2.9.4-2build1_arm64.deb ... Unpacking man-db (2.9.4-2build1) ... Selecting previously unselected package libelf1:arm64. Preparing to unpack .../05-libelf1_0.185-2_arm64.deb ... Unpacking libelf1:arm64 (0.185-2) ... Selecting previously unselected package libicu67:arm64. Preparing to unpack .../06-libicu67_67.1-7ubuntu1_arm64.deb ... Unpacking libicu67:arm64 (67.1-7ubuntu1) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../07-libxml2_2.9.12+dfsg-5_arm64.deb ... Unpacking libxml2:arm64 (2.9.12+dfsg-5) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../08-libmagic-mgc_1%3a5.39-3build1_arm64.deb ... Unpacking libmagic-mgc (1:5.39-3build1) ... Selecting previously unselected package libmagic1:arm64. Preparing to unpack .../09-libmagic1_1%3a5.39-3build1_arm64.deb ... Unpacking libmagic1:arm64 (1:5.39-3build1) ... Selecting previously unselected package file. Preparing to unpack .../10-file_1%3a5.39-3build1_arm64.deb ... Unpacking file (1:5.39-3build1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../11-gettext-base_0.21-4ubuntu3_arm64.deb ... Unpacking gettext-base (0.21-4ubuntu3) ... Selecting previously unselected package libpsl5:arm64. Preparing to unpack .../12-libpsl5_0.21.0-1.2build1_arm64.deb ... Unpacking libpsl5:arm64 (0.21.0-1.2build1) ... Selecting previously unselected package libsigsegv2:arm64. Preparing to unpack .../13-libsigsegv2_2.13-1ubuntu2_arm64.deb ... Unpacking libsigsegv2:arm64 (2.13-1ubuntu2) ... Selecting previously unselected package m4. Preparing to unpack .../14-m4_1.4.18-5ubuntu1_arm64.deb ... Unpacking m4 (1.4.18-5ubuntu1) ... Selecting previously unselected package autoconf. Preparing to unpack .../15-autoconf_2.71-2_all.deb ... Unpacking autoconf (2.71-2) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../16-autotools-dev_20180224.1+nmu1_all.deb ... Unpacking autotools-dev (20180224.1+nmu1) ... Selecting previously unselected package automake. Preparing to unpack .../17-automake_1%3a1.16.5-1_all.deb ... Unpacking automake (1:1.16.5-1) ... Selecting previously unselected package autopoint. Preparing to unpack .../18-autopoint_0.21-4ubuntu3_all.deb ... Unpacking autopoint (0.21-4ubuntu3) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../19-libdebhelper-perl_13.3.4ubuntu3_all.deb ... Unpacking libdebhelper-perl (13.3.4ubuntu3) ... Selecting previously unselected package libtool. Preparing to unpack .../20-libtool_2.4.6-15build1_all.deb ... Unpacking libtool (2.4.6-15build1) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../21-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../22-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../23-libsub-override-perl_0.09-2_all.deb ... Unpacking libsub-override-perl (0.09-2) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../24-libfile-stripnondeterminism-perl_1.12.0-2_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.12.0-2) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../25-dh-strip-nondeterminism_1.12.0-2_all.deb ... Unpacking dh-strip-nondeterminism (1.12.0-2) ... Selecting previously unselected package libdw1:arm64. Preparing to unpack .../26-libdw1_0.185-2_arm64.deb ... Unpacking libdw1:arm64 (0.185-2) ... Selecting previously unselected package debugedit. Preparing to unpack .../27-debugedit_1%3a5.0-0ubuntu2_arm64.deb ... Unpacking debugedit (1:5.0-0ubuntu2) ... Selecting previously unselected package dwz. Preparing to unpack .../28-dwz_0.14-1build1_arm64.deb ... Unpacking dwz (0.14-1build1) ... Selecting previously unselected package gettext. Preparing to unpack .../29-gettext_0.21-4ubuntu3_arm64.deb ... Unpacking gettext (0.21-4ubuntu3) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../30-intltool-debian_0.35.0+20060710.5_all.deb ... Unpacking intltool-debian (0.35.0+20060710.5) ... Selecting previously unselected package po-debconf. Preparing to unpack .../31-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../32-debhelper_13.3.4ubuntu3_all.deb ... Unpacking debhelper (13.3.4ubuntu3) ... Selecting previously unselected package zlib1g-dev:arm64. Preparing to unpack .../33-zlib1g-dev_1%3a1.2.11.dfsg-2ubuntu7_arm64.deb ... Unpacking zlib1g-dev:arm64 (1:1.2.11.dfsg-2ubuntu7) ... Selecting previously unselected package libbam-dev. Preparing to unpack .../34-libbam-dev_0.1.19+dfsg-4_arm64.deb ... Unpacking libbam-dev (0.1.19+dfsg-4) ... Selecting previously unselected package libbrotli1:arm64. Preparing to unpack .../35-libbrotli1_1.0.9-2build4_arm64.deb ... Unpacking libbrotli1:arm64 (1.0.9-2build4) ... Selecting previously unselected package libsasl2-modules-db:arm64. Preparing to unpack .../36-libsasl2-modules-db_2.1.27+dfsg-2.2_arm64.deb ... Unpacking libsasl2-modules-db:arm64 (2.1.27+dfsg-2.2) ... Selecting previously unselected package libsasl2-2:arm64. Preparing to unpack .../37-libsasl2-2_2.1.27+dfsg-2.2_arm64.deb ... Unpacking libsasl2-2:arm64 (2.1.27+dfsg-2.2) ... Selecting previously unselected package libldap-2.5-0:arm64. Preparing to unpack .../38-libldap-2.5-0_2.5.6+dfsg-1~exp1ubuntu1_arm64.deb ... Unpacking libldap-2.5-0:arm64 (2.5.6+dfsg-1~exp1ubuntu1) ... Selecting previously unselected package libnghttp2-14:arm64. Preparing to unpack .../39-libnghttp2-14_1.43.0-1build1_arm64.deb ... Unpacking libnghttp2-14:arm64 (1.43.0-1build1) ... Selecting previously unselected package librtmp1:arm64. Preparing to unpack .../40-librtmp1_2.4+20151223.gitfa8646d.1-2build3_arm64.deb ... Unpacking librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2build3) ... Selecting previously unselected package libssh-4:arm64. Preparing to unpack .../41-libssh-4_0.9.6-1_arm64.deb ... Unpacking libssh-4:arm64 (0.9.6-1) ... Selecting previously unselected package libcurl3-gnutls:arm64. Preparing to unpack .../42-libcurl3-gnutls_7.74.0-1.3ubuntu2_arm64.deb ... Unpacking libcurl3-gnutls:arm64 (7.74.0-1.3ubuntu2) ... Selecting previously unselected package libcurl4-gnutls-dev:arm64. Preparing to unpack .../43-libcurl4-gnutls-dev_7.74.0-1.3ubuntu2_arm64.deb ... Unpacking libcurl4-gnutls-dev:arm64 (7.74.0-1.3ubuntu2) ... Selecting previously unselected package libdeflate0:arm64. Preparing to unpack .../44-libdeflate0_1.7-2ubuntu2_arm64.deb ... Unpacking libdeflate0:arm64 (1.7-2ubuntu2) ... Selecting previously unselected package libdeflate-dev:arm64. Preparing to unpack .../45-libdeflate-dev_1.7-2ubuntu2_arm64.deb ... Unpacking libdeflate-dev:arm64 (1.7-2ubuntu2) ... Selecting previously unselected package libhtscodecs2:arm64. Preparing to unpack .../46-libhtscodecs2_1.1.1-3_arm64.deb ... Unpacking libhtscodecs2:arm64 (1.1.1-3) ... Selecting previously unselected package libhts3:arm64. Preparing to unpack .../47-libhts3_1.13+ds-2_arm64.deb ... Unpacking libhts3:arm64 (1.13+ds-2) ... Selecting previously unselected package liblzma-dev:arm64. Preparing to unpack .../48-liblzma-dev_5.2.5-2build1_arm64.deb ... Unpacking liblzma-dev:arm64 (5.2.5-2build1) ... Selecting previously unselected package libhts-dev:arm64. Preparing to unpack .../49-libhts-dev_1.13+ds-2_arm64.deb ... Unpacking libhts-dev:arm64 (1.13+ds-2) ... Selecting previously unselected package libsparsehash-dev. Preparing to unpack .../50-libsparsehash-dev_2.0.3-2_all.deb ... Unpacking libsparsehash-dev (2.0.3-2) ... Selecting previously unselected package samtools. Preparing to unpack .../51-samtools_1.13-4_arm64.deb ... Unpacking samtools (1.13-4) ... Selecting previously unselected package sbuild-build-depends-stacks-dummy. Preparing to unpack .../52-sbuild-build-depends-stacks-dummy_0.invalid.0_arm64.deb ... Unpacking sbuild-build-depends-stacks-dummy (0.invalid.0) ... Setting up libhtscodecs2:arm64 (1.1.1-3) ... Setting up libpipeline1:arm64 (1.5.3-1build1) ... Setting up libpsl5:arm64 (0.21.0-1.2build1) ... Setting up bsdextrautils (2.37.2-4ubuntu1) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up libicu67:arm64 (67.1-7ubuntu1) ... Setting up libmagic-mgc (1:5.39-3build1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.3.4ubuntu3) ... Setting up libbrotli1:arm64 (1.0.9-2build4) ... Setting up libnghttp2-14:arm64 (1.43.0-1build1) ... Setting up libmagic1:arm64 (1:5.39-3build1) ... Setting up libdeflate0:arm64 (1.7-2ubuntu2) ... Setting up gettext-base (0.21-4ubuntu3) ... Setting up file (1:5.39-3build1) ... Setting up libsparsehash-dev (2.0.3-2) ... Setting up libsasl2-modules-db:arm64 (2.1.27+dfsg-2.2) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2build3) ... Setting up libsigsegv2:arm64 (2.13-1ubuntu2) ... Setting up autopoint (0.21-4ubuntu3) ... Setting up libsasl2-2:arm64 (2.1.27+dfsg-2.2) ... Setting up libssh-4:arm64 (0.9.6-1) ... Setting up liblzma-dev:arm64 (5.2.5-2build1) ... Setting up zlib1g-dev:arm64 (1:1.2.11.dfsg-2ubuntu7) ... Setting up libuchardet0:arm64 (0.0.7-1build1) ... Setting up libsub-override-perl (0.09-2) ... Setting up libdeflate-dev:arm64 (1.7-2ubuntu2) ... Setting up libelf1:arm64 (0.185-2) ... Setting up libxml2:arm64 (2.9.12+dfsg-5) ... Setting up libfile-stripnondeterminism-perl (1.12.0-2) ... Setting up libdw1:arm64 (0.185-2) ... Setting up gettext (0.21-4ubuntu3) ... Setting up libtool (2.4.6-15build1) ... Setting up m4 (1.4.18-5ubuntu1) ... Setting up libldap-2.5-0:arm64 (2.5.6+dfsg-1~exp1ubuntu1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libbam-dev (0.1.19+dfsg-4) ... Setting up autoconf (2.71-2) ... Setting up dh-strip-nondeterminism (1.12.0-2) ... Setting up dwz (0.14-1build1) ... Setting up groff-base (1.22.4-7) ... Setting up debugedit (1:5.0-0ubuntu2) ... Setting up automake (1:1.16.5-1) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up po-debconf (1.0.21+nmu1) ... Setting up libcurl3-gnutls:arm64 (7.74.0-1.3ubuntu2) ... Setting up libcurl4-gnutls-dev:arm64 (7.74.0-1.3ubuntu2) ... Setting up man-db (2.9.4-2build1) ... 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 dh-autoreconf (20) ... Setting up libhts3:arm64 (1.13+ds-2) ... Setting up libhts-dev:arm64 (1.13+ds-2) ... Setting up debhelper (13.3.4ubuntu3) ... Setting up samtools (1.13-4) ... Setting up sbuild-build-depends-stacks-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.34-0ubuntu3) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.15.0-161-generic arm64 (aarch64) Toolchain package versions: binutils_2.37-7ubuntu1 dpkg-dev_1.20.9ubuntu2 g++-11_11.2.0-10ubuntu1 gcc-11_11.2.0-10ubuntu1 libc6-dev_2.34-0ubuntu3 libstdc++-11-dev_11.2.0-10ubuntu1 libstdc++6_11.2.0-10ubuntu1 linux-libc-dev_5.13.0-19.19 Package versions: adduser_3.118ubuntu5 advancecomp_2.1-2.1ubuntu1 apt_2.3.11 autoconf_2.71-2 automake_1:1.16.5-1 autopoint_0.21-4ubuntu3 autotools-dev_20180224.1+nmu1 base-files_12ubuntu1 base-passwd_3.5.52 bash_5.1-3ubuntu2 binutils_2.37-7ubuntu1 binutils-aarch64-linux-gnu_2.37-7ubuntu1 binutils-common_2.37-7ubuntu1 bsdextrautils_2.37.2-4ubuntu1 bsdutils_1:2.37.2-4ubuntu1 build-essential_12.9ubuntu2 bzip2_1.0.8-4ubuntu4 ca-certificates_20211016 coreutils_8.32-4ubuntu3 cpp_4:11.2.0-1ubuntu1 cpp-11_11.2.0-10ubuntu1 dash_0.5.11+git20210903+057cd650a4ed-1 debconf_1.5.79 debhelper_13.3.4ubuntu3 debianutils_5.5-1 debugedit_1:5.0-0ubuntu2 dh-autoreconf_20 dh-strip-nondeterminism_1.12.0-2 diffutils_1:3.8-0ubuntu1 dpkg_1.20.9ubuntu2 dpkg-dev_1.20.9ubuntu2 dwz_0.14-1build1 e2fsprogs_1.46.3-1ubuntu3 fakeroot_1.25.3-1.1ubuntu3 file_1:5.39-3build1 findutils_4.8.0-1ubuntu2 g++_4:11.2.0-1ubuntu1 g++-11_11.2.0-10ubuntu1 gcc_4:11.2.0-1ubuntu1 gcc-11_11.2.0-10ubuntu1 gcc-11-base_11.2.0-10ubuntu1 gettext_0.21-4ubuntu3 gettext-base_0.21-4ubuntu3 gpg_2.2.27-2ubuntu1 gpg-agent_2.2.27-2ubuntu1 gpgconf_2.2.27-2ubuntu1 gpgv_2.2.27-2ubuntu1 grep_3.7-1 groff-base_1.22.4-7 gzip_1.10-4ubuntu2 hostname_3.23ubuntu1 init_1.60build1 init-system-helpers_1.60build1 intltool-debian_0.35.0+20060710.5 libacl1_2.2.53-10ubuntu2 libapparmor1_3.0.3-0ubuntu2 libapt-pkg6.0_2.3.11 libarchive-zip-perl_1.68-1 libargon2-1_0~20171227-0.2build22 libasan6_11.2.0-10ubuntu1 libassuan0_2.5.5-1 libatomic1_11.2.0-10ubuntu1 libattr1_1:2.5.1-1 libaudit-common_1:3.0-2ubuntu3 libaudit1_1:3.0-2ubuntu3 libbam-dev_0.1.19+dfsg-4 libbinutils_2.37-7ubuntu1 libblkid1_2.37.2-4ubuntu1 libbrotli1_1.0.9-2build4 libbz2-1.0_1.0.8-4ubuntu4 libc-bin_2.34-0ubuntu3 libc-dev-bin_2.34-0ubuntu3 libc6_2.34-0ubuntu3 libc6-dev_2.34-0ubuntu3 libcap-ng0_0.7.9-2.2build2 libcap2_1:2.44-1build2 libcc1-0_11.2.0-10ubuntu1 libcom-err2_1.46.3-1ubuntu3 libcrypt-dev_1:4.4.18-4ubuntu2 libcrypt1_1:4.4.18-4ubuntu2 libcryptsetup12_2:2.3.6-0ubuntu1 libctf-nobfd0_2.37-7ubuntu1 libctf0_2.37-7ubuntu1 libcurl3-gnutls_7.74.0-1.3ubuntu2 libcurl4-gnutls-dev_7.74.0-1.3ubuntu2 libdb5.3_5.3.28+dfsg1-0.8ubuntu2 libdebconfclient0_0.256ubuntu4 libdebhelper-perl_13.3.4ubuntu3 libdeflate-dev_1.7-2ubuntu2 libdeflate0_1.7-2ubuntu2 libdevmapper1.02.1_2:1.02.175-2.1ubuntu3 libdpkg-perl_1.20.9ubuntu2 libdw1_0.185-2 libelf1_0.185-2 libext2fs2_1.46.3-1ubuntu3 libfakeroot_1.25.3-1.1ubuntu3 libffi8_3.4.2-1ubuntu5 libfile-stripnondeterminism-perl_1.12.0-2 libgcc-11-dev_11.2.0-10ubuntu1 libgcc-s1_11.2.0-10ubuntu1 libgcrypt20_1.9.4-3ubuntu2 libgdbm-compat4_1.22-1 libgdbm6_1.22-1 libgmp10_2:6.2.1+dfsg-1ubuntu3 libgnutls30_3.7.1-5ubuntu1 libgomp1_11.2.0-10ubuntu1 libgpg-error0_1.42-3 libgssapi-krb5-2_1.18.3-7 libhogweed6_3.7.3-1build1 libhts-dev_1.13+ds-2 libhts3_1.13+ds-2 libhtscodecs2_1.1.1-3 libhwasan0_11.2.0-10ubuntu1 libicu67_67.1-7ubuntu1 libidn2-0_2.3.2-2 libip4tc2_1.8.7-1ubuntu3 libisl23_0.24-2 libitm1_11.2.0-10ubuntu1 libjson-c5_0.15-2build3 libk5crypto3_1.18.3-7 libkeyutils1_1.6.1-2ubuntu2 libkmod2_28-1ubuntu4 libkrb5-3_1.18.3-7 libkrb5support0_1.18.3-7 libldap-2.5-0_2.5.6+dfsg-1~exp1ubuntu1 liblockfile-bin_1.17-1build1 liblockfile1_1.17-1build1 liblsan0_11.2.0-10ubuntu1 liblz4-1_1.9.3-2build1 liblzma-dev_5.2.5-2build1 liblzma5_5.2.5-2build1 libmagic-mgc_1:5.39-3build1 libmagic1_1:5.39-3build1 libmount1_2.37.2-4ubuntu1 libmpc3_1.2.1-1 libmpfr6_4.1.0-3build2 libncurses6_6.2+20210905-1 libncursesw6_6.2+20210905-1 libnettle8_3.7.3-1build1 libnghttp2-14_1.43.0-1build1 libnpth0_1.6-3build1 libnsl-dev_1.3.0-2build1 libnsl2_1.3.0-2build1 libp11-kit0_0.24.0-5 libpam-modules_1.4.0-10ubuntu1 libpam-modules-bin_1.4.0-10ubuntu1 libpam-runtime_1.4.0-10ubuntu1 libpam0g_1.4.0-10ubuntu1 libpcre2-8-0_10.37-0ubuntu2 libpcre3_2:8.39-13build4 libperl5.32_5.32.1-3ubuntu3 libpipeline1_1.5.3-1build1 libpng16-16_1.6.37-3build4 libprocps8_2:3.3.17-5ubuntu3 libpsl5_0.21.0-1.2build1 libreadline8_8.1-2build1 librtmp1_2.4+20151223.gitfa8646d.1-2build3 libsasl2-2_2.1.27+dfsg-2.2 libsasl2-modules-db_2.1.27+dfsg-2.2 libseccomp2_2.5.1-1ubuntu2 libselinux1_3.1-3build3 libsemanage-common_3.1-1ubuntu3 libsemanage1_3.1-1ubuntu3 libsepol1_3.1-1ubuntu2 libsigsegv2_2.13-1ubuntu2 libsmartcols1_2.37.2-4ubuntu1 libsparsehash-dev_2.0.3-2 libsqlite3-0_3.36.0-2 libss2_1.46.3-1ubuntu3 libssh-4_0.9.6-1 libssl1.1_1.1.1l-1ubuntu1 libstdc++-11-dev_11.2.0-10ubuntu1 libstdc++6_11.2.0-10ubuntu1 libsub-override-perl_0.09-2 libsystemd0_248.3-1ubuntu8 libtasn1-6_4.17.0-2 libtinfo6_6.2+20210905-1 libtirpc-common_1.3.2-2 libtirpc-dev_1.3.2-2 libtirpc3_1.3.2-2 libtool_2.4.6-15build1 libtsan0_11.2.0-10ubuntu1 libubsan1_11.2.0-10ubuntu1 libuchardet0_0.0.7-1build1 libudev1_248.3-1ubuntu8 libunistring2_0.9.10-6 libuuid1_2.37.2-4ubuntu1 libxml2_2.9.12+dfsg-5 libxxhash0_0.8.0-2build1 libzstd1_1.4.8+dfsg-3 linux-libc-dev_5.13.0-19.19 lockfile-progs_0.1.19 login_1:4.8.1-1ubuntu9 logsave_1.46.3-1ubuntu3 lsb-base_11.1.0ubuntu3 lto-disabled-list_16 m4_1.4.18-5ubuntu1 make_4.3-4ubuntu2 man-db_2.9.4-2build1 mawk_1.3.4.20200120-2build1 mount_2.37.2-4ubuntu1 ncurses-base_6.2+20210905-1 ncurses-bin_6.2+20210905-1 openssl_1.1.1l-1ubuntu1 optipng_0.7.7-2 passwd_1:4.8.1-1ubuntu9 patch_2.7.6-7build1 perl_5.32.1-3ubuntu3 perl-base_5.32.1-3ubuntu3 perl-modules-5.32_5.32.1-3ubuntu3 pinentry-curses_1.1.1-1build1 pkgbinarymangler_148 po-debconf_1.0.21+nmu1 policyrcd-script-zg2_0.1-3 procps_2:3.3.17-5ubuntu3 readline-common_8.1-2build1 rpcsvc-proto_1.4.2-0ubuntu5 samtools_1.13-4 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-stacks-dummy_0.invalid.0 sed_4.7-1ubuntu2 sensible-utils_0.0.17 systemd_248.3-1ubuntu8 systemd-sysv_248.3-1ubuntu8 systemd-timesyncd_248.3-1ubuntu8 sysvinit-utils_2.96-7ubuntu2 tar_1.34+dfsg-1build2 tzdata_2021e-1ubuntu1 ubuntu-keyring_2021.03.26 usrmerge_25ubuntu2 util-linux_2.37.2-4ubuntu1 xz-utils_5.2.5-2build1 zlib1g_1:1.2.11.dfsg-2ubuntu7 zlib1g-dev_1:1.2.11.dfsg-2ubuntu7 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Mon Nov 1 18:45:08 2021 UTC gpgv: using RSA key 3E99A526F5DCC0CBBF1CEEA600BAE74B343369F1 gpgv: issuer "nilesh@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./stacks_2.60+dfsg-1.dsc dpkg-source: info: extracting stacks in /<>/stacks-2.60+dfsg dpkg-source: info: unpacking stacks_2.60+dfsg.orig.tar.xz dpkg-source: info: unpacking stacks_2.60+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying RisR.patch dpkg-source: info: applying script-exe-paths dpkg-source: info: applying use_debian_packaged_htslib.patch dpkg-source: info: applying 2to3.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-22362567 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-22362567 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-22362567 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package stacks dpkg-buildpackage: info: source version 2.60+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean debian/rules override_dh_clean make[1]: Entering directory '/<>/stacks-2.60+dfsg' dh_clean rm -f ./constants.php make[1]: Leaving directory '/<>/stacks-2.60+dfsg' debian/rules binary-arch dh binary-arch dh_update_autotools_config -a dh_autoreconf -a configure.ac:28: warning: The macro `AC_HEADER_STDC' is obsolete. configure.ac:28: You should run autoupdate. ./lib/autoconf/headers.m4:704: AC_HEADER_STDC is expanded from... configure.ac:28: the top level configure.ac:20: installing 'config/ar-lib' configure.ac:15: installing 'config/compile' configure.ac:42: installing 'config/config.guess' configure.ac:42: installing 'config/config.sub' configure.ac:7: installing 'config/install-sh' configure.ac:7: installing 'config/missing' Makefile.am: installing 'config/depcomp' parallel-tests: installing 'config/test-driver' debian/rules override_dh_auto_configure make[1]: Entering directory '/<>/stacks-2.60+dfsg' dh_auto_configure -- --enable-sparsehash --enable-bam \ --with-bam-include-path=/usr/include/samtools \ --with-bam-lib-path=/usr/lib ./configure --build=aarch64-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/aarch64-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --enable-sparsehash --enable-bam --with-bam-include-path=/usr/include/samtools --with-bam-lib-path=/usr/lib checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a race-free mkdir -p... /usr/bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking for g++... g++ checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C++... yes checking whether g++ accepts -g... yes checking for g++ option to enable C++11 features... none needed checking whether make supports the include directive... yes (GNU style) checking dependency style of g++... none checking for gcc... gcc checking whether the compiler supports GNU C... yes checking whether gcc accepts -g... yes checking for gcc option to enable C11 features... none needed checking whether gcc understands -c and -o together... yes checking dependency style of gcc... none checking whether g++ supports C++11 features by default... yes checking for ranlib... ranlib checking for ar... ar checking the archiver (ar) interface... ar checking for omp_set_num_threads in -lgomp... yes checking for gzread in -lz... yes checking for dirent.h that defines DIR... yes checking for library containing opendir... none required checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for float.h... yes checking for limits.h... yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for unistd.h... (cached) yes checking for gcc option to support OpenMP... -fopenmp checking for _Bool... yes checking for stdbool.h that conforms to C99... yes checking for an ANSI C-conforming const... yes checking for size_t... yes checking whether closedir returns void... no checking build system type... aarch64-unknown-linux-gnu checking host system type... aarch64-unknown-linux-gnu checking for GNU libc compatible malloc... yes checking for GNU libc compatible realloc... yes checking for floor... no checking for memset... yes checking for pow... no checking for sqrt... no checking for clock_gettime... yes checking for functional regular expressions... yes checking for gawk... (cached) mawk checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating config.h config.status: executing depfiles commands make[1]: Leaving directory '/<>/stacks-2.60+dfsg' dh_auto_build -a make -j4 make[1]: Entering directory '/<>/stacks-2.60+dfsg' make all-recursive make[2]: Entering directory '/<>/stacks-2.60+dfsg' make[3]: Entering directory '/<>/stacks-2.60+dfsg' g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ustacks.o src/ustacks.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/aln_utils.o src/aln_utils.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/BamI.o src/BamI.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/catalog_utils.o src/catalog_utils.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/cmb.o src/cmb.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/constants.o src/constants.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/DNANSeq.o src/DNANSeq.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/DNASeq4.o src/DNASeq4.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/DNASeq.o src/DNASeq.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/gzFasta.o src/gzFasta.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/input.o src/input.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/kmers.o src/kmers.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/locus.o src/locus.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/log_utils.o src/log_utils.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/MetaPopInfo.o src/MetaPopInfo.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/models.o src/models.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/mstack.o src/mstack.cc In file included from /usr/include/c++/11/bits/stl_algo.h:61, from /usr/include/c++/11/algorithm:62, from src/constants.h:53, from src/models.h:24, from src/models.cc:30: /usr/include/c++/11/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = std::pair*; _Distance = long int; _Tp = std::pair; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/include/c++/11/bits/stl_heap.h:223:5: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 223 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/mst.o src/mst.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/nucleotides.o src/nucleotides.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/renz.o src/renz.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/Seq.o src/Seq.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/sql_utilities.o src/sql_utilities.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/stacks.o src/stacks.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/utils.o src/utils.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/Vcf.o src/Vcf.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/cstacks.o src/cstacks.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/sstacks.o src/sstacks.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/process_radtags.o src/process_radtags.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/clean.o src/clean.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/file_io.o src/file_io.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/write.o src/write.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/process_shortreads.o src/process_shortreads.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/kmer_filter.o src/kmer_filter.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/clone_filter.o src/clone_filter.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/populations.o src/populations.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/bootstrap.o src/bootstrap.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/export_formats.o src/export_formats.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/mapping_utils.o src/mapping_utils.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/genotype_dictionaries.o src/genotype_dictionaries.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/PopSum.o src/PopSum.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/Hwp.o src/Hwp.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/phasedstacks.o src/phasedstacks.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/tsv2bam.o src/tsv2bam.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/gstacks.o src/gstacks.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/debruijn.o src/debruijn.cc g++ -DHAVE_CONFIG_H -I. -fopenmp -I./htslib -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o src/SuffixTree.o src/SuffixTree.cc rm -f libcore.a ar cru libcore.a src/aln_utils.o src/BamI.o src/catalog_utils.o src/cmb.o src/constants.o src/DNANSeq.o src/DNASeq4.o src/DNASeq.o src/gzFasta.o src/input.o src/kmers.o src/locus.o src/log_utils.o src/MetaPopInfo.o src/models.o src/mstack.o src/mst.o src/nucleotides.o src/renz.o src/Seq.o src/sql_utilities.o src/stacks.o src/utils.o src/Vcf.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libcore.a rm -f libclean.a ar cru libclean.a src/clean.o src/file_io.o src/write.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libclean.a rm -f libpop.a ar cru libpop.a src/bootstrap.o src/export_formats.o src/mapping_utils.o src/genotype_dictionaries.o src/PopSum.o src/Hwp.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libpop.a g++ -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now -o phasedstacks src/phasedstacks.o -lhts libcore.a -lz -lgomp g++ -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now -o ustacks src/ustacks.o -lhts libcore.a -lz -lgomp g++ -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now -o cstacks src/cstacks.o -lhts libcore.a -lz -lgomp g++ -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now -o sstacks src/sstacks.o -lhts libcore.a -lz -lgomp g++ -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now -o process_radtags src/process_radtags.o -lhts libcore.a libclean.a -lz -lgomp g++ -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now -o process_shortreads src/process_shortreads.o -lhts libcore.a libclean.a -lz -lgomp g++ -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now -o kmer_filter src/kmer_filter.o -lhts libcore.a libclean.a -lz -lgomp g++ -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now -o clone_filter src/clone_filter.o -lhts libcore.a libclean.a -lz -lgomp g++ -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now -o populations src/populations.o -lhts libcore.a libpop.a -lz -lgomp g++ -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now -o tsv2bam src/tsv2bam.o -lhts libcore.a -lz -lgomp g++ -g -O2 -ffile-prefix-map=/<>/stacks-2.60+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fopenmp -Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now -o gstacks src/gstacks.o src/debruijn.o src/SuffixTree.o -lhts libcore.a -lz -lgomp /usr/include/c++/11/bits/stl_heap.h: In function ‘__adjust_heap.constprop’: /usr/include/c++/11/bits/stl_heap.h:223:5: note: parameter passing for argument of type ‘struct pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 223 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^ make[3]: Leaving directory '/<>/stacks-2.60+dfsg' make[2]: Leaving directory '/<>/stacks-2.60+dfsg' make[1]: Leaving directory '/<>/stacks-2.60+dfsg' debian/rules override_dh_auto_test make[1]: Entering directory '/<>/stacks-2.60+dfsg' if [ -e /usr/share/automake-1.16/tap-driver.sh ] ; then \ ln -s /usr/share/automake-1.16/tap-driver.sh tests/tap-driver.sh ; \ else \ echo "Make sure /usr/share/automake-*/tap-driver.sh exists and is linked" ; \ false ; \ fi # dh_auto_test rm tests/tap-driver.sh # FIXME: Does not work even after this trick. See # https://groups.google.com/forum/#!msg/stacks-users/TA2tMEqb4Mg/pQy4fUCYi9kJ true make[1]: Leaving directory '/<>/stacks-2.60+dfsg' create-stamp debian/debhelper-build-stamp dh_prep -a debian/rules override_dh_auto_install make[1]: Entering directory '/<>/stacks-2.60+dfsg' dh_auto_install --no-parallel make -j1 install DESTDIR=/<>/stacks-2.60\+dfsg/debian/stacks AM_UPDATE_INFO_DIR=no make[2]: Entering directory '/<>/stacks-2.60+dfsg' make[3]: Entering directory '/<>/stacks-2.60+dfsg' make[4]: Entering directory '/<>/stacks-2.60+dfsg' /usr/bin/mkdir -p '/<>/stacks-2.60+dfsg/debian/stacks/usr/bin' /usr/bin/install -c ustacks cstacks sstacks process_radtags process_shortreads kmer_filter clone_filter populations phasedstacks tsv2bam gstacks '/<>/stacks-2.60+dfsg/debian/stacks/usr/bin' /usr/bin/mkdir -p '/<>/stacks-2.60+dfsg/debian/stacks/usr/bin' /usr/bin/install -c scripts/denovo_map.pl scripts/ref_map.pl scripts/integrate_alignments.py scripts/count_fixed_catalog_snps.py scripts/stacks-integrate-alignments scripts/stacks-dist-extract scripts/stacks-gdb scripts/stacks-samtools-tview scripts/stacks-count-reads-per-sample-per-locus scripts/stacks-hist2d-loci-samples-coverage '/<>/stacks-2.60+dfsg/debian/stacks/usr/bin' make install-data-hook make[5]: Entering directory '/<>/stacks-2.60+dfsg' sed -e 's,_VERSION_,2.60,' -e 's,_BINDIR_,/usr/lib/stacks/bin/,g' -e 's,_PKGDATADIR_,/usr/share/stacks/,g' /<>/stacks-2.60+dfsg/debian/stacks/usr/bin/denovo_map.pl > /<>/stacks-2.60+dfsg/debian/stacks/usr/bin/denovo_map.pl.subst mv /<>/stacks-2.60+dfsg/debian/stacks/usr/bin/denovo_map.pl.subst /<>/stacks-2.60+dfsg/debian/stacks/usr/bin/denovo_map.pl chmod +x /<>/stacks-2.60+dfsg/debian/stacks/usr/bin/denovo_map.pl sed -e 's,_VERSION_,2.60,' -e 's,_BINDIR_,/usr/lib/stacks/bin/,g' -e 's,_PKGDATADIR_,/usr/share/stacks/,g' /<>/stacks-2.60+dfsg/debian/stacks/usr/bin/ref_map.pl > /<>/stacks-2.60+dfsg/debian/stacks/usr/bin/ref_map.pl.subst mv /<>/stacks-2.60+dfsg/debian/stacks/usr/bin/ref_map.pl.subst /<>/stacks-2.60+dfsg/debian/stacks/usr/bin/ref_map.pl chmod +x /<>/stacks-2.60+dfsg/debian/stacks/usr/bin/ref_map.pl sed -i.bkp -e 's,_VERSION_,2.60,' /<>/stacks-2.60+dfsg/debian/stacks/usr/bin/stacks-integrate-alignments sed -i.bkp -e 's,_VERSION_,2.60,' /<>/stacks-2.60+dfsg/debian/stacks/usr/bin/stacks-samtools-tview rm -f /<>/stacks-2.60+dfsg/debian/stacks/usr/bin/stacks-integrate-alignments.bkp rm -f /<>/stacks-2.60+dfsg/debian/stacks/usr/bin/stacks-samtools-tview.bkp chmod +x /<>/stacks-2.60+dfsg/debian/stacks/usr/bin/stacks-integrate-alignments chmod +x /<>/stacks-2.60+dfsg/debian/stacks/usr/bin/stacks-dist-extract chmod +x /<>/stacks-2.60+dfsg/debian/stacks/usr/bin/stacks-gdb make[5]: Leaving directory '/<>/stacks-2.60+dfsg' make[4]: Leaving directory '/<>/stacks-2.60+dfsg' make[3]: Leaving directory '/<>/stacks-2.60+dfsg' make[2]: Leaving directory '/<>/stacks-2.60+dfsg' make[1]: Leaving directory '/<>/stacks-2.60+dfsg' debian/rules override_dh_install make[1]: Entering directory '/<>/stacks-2.60+dfsg' mkdir -p debian/stacks/usr/lib/stacks mv debian/stacks/usr/bin debian/stacks/usr/lib/stacks cd debian/stacks/usr/lib/stacks/bin && \ for f in *.pl ; do \ ln -s "$f" "`basename $f .pl`" ; \ sed -i '1s?^#!/usr/bin/env.*perl?#!/usr/bin/perl?' $f ; \ done dh_install make[1]: Leaving directory '/<>/stacks-2.60+dfsg' dh_installdocs -a dh_installchangelogs -a dh_perl -a debian/rules override_dh_link make[1]: Entering directory '/<>/stacks-2.60+dfsg' dh_link mkdir -p debian/stacks/usr/lib/debian-med/bin cd debian/stacks/usr/lib/debian-med/bin && \ for f in `ls /<>/stacks-2.60+dfsg/debian/stacks/usr/lib/stacks/bin` ; do \ ln -s ../../stacks/bin/$f ; \ done make[1]: Leaving directory '/<>/stacks-2.60+dfsg' dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a dh_dwz -a -a dh_strip -a -a debugedit: debian/stacks/usr/lib/stacks/bin/process_shortreads: Unknown DWARF DW_FORM_0x1f20 1d441fc6c42e9a8b74456ff1728ee479ccc3b0f3 debugedit: debian/stacks/usr/lib/stacks/bin/tsv2bam: Unknown DWARF DW_FORM_0x1f21 471d7764500cd4bfc35dc9fd6f4d23a294a4c9f9 debugedit: debian/stacks/usr/lib/stacks/bin/populations: Unknown DWARF DW_FORM_0x1f20 aa8bfc7d34fd297e4bcdbc0cc46ed8d92103dce5 debugedit: debian/stacks/usr/lib/stacks/bin/cstacks: Unknown DWARF DW_FORM_0x1f21 021aac715e64129fa68724d7816828208f17514d debugedit: debian/stacks/usr/lib/stacks/bin/clone_filter: Unknown DWARF DW_FORM_0x1f21 b92e1b0f7de3ed7f2611868b4bbd9ac071bd2f3a debugedit: debian/stacks/usr/lib/stacks/bin/kmer_filter: Unknown DWARF DW_FORM_0x1f20 4e504fbef9a8c40f510a455c07f12d72789a40c2 debugedit: debian/stacks/usr/lib/stacks/bin/sstacks: Unknown DWARF DW_FORM_0x1f20 763dd42c2a92f7b0388a8c947feddc6a6fe618dc debugedit: debian/stacks/usr/lib/stacks/bin/gstacks: Unknown DWARF DW_FORM_0x1f21 2b4d0d36f62550c16ed072cf45ace3ff981ce80c debugedit: debian/stacks/usr/lib/stacks/bin/phasedstacks: Unknown DWARF DW_FORM_0x1f21 37b49b66d92dd8700cce35e9594252694908112d debugedit: debian/stacks/usr/lib/stacks/bin/process_radtags: Unknown DWARF DW_FORM_0x1f20 5f9be9af23441d62c805c8b20c32dd7f15a0116d debugedit: debian/stacks/usr/lib/stacks/bin/ustacks: Unknown DWARF DW_FORM_0x1f21 8eab056eae208d5e3f8b6aeaefda27eb4ba53918 dh_makeshlibs -a -a dh_shlibdeps -a -a dh_installdeb -a dh_gencontrol -a dpkg-gencontrol: warning: package stacks: substitution variable ${perl:Depends} unused, but is defined dpkg-gencontrol: warning: package stacks: substitution variable ${perl:Depends} unused, but is defined dh_md5sums -a dh_builddeb -a /usr/bin/which: this version of `which' is deprecated; use `command -v' in scripts instead. /usr/bin/which: this version of `which' is deprecated; use `command -v' in scripts instead. /usr/bin/which: this version of `which' is deprecated; use `command -v' in scripts instead. /usr/bin/which: this version of `which' is deprecated; use `command -v' in scripts instead. INFO: pkgstriptranslations version 148 INFO: pkgstriptranslations version 148 pkgstriptranslations: processing stacks-dbgsym (in debian/.debhelper/stacks/dbgsym-root); do_strip: , oemstrip: pkgstriptranslations: processing stacks (in debian/stacks); do_strip: , oemstrip: /usr/bin/which: this version of `which' is deprecated; use `command -v' in scripts instead. pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " /usr/bin/which: this version of `which' is deprecated; use `command -v' in scripts instead. pkgstripfiles: processing control file: debian/.debhelper/stacks/dbgsym-root/DEBIAN/control, package stacks-dbgsym, directory debian/.debhelper/stacks/dbgsym-root dpkg-deb: building package 'stacks-dbgsym' in 'debian/.debhelper/scratch-space/build-stacks/stacks-dbgsym_2.60+dfsg-1_arm64.deb'. /usr/bin/which: this version of `which' is deprecated; use `command -v' in scripts instead. pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " /usr/bin/which: this version of `which' is deprecated; use `command -v' in scripts instead. pkgstripfiles: processing control file: debian/stacks/DEBIAN/control, package stacks, directory debian/stacks pkgstripfiles: Truncating usr/share/doc/stacks/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 4 cpus) for package stacks ... pkgstripfiles: No PNG files. dpkg-deb: building package 'stacks' in '../stacks_2.60+dfsg-1_arm64.deb'. Renaming stacks-dbgsym_2.60+dfsg-1_arm64.deb to stacks-dbgsym_2.60+dfsg-1_arm64.ddeb dpkg-genbuildinfo --build=any dpkg-genchanges --build=any -mLaunchpad Build Daemon >../stacks_2.60+dfsg-1_arm64.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2021-11-02T00:10:15Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ stacks_2.60+dfsg-1_arm64.changes: --------------------------------- Format: 1.8 Date: Tue, 02 Nov 2021 00:08:37 +0530 Source: stacks Binary: stacks Built-For-Profiles: noudeb Architecture: arm64 Version: 2.60+dfsg-1 Distribution: jammy-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Nilesh Patra Description: stacks - pipeline for building loci from short-read DNA sequences Changes: stacks (2.60+dfsg-1) unstable; urgency=medium . * Team upload. * New upstream version 2.60+dfsg * Run cme Checksums-Sha1: 49174b7607cd232fcc5ea58ab367d43018399540 14692124 stacks-dbgsym_2.60+dfsg-1_arm64.ddeb 401376342242273fd50140e265b2bdefd0646756 6655 stacks_2.60+dfsg-1_arm64.buildinfo 2a15ecc93a1576d71c3f7c3e805bba177608a288 923984 stacks_2.60+dfsg-1_arm64.deb Checksums-Sha256: cf8f70bef32dc58666e6277d38501c6230c2b34ddbb60e85361384aef23b6396 14692124 stacks-dbgsym_2.60+dfsg-1_arm64.ddeb b90845fb515e79bf7625bf3b6ef2e45a5a4417854cd7db89649140f82608694a 6655 stacks_2.60+dfsg-1_arm64.buildinfo ce34b0ca55d0e15d4f7d70b3e8fcce5b92a6bfa09a54293a83f1bd9095c67294 923984 stacks_2.60+dfsg-1_arm64.deb Files: 003a781115047446d45a55029d599fa7 14692124 debug optional stacks-dbgsym_2.60+dfsg-1_arm64.ddeb 7f656c6ba5c4f986df4618f76886caf2 6655 science optional stacks_2.60+dfsg-1_arm64.buildinfo e37d97961561ae6ece342655f7a9592a 923984 science optional stacks_2.60+dfsg-1_arm64.deb +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: stacks Binary: stacks stacks-dbgsym Architecture: arm64 Version: 2.60+dfsg-1 Checksums-Md5: 003a781115047446d45a55029d599fa7 14692124 stacks-dbgsym_2.60+dfsg-1_arm64.ddeb e37d97961561ae6ece342655f7a9592a 923984 stacks_2.60+dfsg-1_arm64.deb Checksums-Sha1: 49174b7607cd232fcc5ea58ab367d43018399540 14692124 stacks-dbgsym_2.60+dfsg-1_arm64.ddeb 2a15ecc93a1576d71c3f7c3e805bba177608a288 923984 stacks_2.60+dfsg-1_arm64.deb Checksums-Sha256: cf8f70bef32dc58666e6277d38501c6230c2b34ddbb60e85361384aef23b6396 14692124 stacks-dbgsym_2.60+dfsg-1_arm64.ddeb ce34b0ca55d0e15d4f7d70b3e8fcce5b92a6bfa09a54293a83f1bd9095c67294 923984 stacks_2.60+dfsg-1_arm64.deb Build-Origin: Ubuntu Build-Architecture: arm64 Build-Date: Tue, 02 Nov 2021 00:10:13 +0000 Build-Path: /<>/stacks-2.60+dfsg Build-Tainted-By: merged-usr-via-aliased-dirs usr-local-has-programs Installed-Build-Depends: autoconf (= 2.71-2), automake (= 1:1.16.5-1), autopoint (= 0.21-4ubuntu3), autotools-dev (= 20180224.1+nmu1), base-files (= 12ubuntu1), base-passwd (= 3.5.52), bash (= 5.1-3ubuntu2), binutils (= 2.37-7ubuntu1), binutils-aarch64-linux-gnu (= 2.37-7ubuntu1), binutils-common (= 2.37-7ubuntu1), bsdextrautils (= 2.37.2-4ubuntu1), bsdutils (= 1:2.37.2-4ubuntu1), build-essential (= 12.9ubuntu2), bzip2 (= 1.0.8-4ubuntu4), coreutils (= 8.32-4ubuntu3), cpp (= 4:11.2.0-1ubuntu1), cpp-11 (= 11.2.0-10ubuntu1), dash (= 0.5.11+git20210903+057cd650a4ed-1), debconf (= 1.5.79), debhelper (= 13.3.4ubuntu3), debianutils (= 5.5-1), debugedit (= 1:5.0-0ubuntu2), dh-autoreconf (= 20), dh-strip-nondeterminism (= 1.12.0-2), diffutils (= 1:3.8-0ubuntu1), dpkg (= 1.20.9ubuntu2), dpkg-dev (= 1.20.9ubuntu2), dwz (= 0.14-1build1), file (= 1:5.39-3build1), findutils (= 4.8.0-1ubuntu2), g++ (= 4:11.2.0-1ubuntu1), g++-11 (= 11.2.0-10ubuntu1), gcc (= 4:11.2.0-1ubuntu1), gcc-11 (= 11.2.0-10ubuntu1), gcc-11-base (= 11.2.0-10ubuntu1), gettext (= 0.21-4ubuntu3), gettext-base (= 0.21-4ubuntu3), grep (= 3.7-1), groff-base (= 1.22.4-7), gzip (= 1.10-4ubuntu2), hostname (= 3.23ubuntu1), init-system-helpers (= 1.60build1), intltool-debian (= 0.35.0+20060710.5), libacl1 (= 2.2.53-10ubuntu2), libarchive-zip-perl (= 1.68-1), libasan6 (= 11.2.0-10ubuntu1), libatomic1 (= 11.2.0-10ubuntu1), libattr1 (= 1:2.5.1-1), libaudit-common (= 1:3.0-2ubuntu3), libaudit1 (= 1:3.0-2ubuntu3), libbam-dev (= 0.1.19+dfsg-4), libbinutils (= 2.37-7ubuntu1), libblkid1 (= 2.37.2-4ubuntu1), libbrotli1 (= 1.0.9-2build4), libbz2-1.0 (= 1.0.8-4ubuntu4), libc-bin (= 2.34-0ubuntu3), libc-dev-bin (= 2.34-0ubuntu3), libc6 (= 2.34-0ubuntu3), libc6-dev (= 2.34-0ubuntu3), libcap-ng0 (= 0.7.9-2.2build2), libcap2 (= 1:2.44-1build2), libcc1-0 (= 11.2.0-10ubuntu1), libcom-err2 (= 1.46.3-1ubuntu3), libcrypt-dev (= 1:4.4.18-4ubuntu2), libcrypt1 (= 1:4.4.18-4ubuntu2), libctf-nobfd0 (= 2.37-7ubuntu1), libctf0 (= 2.37-7ubuntu1), libcurl3-gnutls (= 7.74.0-1.3ubuntu2), libcurl4-gnutls-dev (= 7.74.0-1.3ubuntu2), libdb5.3 (= 5.3.28+dfsg1-0.8ubuntu2), libdebconfclient0 (= 0.256ubuntu4), libdebhelper-perl (= 13.3.4ubuntu3), libdeflate-dev (= 1.7-2ubuntu2), libdeflate0 (= 1.7-2ubuntu2), libdpkg-perl (= 1.20.9ubuntu2), libdw1 (= 0.185-2), libelf1 (= 0.185-2), libffi8 (= 3.4.2-1ubuntu5), libfile-stripnondeterminism-perl (= 1.12.0-2), libgcc-11-dev (= 11.2.0-10ubuntu1), libgcc-s1 (= 11.2.0-10ubuntu1), libgcrypt20 (= 1.9.4-3ubuntu2), libgdbm-compat4 (= 1.22-1), libgdbm6 (= 1.22-1), libgmp10 (= 2:6.2.1+dfsg-1ubuntu3), libgnutls30 (= 3.7.1-5ubuntu1), libgomp1 (= 11.2.0-10ubuntu1), libgpg-error0 (= 1.42-3), libgssapi-krb5-2 (= 1.18.3-7), libhogweed6 (= 3.7.3-1build1), libhts-dev (= 1.13+ds-2), libhts3 (= 1.13+ds-2), libhtscodecs2 (= 1.1.1-3), libhwasan0 (= 11.2.0-10ubuntu1), libicu67 (= 67.1-7ubuntu1), libidn2-0 (= 2.3.2-2), libisl23 (= 0.24-2), libitm1 (= 11.2.0-10ubuntu1), libk5crypto3 (= 1.18.3-7), libkeyutils1 (= 1.6.1-2ubuntu2), libkrb5-3 (= 1.18.3-7), libkrb5support0 (= 1.18.3-7), libldap-2.5-0 (= 2.5.6+dfsg-1~exp1ubuntu1), liblsan0 (= 11.2.0-10ubuntu1), liblz4-1 (= 1.9.3-2build1), liblzma-dev (= 5.2.5-2build1), liblzma5 (= 5.2.5-2build1), libmagic-mgc (= 1:5.39-3build1), libmagic1 (= 1:5.39-3build1), libmount1 (= 2.37.2-4ubuntu1), libmpc3 (= 1.2.1-1), libmpfr6 (= 4.1.0-3build2), libncurses6 (= 6.2+20210905-1), libnettle8 (= 3.7.3-1build1), libnghttp2-14 (= 1.43.0-1build1), libnsl-dev (= 1.3.0-2build1), libnsl2 (= 1.3.0-2build1), libp11-kit0 (= 0.24.0-5), libpam-modules (= 1.4.0-10ubuntu1), libpam-modules-bin (= 1.4.0-10ubuntu1), libpam-runtime (= 1.4.0-10ubuntu1), libpam0g (= 1.4.0-10ubuntu1), libpcre2-8-0 (= 10.37-0ubuntu2), libpcre3 (= 2:8.39-13build4), libperl5.32 (= 5.32.1-3ubuntu3), libpipeline1 (= 1.5.3-1build1), libpsl5 (= 0.21.0-1.2build1), librtmp1 (= 2.4+20151223.gitfa8646d.1-2build3), libsasl2-2 (= 2.1.27+dfsg-2.2), libsasl2-modules-db (= 2.1.27+dfsg-2.2), libseccomp2 (= 2.5.1-1ubuntu2), libselinux1 (= 3.1-3build3), libsigsegv2 (= 2.13-1ubuntu2), libsmartcols1 (= 2.37.2-4ubuntu1), libsparsehash-dev (= 2.0.3-2), libssh-4 (= 0.9.6-1), libssl1.1 (= 1.1.1l-1ubuntu1), libstdc++-11-dev (= 11.2.0-10ubuntu1), libstdc++6 (= 11.2.0-10ubuntu1), libsub-override-perl (= 0.09-2), libsystemd0 (= 248.3-1ubuntu8), libtasn1-6 (= 4.17.0-2), libtinfo6 (= 6.2+20210905-1), libtirpc-common (= 1.3.2-2), libtirpc-dev (= 1.3.2-2), libtirpc3 (= 1.3.2-2), libtool (= 2.4.6-15build1), libtsan0 (= 11.2.0-10ubuntu1), libubsan1 (= 11.2.0-10ubuntu1), libuchardet0 (= 0.0.7-1build1), libudev1 (= 248.3-1ubuntu8), libunistring2 (= 0.9.10-6), libuuid1 (= 2.37.2-4ubuntu1), libxml2 (= 2.9.12+dfsg-5), libzstd1 (= 1.4.8+dfsg-3), linux-libc-dev (= 5.13.0-19.19), login (= 1:4.8.1-1ubuntu9), lsb-base (= 11.1.0ubuntu3), lto-disabled-list (= 16), m4 (= 1.4.18-5ubuntu1), make (= 4.3-4ubuntu2), man-db (= 2.9.4-2build1), mawk (= 1.3.4.20200120-2build1), ncurses-base (= 6.2+20210905-1), ncurses-bin (= 6.2+20210905-1), patch (= 2.7.6-7build1), perl (= 5.32.1-3ubuntu3), perl-base (= 5.32.1-3ubuntu3), perl-modules-5.32 (= 5.32.1-3ubuntu3), po-debconf (= 1.0.21+nmu1), rpcsvc-proto (= 1.4.2-0ubuntu5), samtools (= 1.13-4), sed (= 4.7-1ubuntu2), sensible-utils (= 0.0.17), sysvinit-utils (= 2.96-7ubuntu2), tar (= 1.34+dfsg-1build2), util-linux (= 2.37.2-4ubuntu1), xz-utils (= 5.2.5-2build1), zlib1g (= 1:1.2.11.dfsg-2ubuntu7), zlib1g-dev (= 1:1.2.11.dfsg-2ubuntu7) Environment: DEB_BUILD_OPTIONS="parallel=4" DEB_BUILD_PROFILES="noudeb" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1635791917" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ stacks_2.60+dfsg-1_arm64.deb ---------------------------- new Debian package, version 2.0. size 923984 bytes: control archive=1590 bytes. 1084 bytes, 22 lines control 1800 bytes, 26 lines md5sums Package: stacks Version: 2.60+dfsg-1 Architecture: arm64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 2944 Depends: libc6 (>= 2.34), libgcc-s1 (>= 3.3.1), libgomp1 (>= 6), libhts3 (>= 1.10), libstdc++6 (>= 11), zlib1g (>= 1:1.2.6), samtools, libdbi-perl Recommends: libspreadsheet-writeexcel-perl, python3, littler Conflicts: stacks-web Replaces: stacks-web Provides: stacks-web Section: science Priority: optional Homepage: https://creskolab.uoregon.edu/stacks/ Description: pipeline for building loci from short-read DNA sequences Stacks is a software pipeline for building loci from short-read sequences, such as those generated on the Illumina platform. Stacks was developed to work with restriction enzyme-based data, such as RAD-seq, for the purpose of building genetic maps and conducting population genomics and phylogeography. . Note that this package installs Stacks such that all commands must be run as: $ stacks drwxr-xr-x root/root 0 2021-11-01 18:38 ./ drwxr-xr-x root/root 0 2021-11-01 18:38 ./usr/ drwxr-xr-x root/root 0 2021-11-01 18:38 ./usr/bin/ -rwxr-xr-x root/root 771 2021-11-01 18:35 ./usr/bin/stacks drwxr-xr-x root/root 0 2021-11-01 18:38 ./usr/lib/ drwxr-xr-x root/root 0 2021-11-01 18:38 ./usr/lib/debian-med/ drwxr-xr-x root/root 0 2021-11-01 18:38 ./usr/lib/debian-med/bin/ lrwxrwxrwx root/root 0 2021-11-01 18:38 ./usr/lib/debian-med/bin/clone_filter -> ../../stacks/bin/clone_filter lrwxrwxrwx root/root 0 2021-11-01 18:38 ./usr/lib/debian-med/bin/count_fixed_catalog_snps.py -> ../../stacks/bin/count_fixed_catalog_snps.py lrwxrwxrwx root/root 0 2021-11-01 18:38 ./usr/lib/debian-med/bin/cstacks -> ../../stacks/bin/cstacks lrwxrwxrwx root/root 0 2021-11-01 18:38 ./usr/lib/debian-med/bin/denovo_map -> ../../stacks/bin/denovo_map lrwxrwxrwx root/root 0 2021-11-01 18:38 ./usr/lib/debian-med/bin/denovo_map.pl -> ../../stacks/bin/denovo_map.pl lrwxrwxrwx root/root 0 2021-11-01 18:38 ./usr/lib/debian-med/bin/gstacks -> ../../stacks/bin/gstacks lrwxrwxrwx root/root 0 2021-11-01 18:38 ./usr/lib/debian-med/bin/integrate_alignments.py -> ../../stacks/bin/integrate_alignments.py lrwxrwxrwx root/root 0 2021-11-01 18:38 ./usr/lib/debian-med/bin/kmer_filter -> ../../stacks/bin/kmer_filter lrwxrwxrwx root/root 0 2021-11-01 18:38 ./usr/lib/debian-med/bin/phasedstacks -> ../../stacks/bin/phasedstacks lrwxrwxrwx root/root 0 2021-11-01 18:38 ./usr/lib/debian-med/bin/populations -> ../../stacks/bin/populations lrwxrwxrwx root/root 0 2021-11-01 18:38 ./usr/lib/debian-med/bin/process_radtags -> ../../stacks/bin/process_radtags lrwxrwxrwx root/root 0 2021-11-01 18:38 ./usr/lib/debian-med/bin/process_shortreads -> ../../stacks/bin/process_shortreads lrwxrwxrwx root/root 0 2021-11-01 18:38 ./usr/lib/debian-med/bin/ref_map -> ../../stacks/bin/ref_map lrwxrwxrwx root/root 0 2021-11-01 18:38 ./usr/lib/debian-med/bin/ref_map.pl -> ../../stacks/bin/ref_map.pl lrwxrwxrwx root/root 0 2021-11-01 18:38 ./usr/lib/debian-med/bin/sstacks -> ../../stacks/bin/sstacks lrwxrwxrwx root/root 0 2021-11-01 18:38 ./usr/lib/debian-med/bin/stacks-count-reads-per-sample-per-locus -> ../../stacks/bin/stacks-count-reads-per-sample-per-locus lrwxrwxrwx root/root 0 2021-11-01 18:38 ./usr/lib/debian-med/bin/stacks-dist-extract -> ../../stacks/bin/stacks-dist-extract lrwxrwxrwx root/root 0 2021-11-01 18:38 ./usr/lib/debian-med/bin/stacks-gdb -> ../../stacks/bin/stacks-gdb lrwxrwxrwx root/root 0 2021-11-01 18:38 ./usr/lib/debian-med/bin/stacks-hist2d-loci-samples-coverage -> ../../stacks/bin/stacks-hist2d-loci-samples-coverage lrwxrwxrwx root/root 0 2021-11-01 18:38 ./usr/lib/debian-med/bin/stacks-integrate-alignments -> ../../stacks/bin/stacks-integrate-alignments lrwxrwxrwx root/root 0 2021-11-01 18:38 ./usr/lib/debian-med/bin/stacks-samtools-tview -> ../../stacks/bin/stacks-samtools-tview lrwxrwxrwx root/root 0 2021-11-01 18:38 ./usr/lib/debian-med/bin/tsv2bam -> ../../stacks/bin/tsv2bam lrwxrwxrwx root/root 0 2021-11-01 18:38 ./usr/lib/debian-med/bin/ustacks -> ../../stacks/bin/ustacks drwxr-xr-x root/root 0 2021-11-01 18:38 ./usr/lib/stacks/ drwxr-xr-x root/root 0 2021-11-01 18:38 ./usr/lib/stacks/bin/ -rwxr-xr-x root/root 110024 2021-11-01 18:38 ./usr/lib/stacks/bin/clone_filter -rwxr-xr-x root/root 8652 2021-11-01 18:38 ./usr/lib/stacks/bin/count_fixed_catalog_snps.py -rwxr-xr-x root/root 150608 2021-11-01 18:38 ./usr/lib/stacks/bin/cstacks lrwxrwxrwx root/root 0 2021-11-01 18:38 ./usr/lib/stacks/bin/denovo_map -> denovo_map.pl -rwxr-xr-x root/root 30920 2021-11-01 18:38 ./usr/lib/stacks/bin/denovo_map.pl -rwxr-xr-x root/root 490896 2021-11-01 18:38 ./usr/lib/stacks/bin/gstacks -rwxr-xr-x root/root 10879 2021-11-01 18:38 ./usr/lib/stacks/bin/integrate_alignments.py -rwxr-xr-x root/root 105824 2021-11-01 18:38 ./usr/lib/stacks/bin/kmer_filter -rwxr-xr-x root/root 168048 2021-11-01 18:38 ./usr/lib/stacks/bin/phasedstacks -rwxr-xr-x root/root 736240 2021-11-01 18:38 ./usr/lib/stacks/bin/populations -rwxr-xr-x root/root 302096 2021-11-01 18:38 ./usr/lib/stacks/bin/process_radtags -rwxr-xr-x root/root 164120 2021-11-01 18:38 ./usr/lib/stacks/bin/process_shortreads lrwxrwxrwx root/root 0 2021-11-01 18:38 ./usr/lib/stacks/bin/ref_map -> ref_map.pl -rwxr-xr-x root/root 15360 2021-11-01 18:38 ./usr/lib/stacks/bin/ref_map.pl -rwxr-xr-x root/root 129912 2021-11-01 18:38 ./usr/lib/stacks/bin/sstacks -rwxr-xr-x root/root 1040 2021-11-01 18:38 ./usr/lib/stacks/bin/stacks-count-reads-per-sample-per-locus -rwxr-xr-x root/root 773 2021-11-01 18:38 ./usr/lib/stacks/bin/stacks-dist-extract -rwxr-xr-x root/root 1207 2021-11-01 18:38 ./usr/lib/stacks/bin/stacks-gdb -rwxr-xr-x root/root 1773 2021-11-01 18:38 ./usr/lib/stacks/bin/stacks-hist2d-loci-samples-coverage -rwxr-xr-x root/root 22248 2021-11-01 18:38 ./usr/lib/stacks/bin/stacks-integrate-alignments -rwxr-xr-x root/root 3037 2021-11-01 18:38 ./usr/lib/stacks/bin/stacks-samtools-tview -rwxr-xr-x root/root 224528 2021-11-01 18:38 ./usr/lib/stacks/bin/tsv2bam -rwxr-xr-x root/root 279400 2021-11-01 18:38 ./usr/lib/stacks/bin/ustacks drwxr-xr-x root/root 0 2021-11-01 18:38 ./usr/share/ drwxr-xr-x root/root 0 2021-11-01 18:38 ./usr/share/doc/ drwxr-xr-x root/root 0 2021-11-01 18:38 ./usr/share/doc/stacks/ -rw-r--r-- root/root 229 2021-11-01 18:35 ./usr/share/doc/stacks/NEWS.Debian.gz -rw-r--r-- root/root 1451 2021-11-01 18:35 ./usr/share/doc/stacks/README.Debian -rw-r--r-- root/root 1001 2021-11-01 18:38 ./usr/share/doc/stacks/changelog.Debian.gz -rw-r--r-- root/root 1684 2021-11-01 18:35 ./usr/share/doc/stacks/copyright +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: arm64 Build Type: any Build-Space: n/a Build-Time: 467 Distribution: jammy-proposed Host Architecture: arm64 Install-Time: 22 Job: stacks_2.60+dfsg-1.dsc Machine Architecture: arm64 Package: stacks Package-Time: 491 Source-Version: 2.60+dfsg-1 Space: n/a Status: successful Version: 2.60+dfsg-1 -------------------------------------------------------------------------------- Finished at 2021-11-02T00:10:15Z Build needed 00:08:11, no disk space Adding user buildd to group lxd RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=jammy --arch=arm64 PACKAGEBUILD-22362567 Scanning for processes to kill in build PACKAGEBUILD-22362567