https://launchpad.net/ubuntu/+source/art-nextgen-simulation-tools/20160605+dfsg-4build2/+build/22599296 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux bos02-arm64-014 4.15.0-163-generic #171-Ubuntu SMP Fri Nov 5 11:55:52 UTC 2021 aarch64 Buildd toolchain package versions: launchpad-buildd_204~508~ubuntu18.04.1 python3-lpbuildd_204~508~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... 7 Dec 17:34:34 ntpdate[1670]: adjust time server 10.211.37.1 offset 0.017582 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=jammy --arch=arm64 PACKAGEBUILD-22599296 --image-type chroot /home/buildd/filecache-default/d7d0133902b8cc1df688a841d4b96e994eeac2e0 Creating target for build PACKAGEBUILD-22599296 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=jammy --arch=arm64 PACKAGEBUILD-22599296 Starting target for build PACKAGEBUILD-22599296 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=jammy --arch=arm64 PACKAGEBUILD-22599296 '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-22599296 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=jammy --arch=arm64 PACKAGEBUILD-22599296 Updating target for build PACKAGEBUILD-22599296 Get:1 http://ftpmaster.internal/ubuntu jammy InRelease [270 kB] Get:2 http://ftpmaster.internal/ubuntu jammy-security InRelease [90.7 kB] Get:3 http://ftpmaster.internal/ubuntu jammy-updates InRelease [90.7 kB] Get:4 http://ftpmaster.internal/ubuntu jammy-proposed InRelease [121 kB] Get:5 http://ftpmaster.internal/ubuntu jammy/main arm64 Packages [1370 kB] Get:6 http://ftpmaster.internal/ubuntu jammy/main Translation-en [511 kB] Get:7 http://ftpmaster.internal/ubuntu jammy/universe arm64 Packages [13.2 MB] Get:8 http://ftpmaster.internal/ubuntu jammy/universe Translation-en [5567 kB] Get:9 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 Packages [146 kB] Get:10 http://ftpmaster.internal/ubuntu jammy-proposed/main Translation-en [51.2 kB] Get:11 http://ftpmaster.internal/ubuntu jammy-proposed/universe arm64 Packages [621 kB] Get:12 http://ftpmaster.internal/ubuntu jammy-proposed/universe Translation-en [312 kB] Fetched 22.3 MB in 8s (2856 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be REMOVED: libsemanage1* The following NEW packages will be installed: libsemanage2 libsepol2 libssl3 The following packages will be upgraded: apt base-files bash binutils binutils-aarch64-linux-gnu binutils-common bsdutils bzip2 ca-certificates cpp-11 dash debconf debianutils dpkg dpkg-dev e2fsprogs g++-11 gcc-11 gcc-11-base gpg gpg-agent gpgconf gpgv grep libapparmor1 libapt-pkg6.0 libasan6 libatomic1 libattr1 libbinutils libblkid1 libbz2-1.0 libcc1-0 libcom-err2 libcrypt-dev libcrypt1 libcryptsetup12 libctf-nobfd0 libctf0 libdpkg-perl libext2fs2 libgcc-11-dev libgcc-s1 libgcrypt20 libgdbm-compat4 libgdbm6 libgnutls30 libgomp1 libgpg-error0 libgssapi-krb5-2 libhwasan0 libidn2-0 libip4tc2 libisl23 libitm1 libk5crypto3 libkmod2 libkrb5-3 libkrb5support0 liblsan0 libmount1 libmpc3 libncurses6 libncursesw6 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpcre2-8-0 libseccomp2 libselinux1 libsemanage-common libsmartcols1 libsqlite3-0 libss2 libstdc++-11-dev libstdc++6 libsystemd0 libtasn1-6 libtinfo6 libtsan0 libubsan1 libudev1 libuuid1 libzstd1 linux-libc-dev lockfile-progs login logsave lto-disabled-list make mount ncurses-base ncurses-bin openssl passwd pkgbinarymangler sed sensible-utils systemd systemd-sysv systemd-timesyncd tzdata usrmerge util-linux 106 upgraded, 3 newly installed, 1 to remove and 0 not upgraded. Need to get 82.7 MB of archives. After this operation, 379 MB disk space will be freed. Get:1 http://ftpmaster.internal/ubuntu jammy/main arm64 debconf all 1.5.79 [126 kB] Get:2 http://ftpmaster.internal/ubuntu jammy/main arm64 libpam0g arm64 1.4.0-10ubuntu2 [61.3 kB] Get:3 http://ftpmaster.internal/ubuntu jammy/main arm64 libcrypt-dev arm64 1:4.4.26-1 [119 kB] Get:4 http://ftpmaster.internal/ubuntu jammy/main arm64 libcrypt1 arm64 1:4.4.26-1 [87.0 kB] Get:5 http://ftpmaster.internal/ubuntu jammy/main arm64 base-files arm64 12ubuntu2 [63.2 kB] Get:6 http://ftpmaster.internal/ubuntu jammy/main arm64 debianutils arm64 5.5-1ubuntu1 [106 kB] Get:7 http://ftpmaster.internal/ubuntu jammy/main arm64 bash arm64 5.1-5ubuntu1 [771 kB] Get:8 http://ftpmaster.internal/ubuntu jammy/main arm64 bsdutils arm64 1:2.37.2-4ubuntu1 [84.5 kB] Get:9 http://ftpmaster.internal/ubuntu jammy/main arm64 libgpg-error0 arm64 1.42-3 [67.7 kB] Get:10 http://ftpmaster.internal/ubuntu jammy/main arm64 libgcrypt20 arm64 1.9.4-3ubuntu2 [456 kB] Get:11 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 bzip2 arm64 1.0.8-5 [34.5 kB] Get:12 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libbz2-1.0 arm64 1.0.8-5 [36.0 kB] Get:13 http://ftpmaster.internal/ubuntu jammy/main arm64 libcc1-0 arm64 11.2.0-12ubuntu1 [54.1 kB] Get:14 http://ftpmaster.internal/ubuntu jammy/main arm64 gcc-11-base arm64 11.2.0-12ubuntu1 [20.7 kB] Get:15 http://ftpmaster.internal/ubuntu jammy/main arm64 libgcc-s1 arm64 11.2.0-12ubuntu1 [39.3 kB] Get:16 http://ftpmaster.internal/ubuntu jammy/main arm64 libgomp1 arm64 11.2.0-12ubuntu1 [115 kB] Get:17 http://ftpmaster.internal/ubuntu jammy/main arm64 libitm1 arm64 11.2.0-12ubuntu1 [28.4 kB] Get:18 http://ftpmaster.internal/ubuntu jammy/main arm64 libatomic1 arm64 11.2.0-12ubuntu1 [10.8 kB] Get:19 http://ftpmaster.internal/ubuntu jammy/main arm64 libasan6 arm64 11.2.0-12ubuntu1 [2228 kB] Get:20 http://ftpmaster.internal/ubuntu jammy/main arm64 liblsan0 arm64 11.2.0-12ubuntu1 [942 kB] Get:21 http://ftpmaster.internal/ubuntu jammy/main arm64 libtsan0 arm64 11.2.0-12ubuntu1 [2232 kB] Get:22 http://ftpmaster.internal/ubuntu jammy/main arm64 libubsan1 arm64 11.2.0-12ubuntu1 [908 kB] Get:23 http://ftpmaster.internal/ubuntu jammy/main arm64 libhwasan0 arm64 11.2.0-12ubuntu1 [1010 kB] Get:24 http://ftpmaster.internal/ubuntu jammy/main arm64 g++-11 arm64 11.2.0-12ubuntu1 [11.1 MB] Get:25 http://ftpmaster.internal/ubuntu jammy/main arm64 libstdc++-11-dev arm64 11.2.0-12ubuntu1 [2099 kB] Get:26 http://ftpmaster.internal/ubuntu jammy/main arm64 libgcc-11-dev arm64 11.2.0-12ubuntu1 [1150 kB] Get:27 http://ftpmaster.internal/ubuntu jammy/main arm64 gcc-11 arm64 11.2.0-12ubuntu1 [19.4 MB] Get:28 http://ftpmaster.internal/ubuntu jammy/main arm64 cpp-11 arm64 11.2.0-12ubuntu1 [9734 kB] Get:29 http://ftpmaster.internal/ubuntu jammy/main arm64 libstdc++6 arm64 11.2.0-12ubuntu1 [623 kB] Get:30 http://ftpmaster.internal/ubuntu jammy/main arm64 libisl23 arm64 0.24-2 [690 kB] Get:31 http://ftpmaster.internal/ubuntu jammy/main arm64 libmpc3 arm64 1.2.1-1 [48.1 kB] Get:32 http://ftpmaster.internal/ubuntu jammy/main arm64 libzstd1 arm64 1.4.8+dfsg-3 [311 kB] Get:33 http://ftpmaster.internal/ubuntu jammy/main arm64 libctf0 arm64 2.37-10ubuntu1 [102 kB] Get:34 http://ftpmaster.internal/ubuntu jammy/main arm64 libctf-nobfd0 arm64 2.37-10ubuntu1 [106 kB] Get:35 http://ftpmaster.internal/ubuntu jammy/main arm64 libbinutils arm64 2.37-10ubuntu1 [733 kB] Get:36 http://ftpmaster.internal/ubuntu jammy/main arm64 binutils-common arm64 2.37-10ubuntu1 [213 kB] Get:37 http://ftpmaster.internal/ubuntu jammy/main arm64 binutils arm64 2.37-10ubuntu1 [3160 B] Get:38 http://ftpmaster.internal/ubuntu jammy/main arm64 binutils-aarch64-linux-gnu arm64 2.37-10ubuntu1 [3214 kB] Get:39 http://ftpmaster.internal/ubuntu jammy/main arm64 libssl3 arm64 3.0.0-1ubuntu1 [1753 kB] Get:40 http://ftpmaster.internal/ubuntu jammy/main arm64 libblkid1 arm64 2.37.2-4ubuntu1 [103 kB] Get:41 http://ftpmaster.internal/ubuntu jammy/main arm64 libuuid1 arm64 2.37.2-4ubuntu1 [23.8 kB] Get:42 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libcryptsetup12 arm64 2:2.4.2-1ubuntu3 [205 kB] Get:43 http://ftpmaster.internal/ubuntu jammy/main arm64 libidn2-0 arm64 2.3.2-2 [67.1 kB] Get:44 http://ftpmaster.internal/ubuntu jammy/main arm64 libp11-kit0 arm64 0.24.0-6 [231 kB] Get:45 http://ftpmaster.internal/ubuntu jammy/main arm64 libtasn1-6 arm64 4.18.0-4 [42.6 kB] Get:46 http://ftpmaster.internal/ubuntu jammy/main arm64 libgnutls30 arm64 3.7.2-2ubuntu1 [917 kB] Get:47 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 systemd-timesyncd arm64 249.5-2ubuntu1 [29.7 kB] Get:48 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 systemd-sysv arm64 249.5-2ubuntu1 [10.5 kB] Get:49 http://ftpmaster.internal/ubuntu jammy/main arm64 libapparmor1 arm64 3.0.3-0ubuntu4 [37.5 kB] Get:50 http://ftpmaster.internal/ubuntu jammy/main arm64 libip4tc2 arm64 1.8.7-1ubuntu4 [19.8 kB] Get:51 http://ftpmaster.internal/ubuntu jammy/main arm64 libkmod2 arm64 28-1ubuntu5 [46.4 kB] Get:52 http://ftpmaster.internal/ubuntu jammy/main arm64 libpcre2-8-0 arm64 10.39-3 [201 kB] Get:53 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libselinux1 arm64 3.3-1build1 [74.3 kB] Get:54 http://ftpmaster.internal/ubuntu jammy/main arm64 libmount1 arm64 2.37.2-4ubuntu1 [120 kB] Get:55 http://ftpmaster.internal/ubuntu jammy/main arm64 libseccomp2 arm64 2.5.2-2ubuntu2 [47.9 kB] Get:56 http://ftpmaster.internal/ubuntu jammy/main arm64 login arm64 1:4.8.1-2ubuntu1 [186 kB] Get:57 http://ftpmaster.internal/ubuntu jammy/main arm64 util-linux arm64 2.37.2-4ubuntu1 [1059 kB] Get:58 http://ftpmaster.internal/ubuntu jammy/main arm64 mount arm64 2.37.2-4ubuntu1 [113 kB] Get:59 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 systemd arm64 249.5-2ubuntu1 [4381 kB] Get:60 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libsystemd0 arm64 249.5-2ubuntu1 [315 kB] Get:61 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libudev1 arm64 249.5-2ubuntu1 [76.0 kB] Get:62 http://ftpmaster.internal/ubuntu jammy/main arm64 libapt-pkg6.0 arm64 2.3.13 [864 kB] Get:63 http://ftpmaster.internal/ubuntu jammy/main arm64 dpkg arm64 1.20.9ubuntu3 [1244 kB] Get:64 http://ftpmaster.internal/ubuntu jammy/main arm64 dash arm64 0.5.11+git20210903+057cd650a4ed-3 [91.7 kB] Get:65 http://ftpmaster.internal/ubuntu jammy/main arm64 grep arm64 3.7-1 [152 kB] Get:66 http://ftpmaster.internal/ubuntu jammy/main arm64 libncurses6 arm64 6.3-1 [108 kB] Get:67 http://ftpmaster.internal/ubuntu jammy/main arm64 libncursesw6 arm64 6.3-1 [142 kB] Get:68 http://ftpmaster.internal/ubuntu jammy/main arm64 libtinfo6 arm64 6.3-1 [104 kB] Get:69 http://ftpmaster.internal/ubuntu jammy/main arm64 ncurses-bin arm64 6.3-1 [183 kB] Get:70 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 sed arm64 4.8-1 [186 kB] Get:71 http://ftpmaster.internal/ubuntu jammy/main arm64 ncurses-base all 6.3-1 [19.9 kB] Get:72 http://ftpmaster.internal/ubuntu jammy/main arm64 gpgv arm64 2.2.27-2ubuntu1 [133 kB] Get:73 http://ftpmaster.internal/ubuntu jammy/main arm64 apt arm64 2.3.13 [1353 kB] Get:74 http://ftpmaster.internal/ubuntu jammy/main arm64 libsepol2 arm64 3.3-1 [274 kB] Get:75 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libsemanage-common all 3.3-1build1 [10.0 kB] Get:76 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libsemanage2 arm64 3.3-1build1 [89.4 kB] Get:77 http://ftpmaster.internal/ubuntu jammy/main arm64 passwd arm64 1:4.8.1-2ubuntu1 [761 kB] Get:78 http://ftpmaster.internal/ubuntu jammy/main arm64 libpam-modules-bin arm64 1.4.0-10ubuntu2 [38.6 kB] Get:79 http://ftpmaster.internal/ubuntu jammy/main arm64 libpam-modules arm64 1.4.0-10ubuntu2 [278 kB] Get:80 http://ftpmaster.internal/ubuntu jammy/main arm64 logsave arm64 1.46.4-1ubuntu1 [10.7 kB] Get:81 http://ftpmaster.internal/ubuntu jammy/main arm64 libext2fs2 arm64 1.46.4-1ubuntu1 [212 kB] Get:82 http://ftpmaster.internal/ubuntu jammy/main arm64 e2fsprogs arm64 1.46.4-1ubuntu1 [586 kB] Get:83 http://ftpmaster.internal/ubuntu jammy/main arm64 libattr1 arm64 1:2.5.1-1 [13.3 kB] Get:84 http://ftpmaster.internal/ubuntu jammy/main arm64 libcom-err2 arm64 1.46.4-1ubuntu1 [9954 B] Get:85 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libk5crypto3 arm64 1.19.2-0ubuntu1 [91.6 kB] Get:86 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libkrb5support0 arm64 1.19.2-0ubuntu1 [32.5 kB] Get:87 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libkrb5-3 arm64 1.19.2-0ubuntu1 [356 kB] Get:88 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libgssapi-krb5-2 arm64 1.19.2-0ubuntu1 [142 kB] Get:89 http://ftpmaster.internal/ubuntu jammy/main arm64 libpam-runtime all 1.4.0-10ubuntu2 [40.2 kB] Get:90 http://ftpmaster.internal/ubuntu jammy/main arm64 libsmartcols1 arm64 2.37.2-4ubuntu1 [49.6 kB] Get:91 http://ftpmaster.internal/ubuntu jammy/main arm64 libss2 arm64 1.46.4-1ubuntu1 [11.8 kB] Get:92 http://ftpmaster.internal/ubuntu jammy/main arm64 sensible-utils all 0.0.17 [20.1 kB] Get:93 http://ftpmaster.internal/ubuntu jammy/main arm64 usrmerge all 25ubuntu2 [54.7 kB] Get:94 http://ftpmaster.internal/ubuntu jammy/main arm64 openssl arm64 3.0.0-1ubuntu1 [1155 kB] Get:95 http://ftpmaster.internal/ubuntu jammy/main arm64 ca-certificates all 20211016 [148 kB] Get:96 http://ftpmaster.internal/ubuntu jammy/main arm64 libsqlite3-0 arm64 3.36.0-2 [638 kB] Get:97 http://ftpmaster.internal/ubuntu jammy/main arm64 tzdata all 2021e-1ubuntu1 [343 kB] Get:98 http://ftpmaster.internal/ubuntu jammy/main arm64 libgdbm6 arm64 1.22-1 [35.1 kB] Get:99 http://ftpmaster.internal/ubuntu jammy/main arm64 dpkg-dev all 1.20.9ubuntu3 [933 kB] Get:100 http://ftpmaster.internal/ubuntu jammy/main arm64 libdpkg-perl all 1.20.9ubuntu3 [235 kB] Get:101 http://ftpmaster.internal/ubuntu jammy/main arm64 make arm64 4.3-4ubuntu2 [176 kB] Get:102 http://ftpmaster.internal/ubuntu jammy/main arm64 lto-disabled-list all 17 [12.1 kB] Get:103 http://ftpmaster.internal/ubuntu jammy/main arm64 gpg arm64 2.2.27-2ubuntu1 [506 kB] Get:104 http://ftpmaster.internal/ubuntu jammy/main arm64 gpgconf arm64 2.2.27-2ubuntu1 [92.2 kB] Get:105 http://ftpmaster.internal/ubuntu jammy/main arm64 gpg-agent arm64 2.2.27-2ubuntu1 [204 kB] Get:106 http://ftpmaster.internal/ubuntu jammy/main arm64 libgdbm-compat4 arm64 1.22-1 [6370 B] Get:107 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 linux-libc-dev arm64 5.15.0-13.13 [1248 kB] Get:108 http://ftpmaster.internal/ubuntu jammy/main arm64 lockfile-progs arm64 0.1.19 [9778 B] Get:109 http://ftpmaster.internal/ubuntu jammy/main arm64 pkgbinarymangler all 149 [32.4 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 82.7 MB in 5s (17.8 MB/s) (Reading database ... 13240 files and directories currently installed.) 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Setting up sensible-utils (0.0.17) ... Setting up libhwasan0:arm64 (11.2.0-12ubuntu1) ... Setting up libcrypt-dev:arm64 (1:4.4.26-1) ... Setting up gpgconf (2.2.27-2ubuntu1) ... Setting up libcryptsetup12:arm64 (2:2.4.2-1ubuntu3) ... Setting up libbinutils:arm64 (2.37-10ubuntu1) ... Setting up libisl23:arm64 (0.24-2) ... Setting up openssl (3.0.0-1ubuntu1) ... Installing new version of config file /etc/ssl/openssl.cnf ... Setting up libcc1-0:arm64 (11.2.0-12ubuntu1) ... Setting up gpg (2.2.27-2ubuntu1) ... Setting up liblsan0:arm64 (11.2.0-12ubuntu1) ... Setting up libitm1:arm64 (11.2.0-12ubuntu1) ... Setting up libkmod2:arm64 (28-1ubuntu5) ... Setting up libgdbm6:arm64 (1.22-1) ... Setting up libtsan0:arm64 (11.2.0-12ubuntu1) ... Setting up libctf0:arm64 (2.37-10ubuntu1) ... Setting up cpp-11 (11.2.0-12ubuntu1) ... Setting up gpg-agent (2.2.27-2ubuntu1) ... Setting up pkgbinarymangler (149) ... Setting up binutils-aarch64-linux-gnu (2.37-10ubuntu1) ... Setting up e2fsprogs (1.46.4-1ubuntu1) ... Installing new version of config file /etc/mke2fs.conf ... Setting up systemd (249.5-2ubuntu1) ... Installing new version of config file /etc/systemd/networkd.conf ... Installing new version of config file /etc/systemd/resolved.conf ... Initializing machine ID from random generator. Setting up binutils (2.37-10ubuntu1) ... Setting up dpkg-dev (1.20.9ubuntu3) ... Setting up ca-certificates (20211016) ... Updating certificates in /etc/ssl/certs... rehash: warning: skipping ca-certificates.crt,it does not contain exactly one certificate or CRL 7 added, 8 removed; done. Setting up systemd-timesyncd (249.5-2ubuntu1) ... Setting up libgdbm-compat4:arm64 (1.22-1) ... Setting up libgcc-11-dev:arm64 (11.2.0-12ubuntu1) ... Setting up gcc-11 (11.2.0-12ubuntu1) ... Setting up systemd-sysv (249.5-2ubuntu1) ... Setting up libstdc++-11-dev:arm64 (11.2.0-12ubuntu1) ... Setting up g++-11 (11.2.0-12ubuntu1) ... Processing triggers for libc-bin (2.34-0ubuntu3) ... Processing triggers for ca-certificates (20211016) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-22599296 arm64 jammy-proposed -c chroot:build-PACKAGEBUILD-22599296 --arch=arm64 --dist=jammy-proposed --nolog art-nextgen-simulation-tools_20160605+dfsg-4build2.dsc Initiating build PACKAGEBUILD-22599296 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.15.0-163-generic #171-Ubuntu SMP Fri Nov 5 11:55:52 UTC 2021 aarch64 sbuild (Debian sbuild) 0.75.0 (21 Mar 2018) on bos02-arm64-014.buildd +============================================================================================+ | art-nextgen-simulation-tools 20160605+dfsg-4build2 (arm64) Tue, 07 Dec 2021 17:35:45 +0000 | +============================================================================================+ Package: art-nextgen-simulation-tools Version: 20160605+dfsg-4build2 Source Version: 20160605+dfsg-4build2 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-22599296/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- art-nextgen-simulation-tools_20160605+dfsg-4build2.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/art-nextgen-simulation-tools-cAUsWL/art-nextgen-simulation-tools-20160605+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/art-nextgen-simulation-tools-cAUsWL' 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-Ep1Cuw/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-Ep1Cuw/apt_archive ./ InRelease Get:2 copy:/<>/resolver-Ep1Cuw/apt_archive ./ Release [957 B] Ign:3 copy:/<>/resolver-Ep1Cuw/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-Ep1Cuw/apt_archive ./ Sources [349 B] Get:5 copy:/<>/resolver-Ep1Cuw/apt_archive ./ Packages [430 B] Fetched 1736 B in 0s (55.8 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 package was automatically installed and is no longer required: systemd-timesyncd Use 'apt autoremove' to remove it. 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 652 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-Ep1Cuw/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [652 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 652 B in 0s (53.6 kB/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 13435 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 all) +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 12), libgsl-dev Filtered Build-Depends: debhelper-compat (= 12), libgsl-dev dpkg-deb: building package 'sbuild-build-depends-art-nextgen-simulation-tools-dummy' in '/<>/resolver-Ep1Cuw/apt_archive/sbuild-build-depends-art-nextgen-simulation-tools-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-art-nextgen-simulation-tools-dummy sbuild-build-depends-core-dummy dpkg-scanpackages: info: Wrote 2 entries to output Packages file. Ign:1 copy:/<>/resolver-Ep1Cuw/apt_archive ./ InRelease Get:2 copy:/<>/resolver-Ep1Cuw/apt_archive ./ Release [963 B] Ign:3 copy:/<>/resolver-Ep1Cuw/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-Ep1Cuw/apt_archive ./ Sources [515 B] Get:5 copy:/<>/resolver-Ep1Cuw/apt_archive ./ Packages [593 B] Fetched 2071 B in 0s (65.3 kB/s) Reading package lists... Reading package lists... Install art-nextgen-simulation-tools build dependencies (apt-based resolver) ---------------------------------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following package was automatically installed and is no longer required: systemd-timesyncd Use 'apt autoremove' to remove it. 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 libdebhelper-perl libdw1 libelf1 libfile-stripnondeterminism-perl libgsl-dev libgsl27 libgslcblas0 libicu67 libmagic-mgc libmagic1 libpipeline1 libsigsegv2 libsub-override-perl libtool libuchardet0 libxml2 m4 man-db po-debconf Suggested packages: autoconf-archive gnu-standards autoconf-doc dh-make gettext-doc libasprintf-dev libgettextpo-dev groff gsl-ref-psdoc | gsl-doc-pdf | gsl-doc-info | gsl-ref-html libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx libarchive-cpio-perl 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 libdebhelper-perl libdw1 libelf1 libfile-stripnondeterminism-perl libgsl-dev libgsl27 libgslcblas0 libicu67 libmagic-mgc libmagic1 libpipeline1 libsigsegv2 libsub-override-perl libtool libuchardet0 libxml2 m4 man-db po-debconf sbuild-build-depends-art-nextgen-simulation-tools-dummy 0 upgraded, 36 newly installed, 0 to remove and 0 not upgraded. Need to get 19.9 MB of archives. After this operation, 73.6 MB of additional disk space will be used. Get:1 copy:/<>/resolver-Ep1Cuw/apt_archive ./ sbuild-build-depends-art-nextgen-simulation-tools-dummy 0.invalid.0 [682 B] Get:2 http://ftpmaster.internal/ubuntu jammy/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 1.5.4-1 [23.3 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/main arm64 libelf1 arm64 0.186-1 [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/main arm64 libxml2 arm64 2.9.12+dfsg-5 [725 kB] Get:10 http://ftpmaster.internal/ubuntu jammy/main arm64 libmagic-mgc arm64 1:5.41-2 [257 kB] Get:11 http://ftpmaster.internal/ubuntu jammy/main arm64 libmagic1 arm64 1:5.41-2 [84.9 kB] Get:12 http://ftpmaster.internal/ubuntu jammy/main arm64 file arm64 1:5.41-2 [21.6 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 libsigsegv2 arm64 2.13-1ubuntu2 [14.5 kB] Get:15 http://ftpmaster.internal/ubuntu jammy/main arm64 m4 arm64 1.4.18-5ubuntu1 [196 kB] Get:16 http://ftpmaster.internal/ubuntu jammy/main arm64 autoconf all 2.71-2 [338 kB] Get:17 http://ftpmaster.internal/ubuntu jammy/main arm64 autotools-dev all 20180224.1+nmu1 [39.4 kB] Get:18 http://ftpmaster.internal/ubuntu jammy/main arm64 automake all 1:1.16.5-1.1 [558 kB] Get:19 http://ftpmaster.internal/ubuntu jammy/main arm64 autopoint all 0.21-4ubuntu3 [422 kB] Get:20 http://ftpmaster.internal/ubuntu jammy/main arm64 libdebhelper-perl all 13.5.2ubuntu1 [66.0 kB] Get:21 http://ftpmaster.internal/ubuntu jammy/main arm64 libtool all 2.4.6-15build1 [164 kB] Get:22 http://ftpmaster.internal/ubuntu jammy/main arm64 dh-autoreconf all 20 [16.1 kB] Get:23 http://ftpmaster.internal/ubuntu jammy/main arm64 libarchive-zip-perl all 1.68-1 [90.2 kB] Get:24 http://ftpmaster.internal/ubuntu jammy/main arm64 libsub-override-perl all 0.09-2 [9532 B] Get:25 http://ftpmaster.internal/ubuntu jammy/main arm64 libfile-stripnondeterminism-perl all 1.12.1-1 [18.1 kB] Get:26 http://ftpmaster.internal/ubuntu jammy/main arm64 dh-strip-nondeterminism all 1.12.1-1 [5200 B] Get:27 http://ftpmaster.internal/ubuntu jammy/main arm64 libdw1 arm64 0.186-1 [246 kB] Get:28 http://ftpmaster.internal/ubuntu jammy/main arm64 debugedit arm64 1:5.0-3 [46.3 kB] Get:29 http://ftpmaster.internal/ubuntu jammy/main arm64 dwz arm64 0.14-1build1 [102 kB] Get:30 http://ftpmaster.internal/ubuntu jammy/main arm64 gettext arm64 0.21-4ubuntu3 [775 kB] Get:31 http://ftpmaster.internal/ubuntu jammy/main arm64 intltool-debian all 0.35.0+20060710.5 [24.9 kB] Get:32 http://ftpmaster.internal/ubuntu jammy/main arm64 po-debconf all 1.0.21+nmu1 [233 kB] Get:33 http://ftpmaster.internal/ubuntu jammy/main arm64 debhelper all 13.5.2ubuntu1 [926 kB] Get:34 http://ftpmaster.internal/ubuntu jammy-proposed/universe arm64 libgslcblas0 arm64 2.7.1+dfsg-3 [72.4 kB] Get:35 http://ftpmaster.internal/ubuntu jammy-proposed/universe arm64 libgsl27 arm64 2.7.1+dfsg-3 [919 kB] Get:36 http://ftpmaster.internal/ubuntu jammy-proposed/universe arm64 libgsl-dev arm64 2.7.1+dfsg-3 [1178 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 19.9 MB in 2s (10.8 MB/s) Selecting previously unselected package bsdextrautils. (Reading database ... 13435 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_1.5.4-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.4-1) ... 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_0.186-1_arm64.deb ... Unpacking libelf1:arm64 (0.186-1) ... 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Unpacking sbuild-build-depends-art-nextgen-simulation-tools-dummy (0.invalid.0) ... Setting up libpipeline1:arm64 (1.5.4-1) ... 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 libgslcblas0:arm64 (2.7.1+dfsg-3) ... Setting up libmagic-mgc (1:5.41-2) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.5.2ubuntu1) ... Setting up libmagic1:arm64 (1:5.41-2) ... Setting up gettext-base (0.21-4ubuntu3) ... Setting up libgsl27:arm64 (2.7.1+dfsg-3) ... Setting up file (1:5.41-2) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up libsigsegv2:arm64 (2.13-1ubuntu2) ... Setting up autopoint (0.21-4ubuntu3) ... Setting up libuchardet0:arm64 (0.0.7-1build1) ... Setting up libsub-override-perl (0.09-2) ... Setting up libelf1:arm64 (0.186-1) ... Setting up libxml2:arm64 (2.9.12+dfsg-5) ... Setting up libfile-stripnondeterminism-perl (1.12.1-1) ... Setting up libdw1:arm64 (0.186-1) ... Setting up gettext (0.21-4ubuntu3) ... Setting up libgsl-dev (2.7.1+dfsg-3) ... Setting up libtool (2.4.6-15build1) ... Setting up m4 (1.4.18-5ubuntu1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up autoconf (2.71-2) ... Setting up dh-strip-nondeterminism (1.12.1-1) ... Setting up dwz (0.14-1build1) ... Setting up groff-base (1.22.4-7) ... Setting up debugedit (1:5.0-3) ... Setting up automake (1:1.16.5-1.1) ... 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 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 debhelper (13.5.2ubuntu1) ... 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Processing triggers for libc-bin (2.34-0ubuntu3) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.15.0-163-generic arm64 (aarch64) Toolchain package versions: binutils_2.37-10ubuntu1 dpkg-dev_1.20.9ubuntu3 g++-11_11.2.0-12ubuntu1 gcc-11_11.2.0-12ubuntu1 libc6-dev_2.34-0ubuntu3 libstdc++-11-dev_11.2.0-12ubuntu1 libstdc++6_11.2.0-12ubuntu1 linux-libc-dev_5.15.0-13.13 Package versions: adduser_3.118ubuntu5 advancecomp_2.1-2.1ubuntu1 apt_2.3.13 autoconf_2.71-2 automake_1:1.16.5-1.1 autopoint_0.21-4ubuntu3 autotools-dev_20180224.1+nmu1 base-files_12ubuntu2 base-passwd_3.5.52 bash_5.1-5ubuntu1 binutils_2.37-10ubuntu1 binutils-aarch64-linux-gnu_2.37-10ubuntu1 binutils-common_2.37-10ubuntu1 bsdextrautils_2.37.2-4ubuntu1 bsdutils_1:2.37.2-4ubuntu1 build-essential_12.9ubuntu2 bzip2_1.0.8-5 ca-certificates_20211016 coreutils_8.32-4ubuntu3 cpp_4:11.2.0-1ubuntu1 cpp-11_11.2.0-12ubuntu1 dash_0.5.11+git20210903+057cd650a4ed-3 debconf_1.5.79 debhelper_13.5.2ubuntu1 debianutils_5.5-1ubuntu1 debugedit_1:5.0-3 dh-autoreconf_20 dh-strip-nondeterminism_1.12.1-1 diffutils_1:3.8-0ubuntu1 dpkg_1.20.9ubuntu3 dpkg-dev_1.20.9ubuntu3 dwz_0.14-1build1 e2fsprogs_1.46.4-1ubuntu1 fakeroot_1.25.3-1.1ubuntu3 file_1:5.41-2 findutils_4.8.0-1ubuntu2 g++_4:11.2.0-1ubuntu1 g++-11_11.2.0-12ubuntu1 gcc_4:11.2.0-1ubuntu1 gcc-11_11.2.0-12ubuntu1 gcc-11-base_11.2.0-12ubuntu1 gettext_0.21-4ubuntu3 gettext-base_0.21-4ubuntu3 gpg_2.2.27-2ubuntu1 gpg-agent_2.2.27-2ubuntu1 gpgconf_2.2.27-2ubuntu1 gpgv_2.2.27-2ubuntu1 grep_3.7-1 groff-base_1.22.4-7 gzip_1.10-4ubuntu2 hostname_3.23ubuntu1 init_1.60build1 init-system-helpers_1.60build1 intltool-debian_0.35.0+20060710.5 libacl1_2.2.53-10ubuntu2 libapparmor1_3.0.3-0ubuntu4 libapt-pkg6.0_2.3.13 libarchive-zip-perl_1.68-1 libargon2-1_0~20171227-0.2build22 libasan6_11.2.0-12ubuntu1 libassuan0_2.5.5-1 libatomic1_11.2.0-12ubuntu1 libattr1_1:2.5.1-1 libaudit-common_1:3.0-2ubuntu3 libaudit1_1:3.0-2ubuntu3 libbinutils_2.37-10ubuntu1 libblkid1_2.37.2-4ubuntu1 libbz2-1.0_1.0.8-5 libc-bin_2.34-0ubuntu3 libc-dev-bin_2.34-0ubuntu3 libc6_2.34-0ubuntu3 libc6-dev_2.34-0ubuntu3 libcap-ng0_0.7.9-2.2build2 libcap2_1:2.44-1build2 libcc1-0_11.2.0-12ubuntu1 libcom-err2_1.46.4-1ubuntu1 libcrypt-dev_1:4.4.26-1 libcrypt1_1:4.4.26-1 libcryptsetup12_2:2.4.2-1ubuntu3 libctf-nobfd0_2.37-10ubuntu1 libctf0_2.37-10ubuntu1 libdb5.3_5.3.28+dfsg1-0.8ubuntu2 libdebconfclient0_0.256ubuntu4 libdebhelper-perl_13.5.2ubuntu1 libdevmapper1.02.1_2:1.02.175-2.1ubuntu3 libdpkg-perl_1.20.9ubuntu3 libdw1_0.186-1 libelf1_0.186-1 libext2fs2_1.46.4-1ubuntu1 libfakeroot_1.25.3-1.1ubuntu3 libffi8_3.4.2-1ubuntu5 libfile-stripnondeterminism-perl_1.12.1-1 libgcc-11-dev_11.2.0-12ubuntu1 libgcc-s1_11.2.0-12ubuntu1 libgcrypt20_1.9.4-3ubuntu2 libgdbm-compat4_1.22-1 libgdbm6_1.22-1 libgmp10_2:6.2.1+dfsg-1ubuntu3 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zlib1g_1:1.2.11.dfsg-2ubuntu7 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Tue Dec 7 17:23:04 2021 UTC gpgv: using RSA key AC483F68DE728F43F2202FCA568D30F321B2133D gpgv: issuer "steve.langasek@ubuntu.com" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./art-nextgen-simulation-tools_20160605+dfsg-4build2.dsc dpkg-source: info: extracting art-nextgen-simulation-tools in /<>/art-nextgen-simulation-tools-20160605+dfsg dpkg-source: info: unpacking art-nextgen-simulation-tools_20160605+dfsg.orig.tar.xz dpkg-source: info: unpacking art-nextgen-simulation-tools_20160605+dfsg-4build2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying fix-test-comparison.patch dpkg-source: info: applying adapt_path_to_perl_scripts.patch dpkg-source: info: applying spellings.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-22599296 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-22599296 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-22599296 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package art-nextgen-simulation-tools dpkg-buildpackage: info: source version 20160605+dfsg-4build2 dpkg-buildpackage: info: source distribution jammy dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean dh_clean debian/rules binary-arch dh binary-arch dh_update_autotools_config -a dh_autoreconf -a configure.ac:8: installing './compile' configure.ac:6: installing './install-sh' configure.ac:6: installing './missing' Makefile.am: installing './INSTALL' Makefile.am: installing './depcomp' dh_auto_configure -a ./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 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 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 stdlib.h... (cached) yes checking for main in -lm... yes checking for main in -lgslcblas... yes checking for main in -lgsl... yes checking whether make sets $(MAKE)... (cached) yes checking for _Bool... yes checking for stdbool.h that conforms to C99... yes checking for inline... inline checking for size_t... yes checking for floor... yes checking for pow... yes 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 dh_auto_build -a make -j4 make[1]: Entering directory '/<>/art-nextgen-simulation-tools-20160605+dfsg' make all-am make[2]: Entering directory '/<>/art-nextgen-simulation-tools-20160605+dfsg' g++ -DHAVE_CONFIG_H -I. -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/art-nextgen-simulation-tools-20160605+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o art_illumina_src/art_illumina.o art_illumina_src/art_illumina.cpp g++ -DHAVE_CONFIG_H -I. -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/art-nextgen-simulation-tools-20160605+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o art_illumina_src/art_qual_scale.o art_illumina_src/art_qual_scale.cpp g++ -DHAVE_CONFIG_H -I. -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/art-nextgen-simulation-tools-20160605+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o art_illumina_src/empdist.o art_illumina_src/empdist.cpp g++ -DHAVE_CONFIG_H -I. -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/art-nextgen-simulation-tools-20160605+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o art_illumina_src/readSeqFile.o art_illumina_src/readSeqFile.cpp g++ -DHAVE_CONFIG_H -I. -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/art-nextgen-simulation-tools-20160605+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o art_illumina_src/seqRead.o art_illumina_src/seqRead.cpp g++ -DHAVE_CONFIG_H -I. -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/art-nextgen-simulation-tools-20160605+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o art_illumina_src/samRead.o art_illumina_src/samRead.cpp g++ -DHAVE_CONFIG_H -I. -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/art-nextgen-simulation-tools-20160605+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o art_454_src/art_454.o art_454_src/art_454.cpp g++ -DHAVE_CONFIG_H -I. -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/art-nextgen-simulation-tools-20160605+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o art_454_src/art.o art_454_src/art.cpp g++ -DHAVE_CONFIG_H -I. -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/art-nextgen-simulation-tools-20160605+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o art_454_src/read_profile.o art_454_src/read_profile.cpp g++ -DHAVE_CONFIG_H -I. -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/art-nextgen-simulation-tools-20160605+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o art_454_src/readSeqFile.o art_454_src/readSeqFile.cpp g++ -DHAVE_CONFIG_H -I. -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/art-nextgen-simulation-tools-20160605+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o art_454_src/seqRead.o art_454_src/seqRead.cpp g++ -DHAVE_CONFIG_H -I. -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/art-nextgen-simulation-tools-20160605+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o art_454_src/samRead.o art_454_src/samRead.cpp g++ -DHAVE_CONFIG_H -I. -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/art-nextgen-simulation-tools-20160605+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o art_SOLiD_src/art_SOLiD.o art_SOLiD_src/art_SOLiD.cpp g++ -DHAVE_CONFIG_H -I. -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/art-nextgen-simulation-tools-20160605+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o art_SOLiD_src/art.o art_SOLiD_src/art.cpp g++ -DHAVE_CONFIG_H -I. -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/art-nextgen-simulation-tools-20160605+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o art_SOLiD_src/readSeqFile.o art_SOLiD_src/readSeqFile.cpp g++ -DHAVE_CONFIG_H -I. -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/art-nextgen-simulation-tools-20160605+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o art_SOLiD_src/read_SOLiD.o art_SOLiD_src/read_SOLiD.cpp g++ -DHAVE_CONFIG_H -I. -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/<>/art-nextgen-simulation-tools-20160605+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -c -o art_SOLiD_src/samRead.o art_SOLiD_src/samRead.cpp g++ -g -O2 -ffile-prefix-map=/<>/art-nextgen-simulation-tools-20160605+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now -o art_illumina art_illumina_src/art_illumina.o art_illumina_src/art_qual_scale.o art_illumina_src/empdist.o art_illumina_src/readSeqFile.o art_illumina_src/seqRead.o art_illumina_src/samRead.o -lgsl -lgslcblas -lm g++ -g -O2 -ffile-prefix-map=/<>/art-nextgen-simulation-tools-20160605+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now -o art_454 art_454_src/art_454.o art_454_src/art.o art_454_src/read_profile.o art_454_src/readSeqFile.o art_454_src/seqRead.o art_454_src/samRead.o -lgsl -lgslcblas -lm g++ -g -O2 -ffile-prefix-map=/<>/art-nextgen-simulation-tools-20160605+dfsg=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wl,-Bsymbolic-functions -flto=auto -Wl,-z,relro -Wl,-z,now -o art_SOLiD art_SOLiD_src/art_SOLiD.o art_SOLiD_src/art.o art_SOLiD_src/readSeqFile.o art_SOLiD_src/read_SOLiD.o art_SOLiD_src/samRead.o -lgsl -lgslcblas -lm make[2]: Leaving directory '/<>/art-nextgen-simulation-tools-20160605+dfsg' make[1]: Leaving directory '/<>/art-nextgen-simulation-tools-20160605+dfsg' debian/rules override_dh_auto_test make[1]: Entering directory '/<>/art-nextgen-simulation-tools-20160605+dfsg' set -e && \ cd examples && \ ./run_test_examples_454.sh && \ ./run_test_examples_SOLiD.sh && \ ./run_test_examples_illumina.sh =================================================================== ART_454 (Version 2.6.0) Simulation of 454 Pyrosequencing Copyright (c) 2008-2015, Weichun Huang. All Rights Reserved. =================================================================== Single-end simulation Total CPU time used: 0.245006 The random seed for the run: 1638898626 Parameters Settings number of flow cycles: 100 fold of read coverage: 10X 454 Profile for Simulation the built-in GS-FLX profile Output Files FASTQ Sequence File: ./single_454_flx.fq ALN Alignment File: ./single_454_flx.aln SAM Alignment File: ./single_454_flx.sam Read Coverage File: ./single_454_flx.stat =================================================================== ART_454 (Version 2.6.0) Simulation of 454 Pyrosequencing Copyright (c) 2008-2015, Weichun Huang. All Rights Reserved. =================================================================== Paired-end simulation Total CPU time used: 0.205816 The random seed for the run: 1638898626 Parameters Settings number of flow cycles: 100 fold of read coverage: 5X fragment length mean: 500 std: 20 454 Profile for Simulation the built-in GS-FLX profile Output Files FASTQ Sequence Files: the 1st reads: ./paired_454_flx1.fq the 2nd reads: ./paired_454_flx2.fq ALN Alignment Files: the 1st reads: ./paired_454_flx1.aln the 2nd reads: ./paired_454_flx2.aln SAM Alignment File: ./paired_454_flx.sam Read Coverage File: ./paired_454_flx.stat =================================================================== ART_454 (Version 2.6.0) Simulation of 454 Pyrosequencing Copyright (c) 2008-2015, Weichun Huang. All Rights Reserved. =================================================================== Paired-end simulation Total CPU time used: 0.23005 The random seed for the run: 1638898626 Parameters Settings number of flow cycles: 200 fold of read coverage: 6X fragment length mean: 500 std: 20 454 Profile for Simulation the built-in GS-FLX Titanium profile Output Files FASTQ Sequence Files: the 1st reads: ./paired_454_flxTitan1.fq the 2nd reads: ./paired_454_flxTitan2.fq ALN Alignment Files: the 1st reads: ./paired_454_flxTitan1.aln the 2nd reads: ./paired_454_flxTitan2.aln SAM Alignment File: ./paired_454_flxTitan.sam Read Coverage File: ./paired_454_flxTitan.stat =================================================================== ART_454 (Version 2.6.0) Simulation of 454 Pyrosequencing Copyright (c) 2008-2015, Weichun Huang. All Rights Reserved. =================================================================== Amplicon 5'-end sequencing with single-end reads Total CPU time used: 47.1201 The random seed for the run: 1638898627 Parameters Settings number of flow cycles: 100 # reads per amplion: 10 454 Profile for Simulation the built-in GS-FLX profile Output Files FASTQ Sequence File: ./amp_single_454.fq ALN Alignment File: ./amp_single_454.aln SAM Alignment File: ./amp_single_454.sam Read Coverage File: ./amp_single_454.stat =================================================================== ART_454 (Version 2.6.0) Simulation of 454 Pyrosequencing Copyright (c) 2008-2015, Weichun Huang. All Rights Reserved. =================================================================== Amplicon two-end sequencing with paired-end reads Total CPU time used: 41.7358 The random seed for the run: 1638898674 Parameters Settings number of flow cycles: 100 # read pairs per amplion: 5 454 Profile for Simulation the built-in GS-FLX profile Output Files FASTQ Sequence Files: the 1st reads: ./amp_paired_454.fq the 2nd reads: ./amp_paired_4542.fq ALN Alignment Files: the 1st reads: ./amp_paired_454.aln the 2nd reads: ./amp_paired_4542.aln SAM Alignment File: ./amp_paired_454.sam Read Coverage File: ./amp_paired_454.stat =================================================================== ART_454 (Version 2.6.0) Simulation of 454 Pyrosequencing Copyright (c) 2008-2015, Weichun Huang. All Rights Reserved. =================================================================== Single-end simulation Total CPU time used: 0.241104 The random seed for the run: 777 Parameters Settings number of flow cycles: 100 fold of read coverage: 10X 454 Profile for Simulation the built-in GS-FLX profile Output Files FASTQ Sequence File: ./single_454_t1.fq ALN Alignment File: ./single_454_t1.aln SAM Alignment File: ./single_454_t1.sam Read Coverage File: ./single_454_t1.stat =================================================================== ART_454 (Version 2.6.0) Simulation of 454 Pyrosequencing Copyright (c) 2008-2015, Weichun Huang. All Rights Reserved. =================================================================== Single-end simulation Total CPU time used: 0.24702 The random seed for the run: 777 Parameters Settings number of flow cycles: 100 fold of read coverage: 10X 454 Profile for Simulation the built-in GS-FLX profile Output Files FASTQ Sequence File: ./single_454_t2.fq ALN Alignment File: ./single_454_t2.aln SAM Alignment File: ./single_454_t2.sam Read Coverage File: ./single_454_t2.stat compare difference of two simulation datasets after normalising known difference ================================================================= ART_SOLiD (Version 1.3.3) Simulation of Applied Biosystems' SOLiD Sequencing Copyright (c) 2008-2015, Weichun Huang. All Rights Reserved. ================================================================= Single-end simulation Total CPU time used: 0.403526 The random seed for the run: 1638898717 Parameters Settings fold of read coverage: 10X read length: 25 SOLiD Error Profile for Simulation the built-in 35bp error profile Output Files FASTQ Sequence File: ./single_dat.fq MAP Alignment File: ./single_dat.map SAM Alignment File: ./single_dat.sam convert a map file to a UCSC BED file ../map2bed.pl single_dat.bed single_dat.map ================================================================= ART_SOLiD (Version 1.3.3) Simulation of Applied Biosystems' SOLiD Sequencing Copyright (c) 2008-2015, Weichun Huang. All Rights Reserved. ================================================================= Single-end simulation Total CPU time used: 0.413137 The random seed for the run: 1638898717 Parameters Settings fold of read coverage: 20X read length: 75 SOLiD Error Profile for Simulation the profile provided: ../SOLiD_profiles/profile_pseudo Output Files FASTQ Sequence File: ./dat_userProfile.fq MAP Alignment File: ./dat_userProfile.map SAM Alignment File: ./dat_userProfile.sam ================================================================= ART_SOLiD (Version 1.3.3) Simulation of Applied Biosystems' SOLiD Sequencing Copyright (c) 2008-2015, Weichun Huang. All Rights Reserved. ================================================================= Mate-Pair (F3-R3) simulation Total CPU time used: 0.635526 The random seed for the run: 1638898717 Parameters Settings fold of read coverage: 20X F3 read length: 35 R3 read length: 35 fragment length mean: 2000 std: 50 SOLiD Error Profile for Simulation the built-in 35bp error profile Output Files FASTQ Sequence Files: the 1st reads: ./matepair_dat_R3.fq the 2nd reads: ./matepair_dat_F3.fq MAP Alignment Files: the 1st reads: ./matepair_dat_R3.map the 2nd reads: ./matepair_dat_F3.map SAM Alignment File: ./matepair_dat.sam convert two map files to a UCSC BED file ../map2bed.pl maptepair.bed matepair_dat1.map matepair_dat2.map ================================================================= ART_SOLiD (Version 1.3.3) Simulation of Applied Biosystems' SOLiD Sequencing Copyright (c) 2008-2015, Weichun Huang. All Rights Reserved. ================================================================= Warning: you are using the 75bp error profile for testing only. Mate-Pair (F3-R3) simulation Total CPU time used: 0.262195 The random seed for the run: 777 Parameters Settings fold of read coverage: 10X F3 read length: 50 R3 read length: 50 fragment length mean: 1500 std: 50 SOLiD Error Profile for Simulation the 75bp error profile for testing only Output Files FASTQ Sequence Files: the 1st reads: ./matepair_fs1_R3.fq the 2nd reads: ./matepair_fs1_F3.fq MAP Alignment Files: the 1st reads: ./matepair_fs1_R3.map the 2nd reads: ./matepair_fs1_F3.map SAM Alignment File: ./matepair_fs1.sam ================================================================= ART_SOLiD (Version 1.3.3) Simulation of Applied Biosystems' SOLiD Sequencing Copyright (c) 2008-2015, Weichun Huang. All Rights Reserved. ================================================================= Warning: you are using the 75bp error profile for testing only. Mate-Pair (F3-R3) simulation Total CPU time used: 0.259635 The random seed for the run: 777 Parameters Settings fold of read coverage: 10X F3 read length: 50 R3 read length: 50 fragment length mean: 1500 std: 50 SOLiD Error Profile for Simulation the 75bp error profile for testing only Output Files FASTQ Sequence Files: the 1st reads: ./matepair_fs2_R3.fq the 2nd reads: ./matepair_fs2_F3.fq MAP Alignment Files: the 1st reads: ./matepair_fs2_R3.map the 2nd reads: ./matepair_fs2_F3.map SAM Alignment File: ./matepair_fs2.sam compare two simulation datasets 4c4 < @PG ID:03 PN:ART_SOLiD CL:../art_SOLiD -r 777 -s testSeq.fa ./matepair_fs1 50 10 1500 50 --- > @PG ID:03 PN:ART_SOLiD CL:../art_SOLiD -r 777 -s testSeq.fa ./matepair_fs2 50 10 1500 50 ================================================================= ART_SOLiD (Version 1.3.3) Simulation of Applied Biosystems' SOLiD Sequencing Copyright (c) 2008-2015, Weichun Huang. All Rights Reserved. ================================================================= Warning: you are using the 75bp error profile for testing only. Paired-end (F3-F5) simulation Total CPU time used: 0.882414 The random seed for the run: 1638898719 Parameters Settings fold of read coverage: 50X F3 read length: 75 F5 read length: 35 fragment length mean: 250 std: 10 SOLiD Error Profile for Simulation the 75bp error profile for testing only Output Files FASTQ Sequence Files: the 1st reads: ./paired_dat_F5.fq the 2nd reads: ./paired_dat_F3.fq MAP Alignment Files: the 1st reads: ./paired_dat_F5.map the 2nd reads: ./paired_dat_F3.map SAM Alignment File: ./paired_dat.sam ================================================================= ART_SOLiD (Version 1.3.3) Simulation of Applied Biosystems' SOLiD Sequencing Copyright (c) 2008-2015, Weichun Huang. All Rights Reserved. ================================================================= Amplicon single-end sequencing simulation Total CPU time used: 1111.38 The random seed for the run: 1638898720 Parameters Settings # reads per amplion: 100 read length: 25 SOLiD Error Profile for Simulation the built-in 35bp error profile Output Files FASTQ Sequence File: ./amp_single.fq MAP Alignment File: ./amp_single.map SAM Alignment File: ./amp_single.sam ================================================================= ART_SOLiD (Version 1.3.3) Simulation of Applied Biosystems' SOLiD Sequencing Copyright (c) 2008-2015, Weichun Huang. All Rights Reserved. ================================================================= Warning: you are using the 75bp error profile for testing only. Amplicon matepair sequencing simulation Total CPU time used: 511.417 The random seed for the run: 1638899832 Parameters Settings # read pairs per amplion: 80 F3 read length: 50 R3 read length: 50 SOLiD Error Profile for Simulation the 75bp error profile for testing only Output Files FASTQ Sequence Files: the 1st reads: ./amp_matepair_R3.fq the 2nd reads: ./amp_matepair_F3.fq MAP Alignment Files: the 1st reads: ./amp_matepair_R3.map the 2nd reads: ./amp_matepair_F3.map SAM Alignment File: ./amp_matepair.sam ================================================================= ART_SOLiD (Version 1.3.3) Simulation of Applied Biosystems' SOLiD Sequencing Copyright (c) 2008-2015, Weichun Huang. All Rights Reserved. ================================================================= Amplicon paired-end sequencing simulation Total CPU time used: 408.396 The random seed for the run: 1638900344 Parameters Settings # read pairs per amplion: 50 F3 read length: 35 F5 read length: 25 SOLiD Error Profile for Simulation the built-in 35bp error profile Output Files FASTQ Sequence Files: the 1st reads: ./amp_paired_F5.fq the 2nd reads: ./amp_paired_F3.fq MAP Alignment Files: the 1st reads: ./amp_paired_F5.map the 2nd reads: ./amp_paired_F3.map SAM Alignment File: ./amp_paired.sam ====================ART==================== ART_Illumina (2008-2016) Q Version 2.5.8 (June 6, 2016) Contact: Weichun Huang ------------------------------------------- Single-end Simulation Total CPU time used: 0.295485 The random seed for the run: 1638900753 Parameters used during run Read Length: 35 Genome masking 'N' cutoff frequency: 1 in 35 Fold Coverage: 10X Profile Type: Combined ID Tag: Quality Profile(s) First Read: Genome Analyzer I Length 36 R1 (built-in profile) Output files FASTQ Sequence File: ./single_end_com.fq ALN Alignment File: ./single_end_com.aln SAM Alignment File: ./single_end_com.sam ====================ART==================== ART_Illumina (2008-2016) Q Version 2.5.8 (June 6, 2016) Contact: Weichun Huang ------------------------------------------- Single-end Simulation Total CPU time used: 0.236082 The random seed for the run: 1638900754 Parameters used during run Read Length: 50 Genome masking 'N' cutoff frequency: 1 in 50 Fold Coverage: 10X Profile Type: Separated ID Tag: Quality Profile(s) First Read: MiniSeq TruSeq Length 51 R1 (built-in profile) Output files FASTQ Sequence File: ./single_end_sep.fq ALN Alignment File: ./single_end_sep.aln SAM Alignment File: ./single_end_sep.sam ====================ART==================== ART_Illumina (2008-2016) Q Version 2.5.8 (June 6, 2016) Contact: Weichun Huang ------------------------------------------- Paired-end sequencing simulation Total CPU time used: 0.128442 The random seed for the run: 1638900754 Parameters used during run Read Length: 150 Genome masking 'N' cutoff frequency: 1 in 150 Fold Coverage: 10X Mean Fragment Length: 500 Standard Deviation: 10 Profile Type: Combined ID Tag: Quality Profile(s) First Read: HiSeq 2500 Length 150 R1 (built-in profile) First Read: HiSeq 2500 Length 150 R2 (built-in profile) Output files FASTQ Sequence Files: the 1st reads: ./paired_end_com1.fq the 2nd reads: ./paired_end_com2.fq ALN Alignment Files: the 1st reads: ./paired_end_com1.aln the 2nd reads: ./paired_end_com2.aln SAM Alignment File: ./paired_end_com.sam ====================ART==================== ART_Illumina (2008-2016) Q Version 2.5.8 (June 6, 2016) Contact: Weichun Huang ------------------------------------------- Paired-end sequencing simulation Total CPU time used: 0.204936 The random seed for the run: 1638900754 Parameters used during run Read Length: 100 Genome masking 'N' cutoff frequency: 1 in 100 Fold Coverage: 10X Mean Fragment Length: 500 Standard Deviation: 10 Profile Type: Separated ID Tag: Quality Profile(s) First Read: HiSeq 2000 Length 100 R1 (built-in profile) First Read: HiSeq 2000 Length 100 R2 (built-in profile) Output files FASTQ Sequence Files: the 1st reads: ./paired_end_sep1.fq the 2nd reads: ./paired_end_sep2.fq ALN Alignment Files: the 1st reads: ./paired_end_sep1.aln the 2nd reads: ./paired_end_sep2.aln SAM Alignment File: ./paired_end_sep.sam ====================ART==================== ART_Illumina (2008-2016) Q Version 2.5.8 (June 6, 2016) Contact: Weichun Huang ------------------------------------------- Matepair-end sequencing simulation Total CPU time used: 0.157916 The random seed for the run: 1638900754 Parameters used during run Read Length: 100 Genome masking 'N' cutoff frequency: 1 in 100 Fold Coverage: 10X Mean Fragment Length: 2500 Standard Deviation: 50 Profile Type: Combined ID Tag: Quality Profile(s) First Read: HiSeq 2500 Length 126 R1 (built-in profile) First Read: HiSeq 2500 Length 126 R2 (built-in profile) Output files FASTQ Sequence Files: the 1st reads: ./matepair_com1.fq the 2nd reads: ./matepair_com2.fq ALN Alignment Files: the 1st reads: ./matepair_com1.aln the 2nd reads: ./matepair_com2.aln SAM Alignment File: ./matepair_com.sam ====================ART==================== ART_Illumina (2008-2016) Q Version 2.5.8 (June 6, 2016) Contact: Weichun Huang ------------------------------------------- Amplicon 5'-end sequencing simulation Total CPU time used: 1.57826 The random seed for the run: 1638900754 Parameters used during run Read Length: 100 Genome masking 'N' cutoff frequency: 1 in 100 # Reads per Amplion: 2 Profile Type: Combined ID Tag: Quality Profile(s) First Read: HiSeqX v2.5 TruSeq Length 151 R1 (built-in profile) Output files FASTQ Sequence File: ./amp_5_end_com.fq ALN Alignment File: ./amp_5_end_com.aln SAM Alignment File: ./amp_5_end_com.sam ====================ART==================== ART_Illumina (2008-2016) Q Version 2.5.8 (June 6, 2016) Contact: Weichun Huang ------------------------------------------- Amplicon paired-end sequencing simulation Total CPU time used: 1.87376 The random seed for the run: 1638900756 Parameters used during run Read Length: 100 Genome masking 'N' cutoff frequency: 1 in 100 # Read Pairs per Amplion: 1 Profile Type: Combined ID Tag: Quality Profile(s) First Read: MiSeq v1 Length 250 R1 (built-in profile) First Read: MiSeq v1 Length 250 R2 (built-in profile) Output files FASTQ Sequence Files: the 1st reads: ./amp_pair1.fq the 2nd reads: ./amp_pair2.fq ALN Alignment Files: the 1st reads: ./amp_pair1.aln the 2nd reads: ./amp_pair2.aln SAM Alignment File: ./amp_pair.sam ====================ART==================== ART_Illumina (2008-2016) Q Version 2.5.8 (June 6, 2016) Contact: Weichun Huang ------------------------------------------- Amplicon matepair sequencing simulation Total CPU time used: 2.20644 The random seed for the run: 1638900758 Parameters used during run Read Length: 100 Genome masking 'N' cutoff frequency: 1 in 100 # Read Pairs per Amplion: 1 Profile Type: Combined ID Tag: Quality Profile(s) First Read: MiSeq v3 Length 251 R1 (built-in profile) First Read: MiSeq v3 Length 251 R2 (built-in profile) Output files FASTQ Sequence Files: the 1st reads: ./amp_matepair1.fq the 2nd reads: ./amp_matepair2.fq ALN Alignment Files: the 1st reads: ./amp_matepair1.aln the 2nd reads: ./amp_matepair2.aln SAM Alignment File: ./amp_matepair.sam ====================ART==================== ART_Illumina (2008-2016) Q Version 2.5.8 (June 6, 2016) Contact: Weichun Huang ------------------------------------------- Paired-end sequencing simulation Total CPU time used: 0.177596 The random seed for the run: 777 Parameters used during run Read Length: 100 Genome masking 'N' cutoff frequency: 1 in 100 Fold Coverage: 10X Mean Fragment Length: 500 Standard Deviation: 10 Profile Type: Combined ID Tag: Quality Profile(s) First Read: HiSeqX v2.5 PCR free Length 151 R1 (built-in profile) First Read: HiSeqX v2.5 PCR free Length 151 R2 (built-in profile) Output files FASTQ Sequence Files: the 1st reads: ./paired_end_com_f11.fq the 2nd reads: ./paired_end_com_f12.fq ALN Alignment Files: the 1st reads: ./paired_end_com_f11.aln the 2nd reads: ./paired_end_com_f12.aln SAM Alignment File: ./paired_end_com_f1.sam ====================ART==================== ART_Illumina (2008-2016) Q Version 2.5.8 (June 6, 2016) Contact: Weichun Huang ------------------------------------------- Paired-end sequencing simulation Total CPU time used: 0.147347 The random seed for the run: 777 Parameters used during run Read Length: 100 Genome masking 'N' cutoff frequency: 1 in 100 Fold Coverage: 10X Mean Fragment Length: 500 Standard Deviation: 10 Profile Type: Combined ID Tag: Quality Profile(s) First Read: HiSeqX v2.5 PCR free Length 151 R1 (built-in profile) First Read: HiSeqX v2.5 PCR free Length 151 R2 (built-in profile) Output files FASTQ Sequence Files: the 1st reads: ./paired_end_com_f21.fq the 2nd reads: ./paired_end_com_f22.fq ALN Alignment Files: the 1st reads: ./paired_end_com_f21.aln the 2nd reads: ./paired_end_com_f22.aln SAM Alignment File: ./paired_end_com_f2.sam ====================ART==================== ART_Illumina (2008-2016) Q Version 2.5.8 (June 6, 2016) Contact: Weichun Huang ------------------------------------------- Paired-end sequencing simulation Total CPU time used: 0.167354 The random seed for the run: 1638900761 Parameters used during run Read Length: 100 Genome masking 'N' cutoff frequency: 1 in 100 Fold Coverage: 10X Mean Fragment Length: 500 Standard Deviation: 10 First quality shift: 10 Second quality shift: 10 Profile Type: Combined ID Tag: Quality Profile(s) First Read: HiSeq 2000 Length 100 R1 (built-in profile) First Read: HiSeq 2000 Length 100 R2 (built-in profile) Output files FASTQ Sequence Files: the 1st reads: ./paired_end_com_f11.fq the 2nd reads: ./paired_end_com_f12.fq ALN Alignment Files: the 1st reads: ./paired_end_com_f11.aln the 2nd reads: ./paired_end_com_f12.aln SAM Alignment File: ./paired_end_com_f1.sam ====================ART==================== ART_Illumina (2008-2016) Q Version 2.5.8 (June 6, 2016) Contact: Weichun Huang ------------------------------------------- Paired-end sequencing simulation Total CPU time used: 0.168402 The random seed for the run: 1638900761 Parameters used during run Read Length: 75 'N' genomic regions masking turned off Fold Coverage: 10X Mean Fragment Length: 500 Standard Deviation: 10 Profile Type: Combined ID Tag: Quality Profile(s) First Read: NextSeq 500 v2 Length 76 R1 (built-in profile) First Read: NextSeq 500 v2 Length 76 R2 (built-in profile) Output files FASTQ Sequence Files: the 1st reads: ./paired_nomask1.fq the 2nd reads: ./paired_nomask2.fq ALN Alignment Files: the 1st reads: ./paired_nomask1.aln the 2nd reads: ./paired_nomask2.aln SAM Alignment File: ./paired_nomask.sam rm -f *.aln *.fq *.bed *.map *.sam *.stat make[1]: Leaving directory '/<>/art-nextgen-simulation-tools-20160605+dfsg' create-stamp debian/debhelper-build-stamp dh_prep -a dh_auto_install -a make -j4 install DESTDIR=/<>/art-nextgen-simulation-tools-20160605\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/<>/art-nextgen-simulation-tools-20160605+dfsg' make[2]: Entering directory '/<>/art-nextgen-simulation-tools-20160605+dfsg' make[2]: Nothing to be done for 'install-data-am'. /usr/bin/mkdir -p '/<>/art-nextgen-simulation-tools-20160605+dfsg/debian/tmp/usr/bin' /usr/bin/mkdir -p '/<>/art-nextgen-simulation-tools-20160605+dfsg/debian/tmp/usr/bin' /usr/bin/install -c aln2bed.pl map2bed.pl ART_profiler_454/art_profiler_454 ART_profiler_illumina/combinedAvg.pl ART_profiler_illumina/fastqReadAvg.pl ART_profiler_illumina/art_profiler_illumina ART_profiler_illumina/empDist.pl ART_profiler_illumina/summation.pl '/<>/art-nextgen-simulation-tools-20160605+dfsg/debian/tmp/usr/bin' /usr/bin/install -c art_illumina art_454 art_SOLiD '/<>/art-nextgen-simulation-tools-20160605+dfsg/debian/tmp/usr/bin' make[2]: Leaving directory '/<>/art-nextgen-simulation-tools-20160605+dfsg' make[1]: Leaving directory '/<>/art-nextgen-simulation-tools-20160605+dfsg' debian/rules override_dh_install-arch make[1]: Entering directory '/<>/art-nextgen-simulation-tools-20160605+dfsg' dh_install -a # aln2bed.pl seems to be of general use - the other perl scripts are called by art_profiler_illumina # see patch for the latter regarding PATH to *.pl files mkdir -p debian/art-nextgen-simulation-tools/usr/lib/art-nextgen-simulation-tools for pl in debian/art-nextgen-simulation-tools/usr/bin/*.pl ; do \ if [ `basename ${pl}` = aln2bed.pl ] ; then \ mv ${pl} debian/art-nextgen-simulation-tools/usr/bin/`basename ${pl} .pl` ; \ else \ mv ${pl} debian/art-nextgen-simulation-tools/usr/lib/art-nextgen-simulation-tools ; \ fi ; \ done make[1]: Leaving directory '/<>/art-nextgen-simulation-tools-20160605+dfsg' dh_installdocs -a debian/rules override_dh_installchangelogs make[1]: Entering directory '/<>/art-nextgen-simulation-tools-20160605+dfsg' dh_installchangelogs ChangeLog make[1]: Leaving directory '/<>/art-nextgen-simulation-tools-20160605+dfsg' debian/rules override_dh_installexamples-arch make[1]: Entering directory '/<>/art-nextgen-simulation-tools-20160605+dfsg' dh_installexamples -a for ex in examples/run_test_examples_*.sh ; do \ sed -e 's?=\.\./?=/usr/bin/?' \ -e 's?^\.\./?/usr/bin/?' \ -e 's/aln2bed\.pl/aln2bed/' \ $ex > debian/art-nextgen-simulation-tools/usr/share/doc/art-nextgen-simulation-tools/examples/`basename $ex` ; \ done make[1]: Leaving directory '/<>/art-nextgen-simulation-tools-20160605+dfsg' dh_installman -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a dh_dwz -a dh_strip -a debugedit: debian/art-nextgen-simulation-tools/usr/bin/art_SOLiD: Unknown DWARF DW_FORM_0x1f21 f5a40a76fdc3eb5bd7d119f21475d590f5590419 debugedit: debian/art-nextgen-simulation-tools/usr/bin/art_454: Unknown DWARF DW_FORM_0x1f21 4a450165aa6be426ed37deb0af4a7264cf51bbaf debugedit: debian/art-nextgen-simulation-tools/usr/bin/art_illumina: Unknown DWARF DW_FORM_0x1f20 613ac42613bcf1ae17241cab366bae6bb39d0358 dh_makeshlibs -a dh_shlibdeps -a dh_installdeb -a dh_gencontrol -a dpkg-gencontrol: warning: package art-nextgen-simulation-tools: substitution variable ${perl:Depends} unused, but is defined dpkg-gencontrol: warning: package art-nextgen-simulation-tools: substitution variable ${perl:Depends} unused, but is defined dh_md5sums -a dh_builddeb -a INFO: pkgstriptranslations version 149 INFO: pkgstriptranslations version 149 pkgstriptranslations: processing art-nextgen-simulation-tools (in debian/art-nextgen-simulation-tools); do_strip: , oemstrip: pkgstriptranslations: processing art-nextgen-simulation-tools-dbgsym (in debian/.debhelper/art-nextgen-simulation-tools/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com pkgstripfiles: processing control file: debian/art-nextgen-simulation-tools/DEBIAN/control, package art-nextgen-simulation-tools, directory debian/art-nextgen-simulation-tools .. removing usr/share/doc/art-nextgen-simulation-tools/changelog.gz pkgstripfiles: processing control file: debian/.debhelper/art-nextgen-simulation-tools/dbgsym-root/DEBIAN/control, package art-nextgen-simulation-tools-dbgsym, directory debian/.debhelper/art-nextgen-simulation-tools/dbgsym-root dpkg-deb: building package 'art-nextgen-simulation-tools-dbgsym' in 'debian/.debhelper/scratch-space/build-art-nextgen-simulation-tools/art-nextgen-simulation-tools-dbgsym_20160605+dfsg-4build2_arm64.deb'. pkgstripfiles: Running PNG optimization (using 4 cpus) for package art-nextgen-simulation-tools ... pkgstripfiles: No PNG files. dpkg-deb: building package 'art-nextgen-simulation-tools' in '../art-nextgen-simulation-tools_20160605+dfsg-4build2_arm64.deb'. Renaming art-nextgen-simulation-tools-dbgsym_20160605+dfsg-4build2_arm64.deb to art-nextgen-simulation-tools-dbgsym_20160605+dfsg-4build2_arm64.ddeb dpkg-genbuildinfo --build=any dpkg-genchanges --build=any -mLaunchpad Build Daemon >../art-nextgen-simulation-tools_20160605+dfsg-4build2_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 2021-12-07T18:13:15Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ art-nextgen-simulation-tools_20160605+dfsg-4build2_arm64.changes: ----------------------------------------------------------------- Format: 1.8 Date: Tue, 07 Dec 2021 17:23:03 +0000 Source: art-nextgen-simulation-tools Binary: art-nextgen-simulation-tools Built-For-Profiles: noudeb Architecture: arm64 Version: 20160605+dfsg-4build2 Distribution: jammy-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Steve Langasek Description: art-nextgen-simulation-tools - simulation tools to generate synthetic next-generation sequencing Changes: art-nextgen-simulation-tools (20160605+dfsg-4build2) jammy; urgency=medium . * No-change rebuild against libgsl27 Checksums-Sha1: 6a8e7890142bfc8e6212384e3e109f2db6dd2cc1 1135292 art-nextgen-simulation-tools-dbgsym_20160605+dfsg-4build2_arm64.ddeb b90d9c1449d8c610c89120317250750bcb260e3d 6092 art-nextgen-simulation-tools_20160605+dfsg-4build2_arm64.buildinfo 675878e532b2100242ff42da61f4b3ad3ea49eb4 1770004 art-nextgen-simulation-tools_20160605+dfsg-4build2_arm64.deb Checksums-Sha256: 0e5d0b38d52a1727959898f654a80b5bfffed010812293f4b7a71cc34c3cdedf 1135292 art-nextgen-simulation-tools-dbgsym_20160605+dfsg-4build2_arm64.ddeb 1f31099262fc9aa3b31f5234e6e41425f84738fc8846b2a1ff93e5ead2fe7595 6092 art-nextgen-simulation-tools_20160605+dfsg-4build2_arm64.buildinfo 765717958126cb768452656e8ac82a8875e62d0fd616736c7e9a6919be70cdbc 1770004 art-nextgen-simulation-tools_20160605+dfsg-4build2_arm64.deb Files: 41a1cb48f3aac86bc3bf59118a68332b 1135292 debug optional art-nextgen-simulation-tools-dbgsym_20160605+dfsg-4build2_arm64.ddeb 10bc6cefbfdc4c63703b59e8be2d1e0c 6092 science optional art-nextgen-simulation-tools_20160605+dfsg-4build2_arm64.buildinfo da096ed333b49fec5af7d7ecce8724c5 1770004 science optional art-nextgen-simulation-tools_20160605+dfsg-4build2_arm64.deb Original-Maintainer: Debian Med Packaging Team +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: art-nextgen-simulation-tools Binary: art-nextgen-simulation-tools art-nextgen-simulation-tools-dbgsym Architecture: arm64 Version: 20160605+dfsg-4build2 Checksums-Md5: 41a1cb48f3aac86bc3bf59118a68332b 1135292 art-nextgen-simulation-tools-dbgsym_20160605+dfsg-4build2_arm64.ddeb da096ed333b49fec5af7d7ecce8724c5 1770004 art-nextgen-simulation-tools_20160605+dfsg-4build2_arm64.deb Checksums-Sha1: 6a8e7890142bfc8e6212384e3e109f2db6dd2cc1 1135292 art-nextgen-simulation-tools-dbgsym_20160605+dfsg-4build2_arm64.ddeb 675878e532b2100242ff42da61f4b3ad3ea49eb4 1770004 art-nextgen-simulation-tools_20160605+dfsg-4build2_arm64.deb Checksums-Sha256: 0e5d0b38d52a1727959898f654a80b5bfffed010812293f4b7a71cc34c3cdedf 1135292 art-nextgen-simulation-tools-dbgsym_20160605+dfsg-4build2_arm64.ddeb 765717958126cb768452656e8ac82a8875e62d0fd616736c7e9a6919be70cdbc 1770004 art-nextgen-simulation-tools_20160605+dfsg-4build2_arm64.deb Build-Origin: Ubuntu Build-Architecture: arm64 Build-Date: Tue, 07 Dec 2021 18:13:14 +0000 Build-Path: /<>/art-nextgen-simulation-tools-20160605+dfsg Build-Tainted-By: merged-usr-via-aliased-dirs usr-local-has-programs Installed-Build-Depends: autoconf (= 2.71-2), automake (= 1:1.16.5-1.1), autopoint (= 0.21-4ubuntu3), autotools-dev (= 20180224.1+nmu1), base-files (= 12ubuntu2), base-passwd (= 3.5.52), bash (= 5.1-5ubuntu1), binutils (= 2.37-10ubuntu1), binutils-aarch64-linux-gnu (= 2.37-10ubuntu1), binutils-common (= 2.37-10ubuntu1), bsdextrautils (= 2.37.2-4ubuntu1), bsdutils (= 1:2.37.2-4ubuntu1), build-essential (= 12.9ubuntu2), bzip2 (= 1.0.8-5), coreutils (= 8.32-4ubuntu3), cpp (= 4:11.2.0-1ubuntu1), cpp-11 (= 11.2.0-12ubuntu1), dash (= 0.5.11+git20210903+057cd650a4ed-3), debconf 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5.2.5-2build1), zlib1g (= 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="1638897783" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ art-nextgen-simulation-tools_20160605+dfsg-4build2_arm64.deb ------------------------------------------------------------ new Debian package, version 2.0. size 1770004 bytes: control archive=2079 bytes. 1810 bytes, 30 lines control 2723 bytes, 33 lines md5sums Package: art-nextgen-simulation-tools Version: 20160605+dfsg-4build2 Architecture: arm64 Maintainer: Ubuntu Developers Installed-Size: 8948 Depends: libc6 (>= 2.34), libgcc-s1 (>= 3.3.1), libgsl27 (>= 2.7.1), libstdc++6 (>= 9) Suggests: art-nextgen-simulation-tools-profiles Section: science Priority: optional Homepage: https://www.niehs.nih.gov/research/resources/software/biostatistics/art/ Description: simulation tools to generate synthetic next-generation sequencing reads ART is a set of simulation tools to generate synthetic next-generation sequencing reads. ART simulates sequencing reads by mimicking real sequencing process with empirical error models or quality profiles summarized from large recalibrated sequencing data. ART can also simulate reads using user own read error model or quality profiles. ART supports simulation of single-end, paired-end/mate-pair reads of three major commercial next-generation sequencing platforms: Illumina's Solexa, Roche's 454 and Applied Biosystems' SOLiD. ART can be used to test or benchmark a variety of method or tools for next-generation sequencing data analysis, including read alignment, de novo assembly, SNP and structure variation discovery. ART was used as a primary tool for the simulation study of the 1000 Genomes Project . ART is implemented in C++ with optimized algorithms and is highly efficient in read simulation. ART outputs reads in the FASTQ format, and alignments in the ALN format. ART can also generate alignments in the SAM alignment or UCSC BED file format. ART can be used together with genome variants simulators (e.g. VarSim) for evaluating variant calling tools or methods. 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+------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: arm64 Build Type: any Build-Space: n/a Build-Time: 2228 Distribution: jammy-proposed Host Architecture: arm64 Install-Time: 18 Job: art-nextgen-simulation-tools_20160605+dfsg-4build2.dsc Machine Architecture: arm64 Package: art-nextgen-simulation-tools Package-Time: 2250 Source-Version: 20160605+dfsg-4build2 Space: n/a Status: successful Version: 20160605+dfsg-4build2 -------------------------------------------------------------------------------- Finished at 2021-12-07T18:13:15Z Build needed 00:37:30, 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-22599296 Scanning for processes to kill in build PACKAGEBUILD-22599296