plasmidseeker →
1.3+dfsg-3 →
armhf → 2022-12-11 15:00:15
sbuild (Debian sbuild) 0.78.1 (09 February 2019) on test2019
+==============================================================================+
| plasmidseeker 1.3+dfsg-3 (armhf) Sun, 11 Dec 2022 14:53:48 +0000 |
+==============================================================================+
Package: plasmidseeker
Version: 1.3+dfsg-3
Source Version: 1.3+dfsg-3
Distribution: bookworm-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
Build Type: any
I: NOTICE: Log filtering will replace 'var/run/schroot/mount/bookworm-staging-armhf-sbuild-2b1d7f9d-daac-45c7-9bca-c8727d353429' with '<<CHROOT>>'
I: NOTICE: Log filtering will replace 'build/plasmidseeker-kpD6Gq/resolver-uvmQlQ' with '<<RESOLVERDIR>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.4.1/private bookworm-staging InRelease [11.3 kB]
Get:2 http://172.17.4.1/private bookworm-staging/main Sources [13.5 MB]
Get:3 http://172.17.4.1/private bookworm-staging/main armhf Packages [14.3 MB]
Fetched 27.8 MB in 27s (1032 kB/s)
Reading package lists...
W: http://172.17.4.1/private/dists/bookworm-staging/InRelease: Key is stored in legacy trusted.gpg keyring (/etc/apt/trusted.gpg), see the DEPRECATION section in apt-key(8) for details.
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Check APT
---------
Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'plasmidseeker' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/plasmidseeker.git
Please use:
git clone https://salsa.debian.org/med-team/plasmidseeker.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 31.0 kB of source archives.
Get:1 http://172.17.4.1/private bookworm-staging/main plasmidseeker 1.3+dfsg-3 (dsc) [2018 B]
Get:2 http://172.17.4.1/private bookworm-staging/main plasmidseeker 1.3+dfsg-3 (tar) [24.0 kB]
Get:3 http://172.17.4.1/private bookworm-staging/main plasmidseeker 1.3+dfsg-3 (diff) [4972 B]
Fetched 31.0 kB in 0s (328 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/plasmidseeker-kpD6Gq/plasmidseeker-1.3+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/plasmidseeker-kpD6Gq' with '<<BUILDDIR>>'
+------------------------------------------------------------------------------+
| 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 '/<<RESOLVERDIR>>/apt_archive/sbuild-build-depends-main-dummy.deb'.
Ign:1 copy:/<<RESOLVERDIR>>/apt_archive ./ InRelease
Get:2 copy:/<<RESOLVERDIR>>/apt_archive ./ Release [957 B]
Ign:3 copy:/<<RESOLVERDIR>>/apt_archive ./ Release.gpg
Get:4 copy:/<<RESOLVERDIR>>/apt_archive ./ Sources [370 B]
Get:5 copy:/<<RESOLVERDIR>>/apt_archive ./ Packages [451 B]
Fetched 1778 B in 0s (47.1 kB/s)
Reading package lists...
Reading package lists...
Install main build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
krb5-locales libpam-cap libperl5.34 perl-modules-5.34
Use 'apt autoremove' to remove them.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bsdextrautils bsdutils debhelper
dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base
groff-base intltool-debian libarchive-zip-perl libblkid1 libdebhelper-perl
libelf1 libfile-stripnondeterminism-perl libicu72 libmagic-mgc libmagic1
libmount1 libpipeline1 libsmartcols1 libsub-override-perl libtool
libuchardet0 libuuid1 libxml2 m4 man-db mount po-debconf util-linux
util-linux-extra
Suggested packages:
autoconf-archive gnu-standards autoconf-doc dh-make gettext-doc
libasprintf-dev libgettextpo-dev groff cryptsetup-bin libtool-doc gfortran
| fortran95-compiler gcj-jdk m4-doc apparmor less www-browser nfs-common
libmail-box-perl dosfstools kbd util-linux-locales
Recommended packages:
curl | wget | lynx libarchive-cpio-perl libltdl-dev uuid-runtime
libmail-sendmail-perl
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bsdextrautils debhelper
dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base
groff-base intltool-debian libarchive-zip-perl libdebhelper-perl libelf1
libfile-stripnondeterminism-perl libicu72 libmagic-mgc libmagic1
libpipeline1 libsub-override-perl libtool libuchardet0 libxml2 m4 man-db
po-debconf sbuild-build-depends-main-dummy
The following packages will be upgraded:
bsdutils libblkid1 libmount1 libsmartcols1 libuuid1 mount util-linux
util-linux-extra
8 upgraded, 30 newly installed, 0 to remove and 74 not upgraded.
Need to get 19.7 MB of archives.
After this operation, 70.9 MB of additional disk space will be used.
Get:1 copy:/<<RESOLVERDIR>>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [868 B]
Get:2 http://172.17.4.1/private bookworm-staging/main armhf bsdutils armhf 1:2.38.1-4 [83.9 kB]
Get:3 http://172.17.4.1/private bookworm-staging/main armhf libsmartcols1 armhf 2.38.1-4 [91.6 kB]
Get:4 http://172.17.4.1/private bookworm-staging/main armhf util-linux-extra armhf 2.38.1-4 [98.1 kB]
Get:5 http://172.17.4.1/private bookworm-staging/main armhf util-linux armhf 2.38.1-4 [1062 kB]
Get:6 http://172.17.4.1/private bookworm-staging/main armhf mount armhf 2.38.1-4 [126 kB]
Get:7 http://172.17.4.1/private bookworm-staging/main armhf libblkid1 armhf 2.38.1-4 [131 kB]
Get:8 http://172.17.4.1/private bookworm-staging/main armhf libmount1 armhf 2.38.1-4 [144 kB]
Get:9 http://172.17.4.1/private bookworm-staging/main armhf libuuid1 armhf 2.38.1-4 [27.1 kB]
Get:10 http://172.17.4.1/private bookworm-staging/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB]
Get:11 http://172.17.4.1/private bookworm-staging/main armhf groff-base armhf 1.22.4-9 [774 kB]
Get:12 http://172.17.4.1/private bookworm-staging/main armhf bsdextrautils armhf 2.38.1-4 [78.8 kB]
Get:13 http://172.17.4.1/private bookworm-staging/main armhf libpipeline1 armhf 1.5.7-1 [33.4 kB]
Get:14 http://172.17.4.1/private bookworm-staging/main armhf man-db armhf 2.11.1-1 [1341 kB]
Get:15 http://172.17.4.1/private bookworm-staging/main armhf libmagic-mgc armhf 1:5.41-4 [295 kB]
Get:16 http://172.17.4.1/private bookworm-staging/main armhf libmagic1 armhf 1:5.41-4 [120 kB]
Get:17 http://172.17.4.1/private bookworm-staging/main armhf file armhf 1:5.41-4 [65.8 kB]
Get:18 http://172.17.4.1/private bookworm-staging/main armhf gettext-base armhf 0.21-10 [156 kB]
Get:19 http://172.17.4.1/private bookworm-staging/main armhf m4 armhf 1.4.19-1 [260 kB]
Get:20 http://172.17.4.1/private bookworm-staging/main armhf autoconf all 2.71-2 [343 kB]
Get:21 http://172.17.4.1/private bookworm-staging/main armhf autotools-dev all 20220109.1 [51.6 kB]
Get:22 http://172.17.4.1/private bookworm-staging/main armhf automake all 1:1.16.5-1.3 [823 kB]
Get:23 http://172.17.4.1/private bookworm-staging/main armhf autopoint all 0.21-10 [495 kB]
Get:24 http://172.17.4.1/private bookworm-staging/main armhf libdebhelper-perl all 13.11.1 [80.8 kB]
Get:25 http://172.17.4.1/private bookworm-staging/main armhf libtool all 2.4.7-5 [517 kB]
Get:26 http://172.17.4.1/private bookworm-staging/main armhf dh-autoreconf all 20 [17.1 kB]
Get:27 http://172.17.4.1/private bookworm-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:28 http://172.17.4.1/private bookworm-staging/main armhf libsub-override-perl all 0.09-4 [9304 B]
Get:29 http://172.17.4.1/private bookworm-staging/main armhf libfile-stripnondeterminism-perl all 1.13.0-2 [19.4 kB]
Get:30 http://172.17.4.1/private bookworm-staging/main armhf dh-strip-nondeterminism all 1.13.0-2 [8556 B]
Get:31 http://172.17.4.1/private bookworm-staging/main armhf libelf1 armhf 0.187-2+rpi2 [177 kB]
Get:32 http://172.17.4.1/private bookworm-staging/main armhf dwz armhf 0.14+20220924-2 [93.1 kB]
Get:33 http://172.17.4.1/private bookworm-staging/main armhf libicu72 armhf 72.1-3 [9009 kB]
Get:34 http://172.17.4.1/private bookworm-staging/main armhf libxml2 armhf 2.9.14+dfsg-1.1 [570 kB]
Get:35 http://172.17.4.1/private bookworm-staging/main armhf gettext armhf 0.21-10 [1203 kB]
Get:36 http://172.17.4.1/private bookworm-staging/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get:37 http://172.17.4.1/private bookworm-staging/main armhf po-debconf all 1.0.21+nmu1 [248 kB]
Get:38 http://172.17.4.1/private bookworm-staging/main armhf debhelper all 13.11.1 [941 kB]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 19.7 MB in 2s (8541 kB/s)
(Reading database ... 16658 files and directories currently installed.)
Preparing to unpack .../bsdutils_1%3a2.38.1-4_armhf.deb ...
Unpacking bsdutils (1:2.38.1-4) over (1:2.38.1-1.1) ...
Setting up bsdutils (1:2.38.1-4) ...
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Preparing to unpack .../libsmartcols1_2.38.1-4_armhf.deb ...
Unpacking libsmartcols1:armhf (2.38.1-4) over (2.38.1-1.1) ...
Setting up libsmartcols1:armhf (2.38.1-4) ...
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Preparing to unpack .../util-linux-extra_2.38.1-4_armhf.deb ...
Unpacking util-linux-extra (2.38.1-4) over (2.38.1-1.1) ...
Setting up util-linux-extra (2.38.1-4) ...
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Unpacking mount (2.38.1-4) over (2.38.1-1.1) ...
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Setting up libpipeline1:armhf (1.5.7-1) ...
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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
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Setting up man-db (2.11.1-1) ...
Not building database; man-db/auto-update is not 'true'.
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Processing triggers for libc-bin (2.35-2+rpi1) ...
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any)
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.19.20-v7+ #1 SMP Mon Mar 18 11:37:02 GMT 2019 armhf (armv7l)
Toolchain package versions: binutils_2.39-6+rpi1 dpkg-dev_1.21.9+rpi1 g++-12_12.2.0-3+rpi1 gcc-12_12.2.0-3+rpi1 libc6-dev_2.35-2+rpi1 libstdc++-12-dev_12.2.0-3+rpi1 libstdc++6_12.2.0-3+rpi1 linux-libc-dev_5.19.6-1+rpi1
Package versions: adduser_3.129 apt_2.5.3 autoconf_2.71-2 automake_1:1.16.5-1.3 autopoint_0.21-10 autotools-dev_20220109.1 base-files_12.3+rpi1 base-passwd_3.6.1 bash_5.2~rc2-2 binutils_2.39-6+rpi1 binutils-arm-linux-gnueabihf_2.39-6+rpi1 binutils-common_2.39-6+rpi1 bsdextrautils_2.38.1-4 bsdutils_1:2.38.1-4 build-essential_12.9 bzip2_1.0.8-5+b2 coreutils_9.1-1 cpp_4:12.2.0-1+rpi1 cpp-12_12.2.0-3+rpi1 dash_0.5.11+git20210903+057cd650a4ed-9 debconf_1.5.79 debhelper_13.11.1 debianutils_5.7-0.3 dh-autoreconf_20 dh-strip-nondeterminism_1.13.0-2 diffutils_1:3.8-1 dirmngr_2.2.39-1 dpkg_1.21.9+rpi1 dpkg-dev_1.21.9+rpi1 dwz_0.14+20220924-2 e2fsprogs_1.46.6~rc1-1 fakeroot_1.29-1 file_1:5.41-4 findutils_4.9.0-3 g++_4:12.2.0-1+rpi1 g++-12_12.2.0-3+rpi1 gcc_4:12.2.0-1+rpi1 gcc-12_12.2.0-3+rpi1 gcc-12-base_12.2.0-3+rpi1 gcc-7-base_7.5.0-6+rpi1+b2 gcc-8-base_8.4.0-7+rpi1 gcc-9-base_9.4.0-2+rpi1 gettext_0.21-10 gettext-base_0.21-10 gnupg_2.2.39-1 gnupg-l10n_2.2.39-1 gnupg-utils_2.2.39-1 gpg_2.2.39-1 gpg-agent_2.2.39-1 gpg-wks-client_2.2.39-1 gpg-wks-server_2.2.39-1 gpgconf_2.2.39-1 gpgsm_2.2.39-1 gpgv_2.2.39-1 grep_3.7-1 groff-base_1.22.4-9 gzip_1.12-1 hostname_3.23 init-system-helpers_1.64 intltool-debian_0.35.0+20060710.6 iputils-ping_3:20211215-1 krb5-locales_1.20-1 libacl1_2.3.1-1 libapt-pkg6.0_2.5.3 libarchive-zip-perl_1.68-1 libasan8_12.2.0-3+rpi1 libassuan0_2.5.5-4 libatomic1_12.2.0-3+rpi1 libattr1_1:2.5.1-1 libaudit-common_1:3.0.7-1.1 libaudit1_1:3.0.7-1.1 libbinutils_2.39-6+rpi1 libblkid1_2.38.1-4 libbz2-1.0_1.0.8-5+b2 libc-bin_2.35-2+rpi1 libc-dev-bin_2.35-2+rpi1 libc6_2.35-2+rpi1 libc6-dev_2.35-2+rpi1 libcap-ng0_0.8.3-1 libcap2_1:2.44-1 libcap2-bin_1:2.44-1 libcc1-0_12.2.0-3+rpi1 libcom-err2_1.46.6~rc1-1 libcrypt-dev_1:4.4.28-2 libcrypt1_1:4.4.28-2 libctf-nobfd0_2.39-6+rpi1 libctf0_2.39-6+rpi1 libdb5.3_5.3.28+dfsg1-0.10 libdebconfclient0_0.264 libdebhelper-perl_13.11.1 libdpkg-perl_1.21.9+rpi1 libelf1_0.187-2+rpi2 libext2fs2_1.46.6~rc1-1 libfakeroot_1.29-1 libffi8_3.4.2-4 libfile-stripnondeterminism-perl_1.13.0-2 libgcc-12-dev_12.2.0-3+rpi1 libgcc-s1_12.2.0-3+rpi1 libgcrypt20_1.10.1-2+b2 libgdbm-compat4_1.23-3 libgdbm6_1.23-3 libgmp10_2:6.2.1+dfsg1-1.1 libgnutls30_3.7.8-2 libgomp1_12.2.0-3+rpi1 libgpg-error0_1.45-2 libgssapi-krb5-2_1.20-1 libhogweed6_3.8.1-2 libicu72_72.1-3 libidn2-0_2.3.3-1 libisl23_0.25-1 libk5crypto3_1.20-1 libkeyutils1_1.6.3-1 libkrb5-3_1.20-1 libkrb5support0_1.20-1 libksba8_1.6.0-3 libldap-2.5-0_2.5.13+dfsg-2+rpi1 liblz4-1_1.9.4-1+rpi1 liblzma5_5.2.5-2.1 libmagic-mgc_1:5.41-4 libmagic1_1:5.41-4 libmount1_2.38.1-4 libmpc3_1.2.1-2 libmpfr6_4.1.0-3 libncursesw6_6.3+20220423-2 libnettle8_3.8.1-2 libnpth0_1.6-3 libnsl-dev_1.3.0-2 libnsl2_1.3.0-2 libp11-kit0_0.24.1-1 libpam-cap_1:2.44-1 libpam-modules_1.5.2-5 libpam-modules-bin_1.5.2-5 libpam-runtime_1.5.2-5 libpam0g_1.5.2-5 libpcre2-8-0_10.40-1+b2 libpcre3_2:8.39-14 libperl5.32_5.32.1-6 libperl5.34_5.34.0-5 libperl5.36_5.36.0-4 libpipeline1_1.5.7-1 libreadline8_8.2-1 libsasl2-2_2.1.28+dfsg-8 libsasl2-modules-db_2.1.28+dfsg-8 libseccomp2_2.5.4-1+rpi1 libselinux1_3.4-1 libsemanage-common_3.4-1 libsemanage2_3.4-1 libsepol1_3.1-1 libsepol2_3.4-2 libsmartcols1_2.38.1-4 libsqlite3-0_3.39.4-1 libss2_1.46.6~rc1-1 libssl1.1_1.1.1o-1 libssl3_3.0.5-4 libstdc++-12-dev_12.2.0-3+rpi1 libstdc++6_12.2.0-3+rpi1 libsub-override-perl_0.09-4 libsystemd0_251.5-1+rpi1 libtasn1-6_4.19.0-2 libtinfo6_6.3+20220423-2 libtirpc-common_1.3.3+ds-1 libtirpc-dev_1.3.3+ds-1 libtirpc3_1.3.3+ds-1 libtool_2.4.7-5 libubsan1_12.2.0-3+rpi1 libuchardet0_0.0.7-1 libudev1_251.5-1+rpi1 libunistring2_1.0-2 libuuid1_2.38.1-4 libxml2_2.9.14+dfsg-1.1 libxxhash0_0.8.1-1 libzstd1_1.5.2+dfsg-1 linux-libc-dev_5.19.6-1+rpi1 login_1:4.12.3+dfsg1-1 logsave_1.46.6~rc1-1 lsb-base_11.4+rpi1 m4_1.4.19-1 make_4.3-4.1 man-db_2.11.1-1 mawk_1.3.4.20200120-3.1 mount_2.38.1-4 nano_6.4-1 ncurses-base_6.3+20220423-2 ncurses-bin_6.3+20220423-2 passwd_1:4.12.3+dfsg1-1 patch_2.7.6-7 perl_5.36.0-4 perl-base_5.36.0-4 perl-modules-5.32_5.32.1-6 perl-modules-5.34_5.34.0-5 perl-modules-5.36_5.36.0-4 pinentry-curses_1.2.0-2 po-debconf_1.0.21+nmu1 raspbian-archive-keyring_20120528.2 readline-common_8.2-1 rpcsvc-proto_1.4.2-4 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.8-1 sensible-utils_0.0.17 sgml-base_1.31 sysvinit-utils_3.05-6 tar_1.34+dfsg-1 tzdata_2022d-1 util-linux_2.38.1-4 util-linux-extra_2.38.1-4 xz-utils_5.2.5-2.1 zlib1g_1:1.2.11.dfsg-4.1
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA512
Format: 3.0 (quilt)
Source: plasmidseeker
Binary: plasmidseeker
Architecture: any
Version: 1.3+dfsg-3
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Andreas Tille <tille@debian.org>
Homepage: https://github.com/bioinfo-ut/PlasmidSeeker
Standards-Version: 4.6.1
Vcs-Browser: https://salsa.debian.org/med-team/plasmidseeker
Vcs-Git: https://salsa.debian.org/med-team/plasmidseeker.git
Build-Depends: debhelper-compat (= 13)
Package-List:
plasmidseeker deb science optional arch=any
Checksums-Sha1:
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a8ce7f4d9defebce54a0bcac0e1ec42e1a5408b6 4972 plasmidseeker_1.3+dfsg-3.debian.tar.xz
Checksums-Sha256:
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Files:
d432bb50431c4d04691b6742fc9a17bc 24036 plasmidseeker_1.3+dfsg.orig.tar.xz
6eb0b13d22359c7d61170dce8fc8ac1e 4972 plasmidseeker_1.3+dfsg-3.debian.tar.xz
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gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/tmp/dpkg-verify-sig.B6L02n1f/trustedkeys.kbx': General error
gpgv: Signature made Tue Dec 6 13:00:11 2022 UTC
gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv: issuer "tille@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: cannot verify signature ./plasmidseeker_1.3+dfsg-3.dsc
dpkg-source: info: extracting plasmidseeker in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking plasmidseeker_1.3+dfsg.orig.tar.xz
dpkg-source: info: unpacking plasmidseeker_1.3+dfsg-3.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying use_debian_packaged_genometester.patch
dpkg-source: info: applying fix_installation.patch
Check disk space
----------------
Sufficient free space for build
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
DBUS_SESSION_BUS_ADDRESS=unix:path=/run/user/112/bus
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
INVOCATION_ID=f89ee6850c51463faed427366eb0b008
JOURNAL_STREAM=8:31299
LANG=en_GB.UTF-8
LC_ALL=C.UTF-8
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
PWD=/
SCHROOT_ALIAS_NAME=bookworm-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=bookworm-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=117
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=bookworm-staging-armhf-sbuild-2b1d7f9d-daac-45c7-9bca-c8727d353429
SCHROOT_UID=112
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd
XDG_RUNTIME_DIR=/run/user/112
XDG_SESSION_CLASS=background
XDG_SESSION_ID=c60165
XDG_SESSION_TYPE=unspecified
dpkg-buildpackage
-----------------
Command: dpkg-buildpackage -us -uc -mRaspbian pi4 based autobuilder <root@raspbian.org> -B -rfakeroot
dpkg-buildpackage: info: source package plasmidseeker
dpkg-buildpackage: info: source version 1.3+dfsg-3
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
debian/rules clean
dh clean
dh_clean
debian/rules binary-arch
dh binary-arch
dh_update_autotools_config -a
dh_autoreconf -a
create-stamp debian/debhelper-build-stamp
dh_prep -a
dh_auto_install --destdir=debian/plasmidseeker/ -a
dh_install -a
dh_installdocs -a
dh_installchangelogs -a
debian/rules override_dh_installexamples
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_installexamples
for pl in `grep -Rl '#![[:space:]]*bin/bash' debian/*/usr/*` ; do \
sed -i '1s?^#![[:space:]]*bin/bash?#!/bin/bash?' ${pl} ; \
done
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_installman -a
dh_perl -a
dh_link -a
dh_strip_nondeterminism -a
dh_compress -a
debian/rules override_dh_fixperms
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_fixperms
chmod +x debian/*/usr/share/plasmidseeker/plasmidseeker.pl
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_missing -a
dh_dwz -a
dh_strip -a
dh_makeshlibs -a
dh_shlibdeps -a
dh_installdeb -a
dh_gencontrol -a
dpkg-gencontrol: warning: Depends field of package plasmidseeker: substitution variable ${shlibs:Depends} used, but is not defined
dpkg-gencontrol: warning: package plasmidseeker: substitution variable ${perl:Depends} unused, but is defined
dh_md5sums -a
dh_builddeb -a
dpkg-deb: building package 'plasmidseeker' in '../plasmidseeker_1.3+dfsg-3_armhf.deb'.
dpkg-genbuildinfo --build=any -O../plasmidseeker_1.3+dfsg-3_armhf.buildinfo
dpkg-genchanges --build=any -mRaspbian pi4 based autobuilder <root@raspbian.org> -O../plasmidseeker_1.3+dfsg-3_armhf.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 2022-12-11T15:00:09Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
plasmidseeker_1.3+dfsg-3_armhf.changes:
---------------------------------------
Format: 1.8
Date: Tue, 06 Dec 2022 13:58:16 +0100
Source: plasmidseeker
Binary: plasmidseeker
Architecture: armhf
Version: 1.3+dfsg-3
Distribution: bookworm-staging
Urgency: medium
Maintainer: Raspbian pi4 based autobuilder <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
plasmidseeker - identification of known plasmids from whole-genome sequencing rea
Changes:
plasmidseeker (1.3+dfsg-3) unstable; urgency=medium
.
* Fix watch file
* Standards-Version: 4.6.1 (routine-update)
Checksums-Sha1:
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Checksums-Sha256:
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Files:
63a07d8d9af706a40c6e09695e570ad9 4666 science optional plasmidseeker_1.3+dfsg-3_armhf.buildinfo
5cbee4c88dd9f2a055d8361050565db0 27196 science optional plasmidseeker_1.3+dfsg-3_armhf.deb
+------------------------------------------------------------------------------+
| Buildinfo |
+------------------------------------------------------------------------------+
Format: 1.0
Source: plasmidseeker
Binary: plasmidseeker
Architecture: armhf
Version: 1.3+dfsg-3
Checksums-Md5:
5cbee4c88dd9f2a055d8361050565db0 27196 plasmidseeker_1.3+dfsg-3_armhf.deb
Checksums-Sha1:
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Checksums-Sha256:
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Build-Origin: Raspbian
Build-Architecture: armhf
Build-Date: Sun, 11 Dec 2022 15:00:08 +0000
Build-Path: /<<PKGBUILDDIR>>
Installed-Build-Depends:
autoconf (= 2.71-2),
automake (= 1:1.16.5-1.3),
autopoint (= 0.21-10),
autotools-dev (= 20220109.1),
base-files (= 12.3+rpi1),
base-passwd (= 3.6.1),
bash (= 5.2~rc2-2),
binutils (= 2.39-6+rpi1),
binutils-arm-linux-gnueabihf (= 2.39-6+rpi1),
binutils-common (= 2.39-6+rpi1),
bsdextrautils (= 2.38.1-4),
bsdutils (= 1:2.38.1-4),
build-essential (= 12.9),
bzip2 (= 1.0.8-5+b2),
coreutils (= 9.1-1),
cpp (= 4:12.2.0-1+rpi1),
cpp-12 (= 12.2.0-3+rpi1),
dash (= 0.5.11+git20210903+057cd650a4ed-9),
debconf (= 1.5.79),
debhelper (= 13.11.1),
debianutils (= 5.7-0.3),
dh-autoreconf (= 20),
dh-strip-nondeterminism (= 1.13.0-2),
diffutils (= 1:3.8-1),
dpkg (= 1.21.9+rpi1),
dpkg-dev (= 1.21.9+rpi1),
dwz (= 0.14+20220924-2),
file (= 1:5.41-4),
findutils (= 4.9.0-3),
g++ (= 4:12.2.0-1+rpi1),
g++-12 (= 12.2.0-3+rpi1),
gcc (= 4:12.2.0-1+rpi1),
gcc-12 (= 12.2.0-3+rpi1),
gcc-12-base (= 12.2.0-3+rpi1),
gettext (= 0.21-10),
gettext-base (= 0.21-10),
grep (= 3.7-1),
groff-base (= 1.22.4-9),
gzip (= 1.12-1),
hostname (= 3.23),
init-system-helpers (= 1.64),
intltool-debian (= 0.35.0+20060710.6),
libacl1 (= 2.3.1-1),
libarchive-zip-perl (= 1.68-1),
libasan8 (= 12.2.0-3+rpi1),
libatomic1 (= 12.2.0-3+rpi1),
libattr1 (= 1:2.5.1-1),
libaudit-common (= 1:3.0.7-1.1),
libaudit1 (= 1:3.0.7-1.1),
libbinutils (= 2.39-6+rpi1),
libblkid1 (= 2.38.1-4),
libbz2-1.0 (= 1.0.8-5+b2),
libc-bin (= 2.35-2+rpi1),
libc-dev-bin (= 2.35-2+rpi1),
libc6 (= 2.35-2+rpi1),
libc6-dev (= 2.35-2+rpi1),
libcap-ng0 (= 0.8.3-1),
libcap2 (= 1:2.44-1),
libcc1-0 (= 12.2.0-3+rpi1),
libcom-err2 (= 1.46.6~rc1-1),
libcrypt-dev (= 1:4.4.28-2),
libcrypt1 (= 1:4.4.28-2),
libctf-nobfd0 (= 2.39-6+rpi1),
libctf0 (= 2.39-6+rpi1),
libdb5.3 (= 5.3.28+dfsg1-0.10),
libdebconfclient0 (= 0.264),
libdebhelper-perl (= 13.11.1),
libdpkg-perl (= 1.21.9+rpi1),
libelf1 (= 0.187-2+rpi2),
libfile-stripnondeterminism-perl (= 1.13.0-2),
libgcc-12-dev (= 12.2.0-3+rpi1),
libgcc-s1 (= 12.2.0-3+rpi1),
libgcrypt20 (= 1.10.1-2+b2),
libgdbm-compat4 (= 1.23-3),
libgdbm6 (= 1.23-3),
libgmp10 (= 2:6.2.1+dfsg1-1.1),
libgomp1 (= 12.2.0-3+rpi1),
libgpg-error0 (= 1.45-2),
libgssapi-krb5-2 (= 1.20-1),
libicu72 (= 72.1-3),
libisl23 (= 0.25-1),
libk5crypto3 (= 1.20-1),
libkeyutils1 (= 1.6.3-1),
libkrb5-3 (= 1.20-1),
libkrb5support0 (= 1.20-1),
liblz4-1 (= 1.9.4-1+rpi1),
liblzma5 (= 5.2.5-2.1),
libmagic-mgc (= 1:5.41-4),
libmagic1 (= 1:5.41-4),
libmount1 (= 2.38.1-4),
libmpc3 (= 1.2.1-2),
libmpfr6 (= 4.1.0-3),
libnsl-dev (= 1.3.0-2),
libnsl2 (= 1.3.0-2),
libpam-modules (= 1.5.2-5),
libpam-modules-bin (= 1.5.2-5),
libpam-runtime (= 1.5.2-5),
libpam0g (= 1.5.2-5),
libpcre2-8-0 (= 10.40-1+b2),
libpcre3 (= 2:8.39-14),
libperl5.36 (= 5.36.0-4),
libpipeline1 (= 1.5.7-1),
libseccomp2 (= 2.5.4-1+rpi1),
libselinux1 (= 3.4-1),
libsmartcols1 (= 2.38.1-4),
libssl3 (= 3.0.5-4),
libstdc++-12-dev (= 12.2.0-3+rpi1),
libstdc++6 (= 12.2.0-3+rpi1),
libsub-override-perl (= 0.09-4),
libsystemd0 (= 251.5-1+rpi1),
libtinfo6 (= 6.3+20220423-2),
libtirpc-common (= 1.3.3+ds-1),
libtirpc-dev (= 1.3.3+ds-1),
libtirpc3 (= 1.3.3+ds-1),
libtool (= 2.4.7-5),
libubsan1 (= 12.2.0-3+rpi1),
libuchardet0 (= 0.0.7-1),
libudev1 (= 251.5-1+rpi1),
libunistring2 (= 1.0-2),
libuuid1 (= 2.38.1-4),
libxml2 (= 2.9.14+dfsg-1.1),
libzstd1 (= 1.5.2+dfsg-1),
linux-libc-dev (= 5.19.6-1+rpi1),
login (= 1:4.12.3+dfsg1-1),
m4 (= 1.4.19-1),
make (= 4.3-4.1),
man-db (= 2.11.1-1),
mawk (= 1.3.4.20200120-3.1),
ncurses-base (= 6.3+20220423-2),
ncurses-bin (= 6.3+20220423-2),
patch (= 2.7.6-7),
perl (= 5.36.0-4),
perl-base (= 5.36.0-4),
perl-modules-5.36 (= 5.36.0-4),
po-debconf (= 1.0.21+nmu1),
rpcsvc-proto (= 1.4.2-4),
sed (= 4.8-1),
sensible-utils (= 0.0.17),
sysvinit-utils (= 3.05-6),
tar (= 1.34+dfsg-1),
util-linux (= 2.38.1-4),
util-linux-extra (= 2.38.1-4),
xz-utils (= 5.2.5-2.1),
zlib1g (= 1:1.2.11.dfsg-4.1)
Environment:
DEB_BUILD_OPTIONS="parallel=4"
LANG="en_GB.UTF-8"
LC_ALL="C.UTF-8"
SOURCE_DATE_EPOCH="1670331496"
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
plasmidseeker_1.3+dfsg-3_armhf.deb
----------------------------------
new Debian package, version 2.0.
size 27196 bytes: control archive=1172 bytes.
894 bytes, 20 lines control
938 bytes, 12 lines md5sums
Package: plasmidseeker
Version: 1.3+dfsg-3
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 94
Depends: genometester
Section: science
Priority: optional
Multi-Arch: same
Homepage: https://github.com/bioinfo-ut/PlasmidSeeker
Description: identification of known plasmids from whole-genome sequencing reads
PlasmidSeeker is a k-mer based program for the identification of known
plasmids from bacterial whole genome sequencing reads.
.
PlasmidSeeker that enables the detection of plasmids from bacterial WGS
data without read assembly. The PlasmidSeeker algorithm is based on
k-mers and uses k-mer abundance to distinguish between plasmid and
bacterial sequences. The performance of PlasmidSeeker was tested on a set
of simulated and real bacterial WGS samples, resulting in 100%
sensitivity and 99.98% specificity.
drwxr-xr-x root/root 0 2022-12-06 12:58 ./
drwxr-xr-x root/root 0 2022-12-06 12:58 ./usr/
drwxr-xr-x root/root 0 2022-12-06 12:58 ./usr/bin/
lrwxrwxrwx root/root 0 2022-12-06 12:58 ./usr/bin/plasmidseeker -> ../share/plasmidseeker/plasmidseeker.pl
drwxr-xr-x root/root 0 2022-12-06 12:58 ./usr/share/
drwxr-xr-x root/root 0 2022-12-06 12:58 ./usr/share/doc/
drwxr-xr-x root/root 0 2022-12-06 12:58 ./usr/share/doc/plasmidseeker/
-rw-r--r-- root/root 1994 2020-07-17 05:47 ./usr/share/doc/plasmidseeker/README.md.gz
-rw-r--r-- root/root 505 2022-12-06 12:58 ./usr/share/doc/plasmidseeker/changelog.Debian.gz
-rw-r--r-- root/root 1841 2022-12-06 12:58 ./usr/share/doc/plasmidseeker/copyright
drwxr-xr-x root/root 0 2022-12-06 12:58 ./usr/share/doc/plasmidseeker/examples/
-rw-r--r-- root/root 1268 2022-12-06 12:58 ./usr/share/doc/plasmidseeker/examples/plasmidseeker_ecoli_test.sh
drwxr-xr-x root/root 0 2022-12-06 12:58 ./usr/share/man/
drwxr-xr-x root/root 0 2022-12-06 12:58 ./usr/share/man/man1/
-rw-r--r-- root/root 653 2022-12-06 12:58 ./usr/share/man/man1/plasmidseeker.1.gz
drwxr-xr-x root/root 0 2022-12-06 12:58 ./usr/share/plasmidseeker/
-rw-r--r-- root/root 6919 2020-07-17 05:47 ./usr/share/plasmidseeker/E_coli_wgs.txt
-rw-r--r-- root/root 249 2020-07-17 05:47 ./usr/share/plasmidseeker/P_aeruginosa_plasmid.txt
-rw-r--r-- root/root 3413 2020-07-17 05:47 ./usr/share/plasmidseeker/database_builder.pl
-rw-r--r-- root/root 26281 2020-07-17 05:47 ./usr/share/plasmidseeker/errormodel-80bp.mconf
-rw-r--r-- root/root 839 2020-07-17 05:47 ./usr/share/plasmidseeker/make_mutations.pl
-rwxr-xr-x root/root 18840 2022-12-06 12:58 ./usr/share/plasmidseeker/plasmidseeker.pl
-rw-r--r-- root/root 16067 2020-07-17 05:47 ./usr/share/plasmidseeker/testfunction.R
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build Type: any
Build-Space: 424
Build-Time: 11
Distribution: bookworm-staging
Host Architecture: armhf
Install-Time: 315
Job: plasmidseeker_1.3+dfsg-3
Machine Architecture: armhf
Package: plasmidseeker
Package-Time: 381
Source-Version: 1.3+dfsg-3
Space: 424
Status: successful
Version: 1.3+dfsg-3
--------------------------------------------------------------------------------
Finished at 2022-12-11T15:00:09Z
Build needed 00:06:21, 424k disk space