sbuild (Debian sbuild) 0.85.10 (30 May 2024) on carme.larted.org.uk +==============================================================================+ | pique 1.0-7 (amd64) Mon, 16 Sep 2024 12:26:24 +0000 | +==============================================================================+ Package: pique Version: 1.0-7 Source Version: 1.0-7 Distribution: perl-5.40-throwaway Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: full I: NOTICE: Log filtering will replace 'var/run/schroot/mount/perl-5.40-amd64-debomatic-db481af4-b08b-484d-8793-6cec41ff1b27' with '<>' +------------------------------------------------------------------------------+ | Chroot Setup Commands | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup pique_1.0-7 perl-5.40-throwaway amd64 ------------------------------------------------------------------------------------------------------------ I: Finished running '/usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup pique_1.0-7 perl-5.40-throwaway amd64'. Finished processing commands. -------------------------------------------------------------------------------- I: NOTICE: Log filtering will replace 'build/pique-feA0zI/resolver-jTm0PN' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 file:/srv/reprepro perl-5.40 InRelease [3042 B] Hit:2 http://deb.debian.org/debian unstable InRelease Hit:3 http://localhost:3142/debian sid InRelease Get:1 file:/srv/reprepro perl-5.40 InRelease [3042 B] Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- /srv/debomatic/incoming/pique_1.0-7.dsc exists in /srv/debomatic/incoming; copying to chroot I: NOTICE: Log filtering will replace 'build/pique-feA0zI/pique-1.0' with '<>' I: NOTICE: Log filtering will replace 'build/pique-feA0zI' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), build-essential, fakeroot Filtered Build-Depends: debhelper-compat (= 13), build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [609 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [617 B] Get:5 copy:/<>/apt_archive ./ Packages [649 B] Fetched 1875 B in 0s (121 kB/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils debhelper dh-autoreconf dh-strip-nondeterminism dwz fakeroot file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libdebhelper-perl libelf1t64 libfakeroot libfile-stripnondeterminism-perl libicu72 libmagic-mgc libmagic1t64 libpipeline1 libtool libuchardet0 libxml2 m4 man-db po-debconf sensible-utils Suggested packages: autoconf-archive gnu-standards autoconf-doc dh-make gettext-doc libasprintf-dev libgettextpo-dev groff 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 dh-autoreconf dh-strip-nondeterminism dwz fakeroot file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libdebhelper-perl libelf1t64 libfakeroot libfile-stripnondeterminism-perl libicu72 libmagic-mgc libmagic1t64 libpipeline1 libtool libuchardet0 libxml2 m4 man-db po-debconf sbuild-build-depends-main-dummy sensible-utils 0 upgraded, 32 newly installed, 0 to remove and 0 not upgraded. Need to get 19.9 MB of archives. After this operation, 75.7 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [880 B] Get:2 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get:3 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3 [314 kB] Get:4 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3 [105 kB] Get:5 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3 [42.9 kB] Get:6 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.22.5-2 [200 kB] Get:7 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b1 [68.8 kB] Get:8 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-5 [1181 kB] Get:9 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.2-8 [97.3 kB] Get:10 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get:11 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get:12 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-4 [287 kB] Get:13 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3 [493 kB] Get:14 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get:15 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get:16 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.22.5-2 [723 kB] Get:17 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.20 [89.7 kB] Get:18 http://deb.debian.org/debian unstable/main amd64 libtool all 2.4.7-7 [517 kB] Get:19 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get:20 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:21 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get:22 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get:23 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.191-2 [188 kB] Get:24 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get:25 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-5 [9396 kB] Get:26 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg-3+b1 [671 kB] Get:27 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.22.5-2 [1601 kB] Get:28 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get:29 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get:30 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.20 [915 kB] Get:31 http://deb.debian.org/debian unstable/main amd64 libfakeroot amd64 1.36-1 [29.1 kB] Get:32 http://deb.debian.org/debian unstable/main amd64 fakeroot amd64 1.36-1 [75.1 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 19.9 MB in 0s (88.6 MB/s) Selecting previously unselected package sensible-utils. (Reading database ... 22986 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3_amd64.deb ... Unpacking file (1:5.45-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.22.5-2_amd64.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../05-libuchardet0_0.0.8-1+b1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b1) ... 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Selecting previously unselected package sbuild-build-depends-main-dummy. Preparing to unpack .../31-sbuild-build-depends-main-dummy_0.invalid.0_amd64.deb ... Unpacking sbuild-build-depends-main-dummy (0.invalid.0) ... Setting up libpipeline1:amd64 (1.5.8-1) ... Setting up libicu72:amd64 (72.1-5) ... Setting up bsdextrautils (2.40.2-8) ... Setting up libmagic-mgc (1:5.45-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.20) ... Setting up libmagic1t64:amd64 (1:5.45-3) ... Setting up gettext-base (0.22.5-2) ... Setting up m4 (1.4.19-4) ... Setting up file (1:5.45-3) ... Setting up libfakeroot:amd64 (1.36-1) ... Setting up libelf1t64:amd64 (0.191-2) ... Setting up fakeroot (1.36-1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.22.5-2) ... Setting up autoconf (2.72-3) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:amd64 (0.0.8-1+b1) ... Setting up libxml2:amd64 (2.12.7+dfsg-3+b1) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up gettext (0.22.5-2) ... Setting up libtool (2.4.7-7) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-5) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.20) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.40-2) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in all) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 6.9.7-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.9.7-1 (2024-06-27) amd64 (x86_64) Toolchain package versions: binutils_2.43.1-4 dpkg-dev_1.22.11 g++-13_13.3.0-6 g++-14_14.2.0-5 gcc-13_13.3.0-6 gcc-14_14.2.0-5 libc6-dev_2.40-2 libstdc++-13-dev_13.3.0-6 libstdc++-14-dev_14.2.0-5 libstdc++6_14.2.0-5 linux-libc-dev_6.10.9-1 Package versions: adduser_3.137 apt_2.9.8 autoconf_2.72-3 automake_1:1.16.5-1.3 autopoint_0.22.5-2 autotools-dev_20220109.1 base-files_13.5 base-passwd_3.6.4 bash_5.2.32-1+b1 binutils_2.43.1-4 binutils-common_2.43.1-4 binutils-x86-64-linux-gnu_2.43.1-4 bsdextrautils_2.40.2-8 bsdutils_1:2.40.2-8 build-essential_12.10 bzip2_1.0.8-6 coreutils_9.4-3.1 cpp_4:14.1.0-2 cpp-13_13.3.0-6 cpp-13-x86-64-linux-gnu_13.3.0-6 cpp-14_14.2.0-5 cpp-14-x86-64-linux-gnu_14.2.0-5 cpp-x86-64-linux-gnu_4:14.1.0-2 dash_0.5.12-9 debconf_1.5.87 debhelper_13.20 debian-archive-keyring_2023.4 debianutils_5.20 dh-autoreconf_20 dh-strip-nondeterminism_1.14.0-1 diffutils_1:3.10-1 dirmngr_2.2.43-8+b1 dpkg_1.22.11 dpkg-dev_1.22.11 dwz_0.15-1+b1 eatmydata_131-2 fakeroot_1.36-1 file_1:5.45-3 findutils_4.10.0-3 g++_4:14.1.0-2 g++-13_13.3.0-6 g++-13-x86-64-linux-gnu_13.3.0-6 g++-14_14.2.0-5 g++-14-x86-64-linux-gnu_14.2.0-5 g++-x86-64-linux-gnu_4:14.1.0-2 gcc_4:14.1.0-2 gcc-13_13.3.0-6 gcc-13-base_13.3.0-6 gcc-13-x86-64-linux-gnu_13.3.0-6 gcc-14_14.2.0-5 gcc-14-base_14.2.0-5 gcc-14-x86-64-linux-gnu_14.2.0-5 gcc-x86-64-linux-gnu_4:14.1.0-2 gettext_0.22.5-2 gettext-base_0.22.5-2 gnupg_2.2.43-8 gnupg-l10n_2.2.43-8 gnupg-utils_2.2.43-8+b1 gpg_2.2.43-8+b1 gpg-agent_2.2.43-8+b1 gpg-wks-client_2.2.43-8+b1 gpgconf_2.2.43-8+b1 gpgsm_2.2.43-8+b1 gpgv_2.2.43-8+b1 grep_3.11-4 groff-base_1.23.0-5 gzip_1.12-1.1 hostname_3.23+nmu2 init-system-helpers_1.66 intltool-debian_0.35.0+20060710.6 libacl1_2.3.2-2 libapt-pkg6.0t64_2.9.8 libarchive-zip-perl_1.68-1 libasan8_14.2.0-5 libassuan0_2.5.6-1+b1 libassuan9_3.0.1-2 libatomic1_14.2.0-5 libattr1_1:2.5.2-1 libaudit-common_1:4.0.1-1 libaudit1_1:4.0.1-1 libbinutils_2.43.1-4 libblkid1_2.40.2-8 libbsd0_0.12.2-1 libbz2-1.0_1.0.8-6 libc-bin_2.40-2 libc-dev-bin_2.40-2 libc-l10n_2.40-2 libc6_2.40-2 libc6-dev_2.40-2 libcap-ng0_0.8.5-2 libcap2_1:2.66-5 libcc1-0_14.2.0-5 libcrypt-dev_1:4.4.36-5 libcrypt1_1:4.4.36-5 libctf-nobfd0_2.43.1-4 libctf0_2.43.1-4 libdb5.3t64_5.3.28+dfsg2-7 libdebconfclient0_0.272 libdebhelper-perl_13.20 libdpkg-perl_1.22.11 libeatmydata1_131-2 libelf1t64_0.191-2 libfakeroot_1.36-1 libffi8_3.4.6-1 libfile-stripnondeterminism-perl_1.14.0-1 libgcc-13-dev_13.3.0-6 libgcc-14-dev_14.2.0-5 libgcc-s1_14.2.0-5 libgcrypt20_1.11.0-6 libgdbm-compat4t64_1.24-2 libgdbm6t64_1.24-2 libgmp10_2:6.3.0+dfsg-2+b1 libgnutls30t64_3.8.6-2 libgomp1_14.2.0-5 libgpg-error0_1.50-3 libgprofng0_2.43.1-4 libhogweed6t64_3.10-1 libhwasan0_14.2.0-5 libicu72_72.1-5 libidn2-0_2.3.7-2 libisl23_0.27-1 libitm1_14.2.0-5 libjansson4_2.14-2+b2 libksba8_1.6.7-2 libldap-2.5-0_2.5.18+dfsg-3+b1 liblsan0_14.2.0-5 liblz4-1_1.9.4-3 liblzma5_5.6.2-2 libmagic-mgc_1:5.45-3 libmagic1t64_1:5.45-3 libmd0_1.1.0-2 libmount1_2.40.2-8 libmpc3_1.3.1-1+b2 libmpfr6_4.2.1-1+b1 libncursesw6_6.5-2 libnettle8t64_3.10-1 libnpth0t64_1.6-3.1 libp11-kit0_0.25.5-2 libpam-modules_1.5.3-7 libpam-modules-bin_1.5.3-7 libpam-runtime_1.5.3-7 libpam0g_1.5.3-7 libpcre2-8-0_10.42-4+b1 libperl5.38t64_5.38.2-5 libperl5.40_5.40.0-5 libpipeline1_1.5.8-1 libquadmath0_14.2.0-5 libreadline8t64_8.2-5 libsasl2-2_2.1.28+dfsg1-8 libsasl2-modules-db_2.1.28+dfsg1-8 libseccomp2_2.5.5-1+b1 libselinux1_3.7-3 libsemanage-common_3.7-2 libsemanage2_3.7-2 libsepol2_3.7-1 libsframe1_2.43.1-4 libsmartcols1_2.40.2-8 libsqlite3-0_3.46.1-1 libssl3t64_3.3.2-1 libstdc++-13-dev_13.3.0-6 libstdc++-14-dev_14.2.0-5 libstdc++6_14.2.0-5 libsystemd0_256.6-1 libtasn1-6_4.19.0-3+b2 libtinfo6_6.5-2 libtool_2.4.7-7 libtsan2_14.2.0-5 libubsan1_14.2.0-5 libuchardet0_0.0.8-1+b1 libudev1_256.6-1 libunistring5_1.2-1 libuuid1_2.40.2-8 libxml2_2.12.7+dfsg-3+b1 libxxhash0_0.8.2-2+b1 libzstd1_1.5.6+dfsg-1 linux-libc-dev_6.10.9-1 locales-all_2.40-2 login_1:4.16.0-2+really2.40.2-8 login.defs_1:4.16.0-4 m4_1.4.19-4 make_4.3-4.1 man-db_2.13.0-1 mawk_1.3.4.20240905-1 ncurses-base_6.5-2 ncurses-bin_6.5-2 openssl-provider-legacy_3.3.2-1 passwd_1:4.16.0-4 patch_2.7.6-7 perl_5.40.0-5 perl-base_5.40.0-5 perl-modules-5.38_5.38.2-5 perl-modules-5.40_5.40.0-5 pinentry-curses_1.2.1-4+b1 po-debconf_1.0.21+nmu1 readline-common_8.2-5 rpcsvc-proto_1.4.3-1 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-2 sensible-utils_0.0.24 sysvinit-utils_3.10-2 tar_1.35+dfsg-3 usr-is-merged_39 util-linux_2.40.2-8 xz-utils_5.6.2-2 zlib1g_1:1.3.dfsg+really1.3.1-1 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: pique Binary: pique, pique-doc Architecture: all Version: 1.0-7 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://github.com/tony-travis/PIQUE/ Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/pique Vcs-Git: https://salsa.debian.org/med-team/pique.git Testsuite: autopkgtest Testsuite-Triggers: r-cran-hmisc, wget Build-Depends: debhelper-compat (= 13) Package-List: pique deb science optional arch=all pique-doc deb doc optional arch=all Checksums-Sha1: 4d8c501691225a6447de6dd2058a27cfa8a0c6f5 2017140 pique_1.0.orig.tar.gz 01415959b6c5db7cacd54c2e502790336c27f839 5236 pique_1.0-7.debian.tar.xz Checksums-Sha256: fb69418ff4fc27254cf7904507429bd5626fd05ef6cab1e99d3aa4891a620319 2017140 pique_1.0.orig.tar.gz ff870451cc91d92d13e4842dccd1f00728df5a5b95b7679ff17c32de0a748daf 5236 pique_1.0-7.debian.tar.xz Files: f2be5335106aa2131971f7d6ed756a99 2017140 pique_1.0.orig.tar.gz 6b37fd56873eae5d144c599bb8518a24 5236 pique_1.0-7.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmV4v+ERHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtEuVA/+I9rlECJPTYZlKUAfh+FCH4VEoaM2G3uG Fq7lsA1VzWAFW1SiaVJf2z8thQnR1IjgUw2lZcz+2UniB7CJIN60incFSlzJNgL1 OUD7mXqTDvdOruVQM8efYgGiMtKd2bsqKh5AI/dOF0sVOR2qKZIGgKTLpADRMjYc XeE0s0yC9FqelUzaQ2siUCRUDPkV62CfM51YooOLbIoKvNBOQY0UNOY+fm93J/pm ngIzRSCDIcWZ6pnL8rJecoAN9U4hEFCGQXjbV7DL/QY0X0nPBchGeG8F/VW9dpK0 ERcamMjRb6b24W3lLe8mpFvdUw1SodZuD5JW8PM+/F2g0Vx6BfAXKIWmAZqK3i6d liVr3xk9tcZKON6UqmZ4rL0Wa3vZCOntwrxjSnaWYZ6DNppDU9r8lVecPuPtVVWZ 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+------------------------------------------------------------------------------+ | Starting Timed Build Commands | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/starting-build-commands/no-network pique_1.0-7 perl-5.40-throwaway amd64 ------------------------------------------------------------------------------------------------------------ I: Finished running '/usr/share/debomatic/sbuildcommands/starting-build-commands/no-network pique_1.0-7 perl-5.40-throwaway amd64'. Finished processing commands. -------------------------------------------------------------------------------- User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf HOME=/sbuild-nonexistent LANG=en_GB.UTF-8 LANGUAGE=en_GB:en LC_ALL=C.UTF-8 LD_LIBRARY_PATH=/usr/lib/libeatmydata LD_PRELOAD=libeatmydata.so LOGNAME=debomatic PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games PWD=/<> SCHROOT_ALIAS_NAME=perl-5.40-throwaway-amd64-debomatic SCHROOT_CHROOT_NAME=perl-5.40-amd64-debomatic SCHROOT_COMMAND=env SCHROOT_GID=110 SCHROOT_GROUP=sbuild SCHROOT_SESSION_ID=perl-5.40-amd64-debomatic-db481af4-b08b-484d-8793-6cec41ff1b27 SCHROOT_UID=1002 SCHROOT_USER=debomatic SHELL=/bin/sh USER=debomatic dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -us -uc -rfakeroot -Zxz dpkg-buildpackage: info: source package pique dpkg-buildpackage: info: source version 1.0-7 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Komolehin Israel Timilehin dpkg-source -Zxz --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_auto_clean make -j2 clean make[1]: Entering directory '/<>' rm -f *.log make[1]: Leaving directory '/<>' dh_clean dpkg-source -Zxz -b . dpkg-source: info: using source format '3.0 (quilt)' dpkg-source: info: building pique using existing ./pique_1.0.orig.tar.gz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: building pique in pique_1.0-7.debian.tar.xz dpkg-source: info: building pique in pique_1.0-7.dsc debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/<>' echo "Nothing to build. Upstream Makefile just fetches and installs dependencies" Nothing to build. Upstream Makefile just fetches and installs dependencies make[1]: Leaving directory '/<>' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep debian/rules override_dh_auto_install make[1]: Entering directory '/<>' echo "Nothing to install. Upstream Makefile just fetches and installs dependencies" Nothing to install. Upstream Makefile just fetches and installs dependencies make[1]: Leaving directory '/<>' dh_install dh_installdocs dh_installchangelogs dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress debian/rules override_dh_fixperms make[1]: Entering directory '/<>' dh_fixperms find debian -name "*.R" -exec chmod -x \{\} \; make[1]: Leaving directory '/<>' dh_missing dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'pique' in '../pique_1.0-7_all.deb'. dpkg-deb: building package 'pique-doc' in '../pique-doc_1.0-7_all.deb'. dpkg-genbuildinfo -O../pique_1.0-7_amd64.buildinfo dpkg-genchanges -O../pique_1.0-7_amd64.changes dpkg-genchanges: info: not including original source code in upload dpkg-source -Zxz --after-build . dpkg-buildpackage: info: binary and diff upload (original source NOT included) -------------------------------------------------------------------------------- Build finished at 2024-09-16T12:26:47Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ pique_1.0-7_amd64.changes: -------------------------- Format: 1.8 Date: Tue, 12 Dec 2023 16:57:46 +0000 Source: pique Binary: pique pique-doc Architecture: source all Version: 1.0-7 Distribution: perl-5.40-throwaway Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Komolehin Israel Timilehin Description: pique - software pipeline for performing genome wide association studies pique-doc - software pipeline for performing genome wide association studies Closes: 986194 Changes: pique (1.0-7) unstable; urgency=medium . [ Komolehin Israel Timilehin ] * Team upload * Added patch to fix smartpca command * Added autopkgtest (Closes: #986194) . [ Andreas Tille ] * Standards-Version: 4.6.2 (routine-update) Checksums-Sha1: f3504b5d1b235adb5998a5ec96b027b229bec722 1097 pique_1.0-7.dsc 01415959b6c5db7cacd54c2e502790336c27f839 5236 pique_1.0-7.debian.tar.xz 6a0f5cd80c6ea72be3e08df561941a3a6f24153d 1927560 pique-doc_1.0-7_all.deb 91aa664ba2b131cd5d4b30d2a1d57c238ba6ff70 20924 pique_1.0-7_all.deb 295d9b10411500f541886a46c017e0ffe2f50ccd 5165 pique_1.0-7_amd64.buildinfo Checksums-Sha256: 15dbb64e4183fac9bb63237c2278ca5d93b64c93a010a9fe1fb4a9387d8eecde 1097 pique_1.0-7.dsc ff870451cc91d92d13e4842dccd1f00728df5a5b95b7679ff17c32de0a748daf 5236 pique_1.0-7.debian.tar.xz ba1c88a2c5a5ab2d6d6b3bc20cbffe12972e12be6119afd0e6d654927cf81c8c 1927560 pique-doc_1.0-7_all.deb 4683427f539d28b6735213f8bdac124e635ef782eff48935b60cc0741e772fbf 20924 pique_1.0-7_all.deb 003ed085b772f54efed71da29bfab60dbc746fa111343ff8ab5f7a3603201e90 5165 pique_1.0-7_amd64.buildinfo Files: 001fee4573ee05aaf6a31997d38fef9a 1097 science optional pique_1.0-7.dsc 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Checksums-Sha256: 15dbb64e4183fac9bb63237c2278ca5d93b64c93a010a9fe1fb4a9387d8eecde 1097 pique_1.0-7.dsc ba1c88a2c5a5ab2d6d6b3bc20cbffe12972e12be6119afd0e6d654927cf81c8c 1927560 pique-doc_1.0-7_all.deb 4683427f539d28b6735213f8bdac124e635ef782eff48935b60cc0741e772fbf 20924 pique_1.0-7_all.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Mon, 16 Sep 2024 12:26:47 +0000 Build-Path: /<> Build-Tainted-By: merged-usr-via-aliased-dirs usr-local-has-programs Installed-Build-Depends: autoconf (= 2.72-3), automake (= 1:1.16.5-1.3), autopoint (= 0.22.5-2), autotools-dev (= 20220109.1), base-files (= 13.5), base-passwd (= 3.6.4), bash (= 5.2.32-1+b1), binutils (= 2.43.1-4), binutils-common (= 2.43.1-4), binutils-x86-64-linux-gnu (= 2.43.1-4), bsdextrautils (= 2.40.2-8), bsdutils (= 1:2.40.2-8), build-essential (= 12.10), bzip2 (= 1.0.8-6), coreutils (= 9.4-3.1), cpp (= 4:14.1.0-2), cpp-13 (= 13.3.0-6), cpp-13-x86-64-linux-gnu (= 13.3.0-6), cpp-14 (= 14.2.0-5), cpp-14-x86-64-linux-gnu (= 14.2.0-5), cpp-x86-64-linux-gnu (= 4:14.1.0-2), dash (= 0.5.12-9), debconf (= 1.5.87), debhelper (= 13.20), debianutils (= 5.20), dh-autoreconf (= 20), dh-strip-nondeterminism (= 1.14.0-1), diffutils (= 1:3.10-1), dpkg (= 1.22.11), dpkg-dev (= 1.22.11), dwz (= 0.15-1+b1), file (= 1:5.45-3), findutils (= 4.10.0-3), g++ (= 4:14.1.0-2), g++-14 (= 14.2.0-5), g++-14-x86-64-linux-gnu (= 14.2.0-5), g++-x86-64-linux-gnu (= 4:14.1.0-2), gcc (= 4:14.1.0-2), gcc-13 (= 13.3.0-6), gcc-13-base (= 13.3.0-6), gcc-13-x86-64-linux-gnu (= 13.3.0-6), gcc-14 (= 14.2.0-5), gcc-14-base (= 14.2.0-5), gcc-14-x86-64-linux-gnu (= 14.2.0-5), gcc-x86-64-linux-gnu (= 4:14.1.0-2), gettext (= 0.22.5-2), gettext-base (= 0.22.5-2), grep (= 3.11-4), groff-base (= 1.23.0-5), gzip (= 1.12-1.1), hostname (= 3.23+nmu2), init-system-helpers (= 1.66), intltool-debian (= 0.35.0+20060710.6), libacl1 (= 2.3.2-2), libarchive-zip-perl (= 1.68-1), libasan8 (= 14.2.0-5), libatomic1 (= 14.2.0-5), libattr1 (= 1:2.5.2-1), libaudit-common (= 1:4.0.1-1), libaudit1 (= 1:4.0.1-1), libbinutils (= 2.43.1-4), libblkid1 (= 2.40.2-8), libbz2-1.0 (= 1.0.8-6), libc-bin (= 2.40-2), libc-dev-bin (= 2.40-2), libc6 (= 2.40-2), libc6-dev (= 2.40-2), libcap-ng0 (= 0.8.5-2), libcap2 (= 1:2.66-5), libcc1-0 (= 14.2.0-5), libcrypt-dev (= 1:4.4.36-5), libcrypt1 (= 1:4.4.36-5), libctf-nobfd0 (= 2.43.1-4), libctf0 (= 2.43.1-4), libdb5.3t64 (= 5.3.28+dfsg2-7), libdebconfclient0 (= 0.272), libdebhelper-perl (= 13.20), libdpkg-perl (= 1.22.11), libelf1t64 (= 0.191-2), libfile-stripnondeterminism-perl (= 1.14.0-1), libgcc-13-dev (= 13.3.0-6), libgcc-14-dev (= 14.2.0-5), libgcc-s1 (= 14.2.0-5), libgdbm-compat4t64 (= 1.24-2), libgdbm6t64 (= 1.24-2), libgmp10 (= 2:6.3.0+dfsg-2+b1), libgomp1 (= 14.2.0-5), libgprofng0 (= 2.43.1-4), libhwasan0 (= 14.2.0-5), libicu72 (= 72.1-5), libisl23 (= 0.27-1), libitm1 (= 14.2.0-5), libjansson4 (= 2.14-2+b2), liblsan0 (= 14.2.0-5), liblzma5 (= 5.6.2-2), libmagic-mgc (= 1:5.45-3), libmagic1t64 (= 1:5.45-3), libmd0 (= 1.1.0-2), libmount1 (= 2.40.2-8), libmpc3 (= 1.3.1-1+b2), libmpfr6 (= 4.2.1-1+b1), libpam-modules (= 1.5.3-7), libpam-modules-bin (= 1.5.3-7), libpam-runtime (= 1.5.3-7), libpam0g (= 1.5.3-7), libpcre2-8-0 (= 10.42-4+b1), libperl5.40 (= 5.40.0-5), libpipeline1 (= 1.5.8-1), libquadmath0 (= 14.2.0-5), libseccomp2 (= 2.5.5-1+b1), libselinux1 (= 3.7-3), libsframe1 (= 2.43.1-4), libsmartcols1 (= 2.40.2-8), libssl3t64 (= 3.3.2-1), libstdc++-14-dev (= 14.2.0-5), libstdc++6 (= 14.2.0-5), libsystemd0 (= 256.6-1), libtinfo6 (= 6.5-2), libtool (= 2.4.7-7), libtsan2 (= 14.2.0-5), libubsan1 (= 14.2.0-5), libuchardet0 (= 0.0.8-1+b1), libudev1 (= 256.6-1), libunistring5 (= 1.2-1), libuuid1 (= 2.40.2-8), libxml2 (= 2.12.7+dfsg-3+b1), libzstd1 (= 1.5.6+dfsg-1), linux-libc-dev (= 6.10.9-1), m4 (= 1.4.19-4), make (= 4.3-4.1), man-db (= 2.13.0-1), mawk (= 1.3.4.20240905-1), ncurses-base (= 6.5-2), ncurses-bin (= 6.5-2), openssl-provider-legacy (= 3.3.2-1), patch (= 2.7.6-7), perl (= 5.40.0-5), perl-base (= 5.40.0-5), perl-modules-5.40 (= 5.40.0-5), po-debconf (= 1.0.21+nmu1), rpcsvc-proto (= 1.4.3-1), sed (= 4.9-2), sensible-utils (= 0.0.24), sysvinit-utils (= 3.10-2), tar (= 1.35+dfsg-3), usr-is-merged (= 39), util-linux (= 2.40.2-8), xz-utils (= 5.6.2-2), zlib1g (= 1:1.3.dfsg+really1.3.1-1) Environment: DEB_BUILD_OPTIONS="parallel=2" LANG="C.UTF-8" LC_COLLATE="C.UTF-8" LC_CTYPE="C.UTF-8" LD_LIBRARY_PATH="/usr/lib/libeatmydata" SOURCE_DATE_EPOCH="1702400266" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ pique-doc_1.0-7_all.deb ----------------------- new Debian package, version 2.0. size 1927560 bytes: control archive=1360 bytes. 1529 bytes, 30 lines control 742 bytes, 9 lines md5sums Package: pique-doc Source: pique Version: 1.0-7 Architecture: all Maintainer: Debian Med Packaging Team Installed-Size: 2152 Enhances: pique Section: doc Priority: optional Multi-Arch: foreign Homepage: https://github.com/tony-travis/PIQUE/ Description: software pipeline for performing genome wide association studies (docs) PIQUE is a software pipeline for performing genome wide association studies (GWAS). The main function of PIQUE is to provide ‘convenience’ wrappers that allow users to perform GWAS using the popular program EMMAX (Kang et al., 2010) without the need to be familiar with all of the software tools used to generate the required EMMAX input files. PIQUE will also perform a number of quality control steps prior to running EMMAX, ensuring that the various input data files are in the correct format. PIQUE proceeds in two main stages although there are multiple entry and exit points from which the pipeline can be run. The first stage consists of running the “pique-input” program, which can read genotype and phenotype information in several different formats and generates all the necessary input files required to run EMMAX. The second step in the pipeline uses the “pique-run” program to actually run EMMAX using the files generated by “pique-input” (or pre-existing user-supplied input files) to perform the GWAS and output the analysis summary files. . This package contains the documentation as well as example data. drwxr-xr-x root/root 0 2023-12-12 16:57 ./ drwxr-xr-x root/root 0 2023-12-12 16:57 ./usr/ drwxr-xr-x root/root 0 2023-12-12 16:57 ./usr/share/ drwxr-xr-x root/root 0 2023-12-12 16:57 ./usr/share/doc/ drwxr-xr-x root/root 0 2023-12-12 16:57 ./usr/share/doc/pique-doc/ -rw-r--r-- root/root 633 2023-12-12 16:57 ./usr/share/doc/pique-doc/changelog.Debian.gz -rw-r--r-- root/root 1179 2023-12-12 16:57 ./usr/share/doc/pique-doc/copyright drwxr-xr-x root/root 0 2023-12-12 16:57 ./usr/share/doc/pique/ drwxr-xr-x root/root 0 2023-12-12 16:57 ./usr/share/doc/pique/examples/ -rw-r--r-- root/root 2446 2018-07-01 15:45 ./usr/share/doc/pique/examples/Makefile -rw-r--r-- root/root 65469 2018-07-01 15:45 ./usr/share/doc/pique/examples/phenotype_reduced44K_all.txt -rw-r--r-- root/root 130582 2018-07-01 15:45 ./usr/share/doc/pique/examples/phenotype_reduced44K_subg.txt -rw-r--r-- root/root 66423 2018-07-01 15:45 ./usr/share/doc/pique/examples/phenotype_reduced44K_subg_all.txt -rw-r--r-- root/root 10686 2018-07-01 15:45 ./usr/share/doc/pique/examples/phenotype_reduced44K_subg_test.txt lrwxrwxrwx root/root 0 2023-12-12 16:57 ./usr/share/doc/pique/examples/rice_phenotype.txt -> phenotype_reduced44K_all.txt lrwxrwxrwx root/root 0 2023-12-12 16:57 ./usr/share/doc/pique/examples/rice_phenotype_group.txt -> phenotype_reduced44K_subg_all.txt -rw-r--r-- root/root 57907 2018-07-01 15:45 ./usr/share/doc/pique/pique_manual.odt -rw-r--r-- root/root 1853689 2018-07-01 15:45 ./usr/share/doc/pique/pique_tutorial.odt pique_1.0-7_all.deb ------------------- new Debian package, version 2.0. size 20924 bytes: control archive=1472 bytes. 1605 bytes, 26 lines control 717 bytes, 11 lines md5sums Package: pique Version: 1.0-7 Architecture: all Maintainer: Debian Med Packaging Team Installed-Size: 88 Depends: perl:any, r-base-core, emmax, plink, eigensoft, libreadonly-perl, libparallel-forkmanager-perl, libfile-slurp-perl, r-cran-getopt, r-cran-forecast, r-bioc-multtest, r-cran-optparse, r-cran-uroot Section: science Priority: optional Homepage: https://github.com/tony-travis/PIQUE/ Description: software pipeline for performing genome wide association studies PIQUE is a software pipeline for performing genome wide association studies (GWAS). The main function of PIQUE is to provide ‘convenience’ wrappers that allow users to perform GWAS using the popular program EMMAX (Kang et al., 2010) without the need to be familiar with all of the software tools used to generate the required EMMAX input files. PIQUE will also perform a number of quality control steps prior to running EMMAX, ensuring that the various input data files are in the correct format. PIQUE proceeds in two main stages although there are multiple entry and exit points from which the pipeline can be run. The first stage consists of running the “pique-input” program, which can read genotype and phenotype information in several different formats and generates all the necessary input files required to run EMMAX. The second step in the pipeline uses the “pique-run” program to actually run EMMAX using the files generated by “pique-input” (or pre-existing user-supplied input files) to perform the GWAS and output the analysis summary files. drwxr-xr-x root/root 0 2023-12-12 16:57 ./ drwxr-xr-x root/root 0 2023-12-12 16:57 ./usr/ drwxr-xr-x root/root 0 2023-12-12 16:57 ./usr/bin/ -rwxr-xr-x root/root 955 2018-07-01 15:45 ./usr/bin/GWAS_boxcox -rwxr-xr-x root/root 5038 2018-07-01 15:45 ./usr/bin/GWAS_manhattanplots -rwxr-xr-x root/root 34937 2023-12-12 16:57 ./usr/bin/pique-input -rwxr-xr-x root/root 13578 2018-07-01 15:45 ./usr/bin/pique-run drwxr-xr-x root/root 0 2023-12-12 16:57 ./usr/lib/ drwxr-xr-x root/root 0 2023-12-12 16:57 ./usr/lib/R/ drwxr-xr-x root/root 0 2023-12-12 16:57 ./usr/lib/R/site-library/ drwxr-xr-x root/root 0 2023-12-12 16:57 ./usr/lib/R/site-library/pique/ -rw-r--r-- root/root 12766 2018-07-01 15:45 ./usr/lib/R/site-library/pique/GWAS_manhattanplots.R drwxr-xr-x root/root 0 2023-12-12 16:57 ./usr/share/ drwxr-xr-x root/root 0 2023-12-12 16:57 ./usr/share/doc/ drwxr-xr-x root/root 0 2023-12-12 16:57 ./usr/share/doc/pique/ -rw-r--r-- root/root 309 2023-12-12 16:57 ./usr/share/doc/pique/README.test -rw-r--r-- root/root 633 2023-12-12 16:57 ./usr/share/doc/pique/changelog.Debian.gz -rw-r--r-- root/root 1179 2023-12-12 16:57 ./usr/share/doc/pique/copyright -rw-r--r-- root/root 334 2023-12-12 16:57 ./usr/share/doc/pique/run-unit-test drwxr-xr-x root/root 0 2023-12-12 16:57 ./usr/share/man/ drwxr-xr-x root/root 0 2023-12-12 16:57 ./usr/share/man/man1/ -rw-r--r-- root/root 935 2023-12-12 16:57 ./usr/share/man/man1/pique-input.1.gz -rw-r--r-- root/root 680 2023-12-12 16:57 ./usr/share/man/man1/pique-run.1.gz +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: full Build-Space: 6832 Build-Time: 9 Distribution: perl-5.40-throwaway Host Architecture: amd64 Install-Time: 8 Job: /srv/debomatic/incoming/pique_1.0-7.dsc Machine Architecture: amd64 Package: pique Package-Time: 23 Source-Version: 1.0-7 Space: 6832 Status: successful Version: 1.0-7 -------------------------------------------------------------------------------- Finished at 2024-09-16T12:26:47Z Build needed 00:00:23, 6832k disk space