gffread →
0.12.7-4 →
armhf → 2023-09-16 18:53:41
sbuild (Debian sbuild) 0.78.1 (09 February 2019) on test2019
+==============================================================================+
| gffread 0.12.7-4 (armhf) Sat, 16 Sep 2023 18:47:55 +0000 |
+==============================================================================+
Package: gffread
Version: 0.12.7-4
Source Version: 0.12.7-4
Distribution: trixie-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
Build Type: any
I: NOTICE: Log filtering will replace 'var/run/schroot/mount/trixie-staging-armhf-sbuild-96652e4c-405e-42b9-9245-be9b926bcce4' with '<<CHROOT>>'
I: NOTICE: Log filtering will replace 'build/gffread-4TE7U0/resolver-tZzdVl' with '<<RESOLVERDIR>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.4.1/private trixie-staging InRelease [11.3 kB]
Get:2 http://172.17.4.1/private trixie-staging/main Sources [14.1 MB]
Get:3 http://172.17.4.1/private trixie-staging/main armhf Packages [14.6 MB]
Fetched 28.7 MB in 15s (1897 kB/s)
Reading package lists...
W: http://172.17.4.1/private/dists/trixie-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: 'gffread' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/gffread.git
Please use:
git clone https://salsa.debian.org/med-team/gffread.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 415 kB of source archives.
Get:1 http://172.17.4.1/private trixie-staging/main gffread 0.12.7-4 (dsc) [2440 B]
Get:2 http://172.17.4.1/private trixie-staging/main gffread 0.12.7-4 (tar) [404 kB]
Get:3 http://172.17.4.1/private trixie-staging/main gffread 0.12.7-4 (diff) [8828 B]
Fetched 415 kB in 0s (2903 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/gffread-4TE7U0/gffread-0.12.7' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/gffread-4TE7U0' with '<<BUILDDIR>>'
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 13), libgclib-dev, build-essential, fakeroot
Filtered Build-Depends: debhelper-compat (= 13), libgclib-dev, 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 [379 B]
Get:5 copy:/<<RESOLVERDIR>>/apt_archive ./ Packages [459 B]
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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
Use 'apt autoremove' to remove them.
The following additional 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 libgclib-dev libgclib3 libicu72
libmagic-mgc libmagic1 libpipeline1 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 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 file gettext gettext-base
groff-base intltool-debian libarchive-zip-perl libdebhelper-perl libelf1
libfile-stripnondeterminism-perl libgclib-dev libgclib3 libicu72
libmagic-mgc libmagic1 libpipeline1 libsub-override-perl libtool
libuchardet0 libxml2 m4 man-db po-debconf sbuild-build-depends-main-dummy
0 upgraded, 32 newly installed, 0 to remove and 22 not upgraded.
Need to get 18.3 MB of archives.
After this operation, 71.2 MB of additional disk space will be used.
Get:1 copy:/<<RESOLVERDIR>>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [884 B]
Get:2 http://172.17.4.1/private trixie-staging/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB]
Get:3 http://172.17.4.1/private trixie-staging/main armhf groff-base armhf 1.22.4-10 [774 kB]
Get:4 http://172.17.4.1/private trixie-staging/main armhf bsdextrautils armhf 2.38.1-5 [78.5 kB]
Get:5 http://172.17.4.1/private trixie-staging/main armhf libpipeline1 armhf 1.5.7-1 [33.4 kB]
Get:6 http://172.17.4.1/private trixie-staging/main armhf man-db armhf 2.11.2-2 [1342 kB]
Get:7 http://172.17.4.1/private trixie-staging/main armhf libmagic-mgc armhf 1:5.44-3 [305 kB]
Get:8 http://172.17.4.1/private trixie-staging/main armhf libmagic1 armhf 1:5.44-3 [95.3 kB]
Get:9 http://172.17.4.1/private trixie-staging/main armhf file armhf 1:5.44-3 [41.5 kB]
Get:10 http://172.17.4.1/private trixie-staging/main armhf gettext-base armhf 0.21-12 [156 kB]
Get:11 http://172.17.4.1/private trixie-staging/main armhf m4 armhf 1.4.19-3 [256 kB]
Get:12 http://172.17.4.1/private trixie-staging/main armhf autoconf all 2.71-3 [332 kB]
Get:13 http://172.17.4.1/private trixie-staging/main armhf autotools-dev all 20220109.1 [51.6 kB]
Get:14 http://172.17.4.1/private trixie-staging/main armhf automake all 1:1.16.5-1.3 [823 kB]
Get:15 http://172.17.4.1/private trixie-staging/main armhf autopoint all 0.21-13 [496 kB]
Get:16 http://172.17.4.1/private trixie-staging/main armhf libdebhelper-perl all 13.11.6 [81.9 kB]
Get:17 http://172.17.4.1/private trixie-staging/main armhf libtool all 2.4.7-7 [517 kB]
Get:18 http://172.17.4.1/private trixie-staging/main armhf dh-autoreconf all 20 [17.1 kB]
Get:19 http://172.17.4.1/private trixie-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:20 http://172.17.4.1/private trixie-staging/main armhf libsub-override-perl all 0.09-4 [9304 B]
Get:21 http://172.17.4.1/private trixie-staging/main armhf libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB]
Get:22 http://172.17.4.1/private trixie-staging/main armhf dh-strip-nondeterminism all 1.13.1-1 [8620 B]
Get:23 http://172.17.4.1/private trixie-staging/main armhf libelf1 armhf 0.188-2.1+rpi1 [171 kB]
Get:24 http://172.17.4.1/private trixie-staging/main armhf dwz armhf 0.15-1 [92.4 kB]
Get:25 http://172.17.4.1/private trixie-staging/main armhf libicu72 armhf 72.1-3 [9009 kB]
Get:26 http://172.17.4.1/private trixie-staging/main armhf libxml2 armhf 2.9.14+dfsg-1.3 [571 kB]
Get:27 http://172.17.4.1/private trixie-staging/main armhf gettext armhf 0.21-12 [1201 kB]
Get:28 http://172.17.4.1/private trixie-staging/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get:29 http://172.17.4.1/private trixie-staging/main armhf po-debconf all 1.0.21+nmu1 [248 kB]
Get:30 http://172.17.4.1/private trixie-staging/main armhf debhelper all 13.11.6 [952 kB]
Get:31 http://172.17.4.1/private trixie-staging/main armhf libgclib3 armhf 0.12.7+ds-5 [122 kB]
Get:32 http://172.17.4.1/private trixie-staging/main armhf libgclib-dev armhf 0.12.7+ds-5 [264 kB]
debconf: delaying package configuration, since apt-utils is not installed
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Setting up libpipeline1:armhf (1.5.7-1) ...
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Setting up bsdextrautils (2.38.1-5) ...
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Setting up libmagic1:armhf (1:5.44-3) ...
Setting up gettext-base (0.21-12) ...
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Setting up autotools-dev (20220109.1) ...
Setting up autopoint (0.21-13) ...
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Setting up libelf1:armhf (0.188-2.1+rpi1) ...
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Setting up libgclib3:armhf (0.12.7+ds-5) ...
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 (1.13.1-1) ...
Setting up gettext (0.21-12) ...
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Setting up intltool-debian (0.35.0+20060710.6) ...
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Setting up dwz (0.15-1) ...
Setting up groff-base (1.22.4-10) ...
Setting up po-debconf (1.0.21+nmu1) ...
Setting up man-db (2.11.2-2) ...
Not building database; man-db/auto-update is not 'true'.
Setting up debhelper (13.11.6) ...
Setting up sbuild-build-depends-main-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.36-9+rpi1+deb12u1) ...
+------------------------------------------------------------------------------+
| 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_2.40-2+rpi2 dpkg-dev_1.21.22+rpi1 g++-12_12.2.0-14+rpi1 gcc-12_12.2.0-14+rpi1 libc6-dev_2.36-9+rpi1+deb12u1 libstdc++-12-dev_12.2.0-14+rpi1 libstdc++6_12.2.0-14+rpi1 linux-libc-dev_6.1.38-1+rpi1
Package versions: adduser_3.137 apt_2.6.1 autoconf_2.71-3 automake_1:1.16.5-1.3 autopoint_0.21-13 autotools-dev_20220109.1 base-files_12.4+rpi1+deb12u1 base-passwd_3.6.1 bash_5.2.15-2 binutils_2.40-2+rpi2 binutils-arm-linux-gnueabihf_2.40-2+rpi2 binutils-common_2.40-2+rpi2 bsdextrautils_2.38.1-5 bsdutils_1:2.38.1-5 build-essential_12.9 bzip2_1.0.8-5+b2 coreutils_9.1-1 cpp_4:12.2.0-3+rpi1 cpp-12_12.2.0-14+rpi1 dash_0.5.12-2 debconf_1.5.82 debhelper_13.11.6 debianutils_5.7-0.4 dh-autoreconf_20 dh-strip-nondeterminism_1.13.1-1 diffutils_1:3.8-4 dirmngr_2.2.40-1.1 dpkg_1.21.22+rpi1 dpkg-dev_1.21.22+rpi1 dwz_0.15-1 e2fsprogs_1.47.0-2 fakeroot_1.31-1.2 file_1:5.44-3 findutils_4.9.0-4 g++_4:12.2.0-3+rpi1 g++-12_12.2.0-14+rpi1 gcc_4:12.2.0-3+rpi1 gcc-12_12.2.0-14+rpi1 gcc-12-base_12.2.0-14+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_0.21-12 gettext-base_0.21-12 gnupg_2.2.40-1.1 gnupg-l10n_2.2.40-1.1 gnupg-utils_2.2.40-1.1 gpg_2.2.40-1.1 gpg-agent_2.2.40-1.1 gpg-wks-client_2.2.40-1.1 gpg-wks-server_2.2.40-1.1 gpgconf_2.2.40-1.1 gpgsm_2.2.40-1.1 gpgv_2.2.40-1.1 grep_3.8-5 groff-base_1.22.4-10 gzip_1.12-1 hostname_3.23+nmu1 init-system-helpers_1.65.2 intltool-debian_0.35.0+20060710.6 iputils-ping_3:20221126-1 krb5-locales_1.20.1-3 libacl1_2.3.1-3 libapt-pkg6.0_2.6.1 libarchive-zip-perl_1.68-1 libasan8_12.2.0-14+rpi1 libassuan0_2.5.5-5 libatomic1_12.2.0-14+rpi1 libattr1_1:2.5.1-4 libaudit-common_1:3.1.1-1 libaudit1_1:3.0.9-1 libbinutils_2.40-2+rpi2 libblkid1_2.38.1-5 libbz2-1.0_1.0.8-5+b2 libc-bin_2.36-9+rpi1+deb12u1 libc-dev-bin_2.36-9+rpi1+deb12u1 libc6_2.36-9+rpi1+deb12u1 libc6-dev_2.36-9+rpi1+deb12u1 libcap-ng0_0.8.3-1+b1 libcap2_1:2.66-4 libcap2-bin_1:2.66-4 libcc1-0_12.2.0-14+rpi1 libcom-err2_1.47.0-2 libcrypt-dev_1:4.4.33-2 libcrypt1_1:4.4.33-2 libctf-nobfd0_2.40-2+rpi2 libctf0_2.40-2+rpi2 libdb5.3_5.3.28+dfsg2-1 libdebconfclient0_0.270 libdebhelper-perl_13.11.6 libdpkg-perl_1.21.22+rpi1 libelf1_0.188-2.1+rpi1 libext2fs2_1.47.0-2 libfakeroot_1.31-1.2 libffi8_3.4.4-1 libfile-find-rule-perl_0.34-3 libfile-stripnondeterminism-perl_1.13.1-1 libgcc-12-dev_12.2.0-14+rpi1 libgcc-s1_12.2.0-14+rpi1 libgclib-dev_0.12.7+ds-5 libgclib3_0.12.7+ds-5 libgcrypt20_1.10.1-3 libgdbm-compat4_1.23-3 libgdbm6_1.23-3 libgmp10_2:6.2.1+dfsg1-1.1 libgnutls30_3.7.9-2 libgomp1_12.2.0-14+rpi1 libgpg-error0_1.46-1 libgssapi-krb5-2_1.20.1-2 libhogweed6_3.8.1-2 libicu72_72.1-3 libidn2-0_2.3.3-1+b2 libisl23_0.25-1 libjansson4_2.14-2 libk5crypto3_1.20.1-2 libkeyutils1_1.6.3-2 libkrb5-3_1.20.1-2 libkrb5support0_1.20.1-2 libksba8_1.6.3-2 libldap-2.5-0_2.5.13+dfsg-5+rpi1 liblz4-1_1.9.4-1+rpi1+b1 liblzma5_5.4.1-0.2 libmagic-mgc_1:5.44-3 libmagic1_1:5.44-3 libmd0_1.0.4-2 libmount1_2.38.1-5 libmpc3_1.3.1-1 libmpfr6_4.2.0-1 libncursesw6_6.4-4 libnettle8_3.8.1-2 libnpth0_1.6-3 libnsl-dev_1.3.0-2 libnsl2_1.3.0-2 libnumber-compare-perl_0.03-3 libp11-kit0_0.24.1-2 libpam-cap_1:2.66-4 libpam-modules_1.5.2-6 libpam-modules-bin_1.5.2-6 libpam-runtime_1.5.2-7 libpam0g_1.5.2-6 libpcre2-8-0_10.42-1 libpcre3_2:8.39-15 libperl5.32_5.32.1-6 libperl5.36_5.36.0-7 libpipeline1_1.5.7-1 libreadline8_8.2-1.3 libsasl2-2_2.1.28+dfsg-10 libsasl2-modules-db_2.1.28+dfsg-10 libseccomp2_2.5.4-1+rpi1+b1 libselinux1_3.4-1+b2 libsemanage-common_3.5-1 libsemanage2_3.4-1+b2 libsepol1_3.1-1 libsepol2_3.4-2.1 libsmartcols1_2.38.1-5 libsqlite3-0_3.40.1-2 libss2_1.47.0-2 libssl1.1_1.1.1o-1 libssl3_3.0.9-1 libstdc++-12-dev_12.2.0-14+rpi1 libstdc++6_12.2.0-14+rpi1 libsub-override-perl_0.09-4 libsystemd0_252.12-1~deb12u1+rpi1 libtasn1-6_4.19.0-2 libtext-glob-perl_0.11-3 libtinfo6_6.4-4 libtirpc-common_1.3.3+ds-1 libtirpc-dev_1.3.3+ds-1 libtirpc3_1.3.3+ds-1 libtool_2.4.7-7 libubsan1_12.2.0-14+rpi1 libuchardet0_0.0.7-1 libudev1_252.12-1~deb12u1+rpi1 libunistring2_1.0-2 libuuid1_2.38.1-5 libxml2_2.9.14+dfsg-1.3 libxxhash0_0.8.1-1 libzstd1_1.5.4+dfsg2-5 linux-libc-dev_6.1.38-1+rpi1 login_1:4.13+dfsg1-1 logsave_1.47.0-2 lsb-base_11.6+rpi1 m4_1.4.19-3 make_4.3-4.1 man-db_2.11.2-2 mawk_1.3.4.20200120-3.1 mount_2.38.1-5 nano_7.2-1 ncurses-base_6.4+20230625-2 ncurses-bin_6.4-4 passwd_1:4.13+dfsg1-1 patch_2.7.6-7 perl_5.36.0-7 perl-base_5.36.0-7 perl-modules-5.32_5.32.1-6 perl-modules-5.36_5.36.0-7 pinentry-curses_1.2.1-1 po-debconf_1.0.21+nmu1 raspbian-archive-keyring_20120528.2 readline-common_8.2-1.3 rpcsvc-proto_1.4.3-1 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-1 sensible-utils_0.0.20 sysvinit-utils_3.06-4 tar_1.34+dfsg-1.2 tzdata_2023c-10 usrmerge_37 util-linux_2.38.1-5 util-linux-extra_2.38.1-5 xz-utils_5.4.1-0.2 zlib1g_1:1.2.13.dfsg-1
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA512
Format: 3.0 (quilt)
Source: gffread
Binary: gffread
Architecture: any
Version: 0.12.7-4
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Andreas Tille <tille@debian.org>, Michael R. Crusoe <crusoe@debian.org>, Steffen Moeller <moeller@debian.org>
Homepage: https://ccb.jhu.edu/software/stringtie/gff.shtml
Standards-Version: 4.6.2
Vcs-Browser: https://salsa.debian.org/med-team/gffread
Vcs-Git: https://salsa.debian.org/med-team/gffread.git
Testsuite: autopkgtest
Testsuite-Triggers: augustus-doc, bash, bedtools-test, cnvkit, dpkg-dev, emboss-data, emboss-test, gbrowse, genometools-common, gff2aplot, gff2ps, htslib-test, libbio-graphics-perl, optimir, proteinortho, python3-gffutils, python3-pybedtools, seqan-apps, spades
Build-Depends: debhelper-compat (= 13), libgclib-dev
Package-List:
gffread deb science optional arch=any
Checksums-Sha1:
2d8d3e6e0e2fba6d9c4df6d194280f46b31072d1 403734 gffread_0.12.7.orig.tar.gz
9e913617549c92c3c7b83936d72b22740cbeef93 8828 gffread_0.12.7-4.debian.tar.xz
Checksums-Sha256:
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Files:
e7b6121f75bf707b487af8850fe3d47c 403734 gffread_0.12.7.orig.tar.gz
c306b7afcf06a54da9b8123fc161c8c8 8828 gffread_0.12.7-4.debian.tar.xz
Dgit: 6e433f38cd198c0f7600bd479a519696c3d69032 debian archive/debian/0.12.7-4 https://git.dgit.debian.org/gffread
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gpgv: Signature made Tue Jun 20 19:16:45 2023 UTC
gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA
gpgv: issuer "emollier@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: cannot verify inline signature for ./gffread_0.12.7-4.dsc: no acceptable signature found
dpkg-source: info: extracting gffread in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking gffread_0.12.7.orig.tar.gz
dpkg-source: info: unpacking gffread_0.12.7-4.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying gclib.patch
dpkg-source: info: applying hardening
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=f1111fec89324340bbb37056f1e8c7a1
JOURNAL_STREAM=8:12136182
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=trixie-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=trixie-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=117
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=trixie-staging-armhf-sbuild-96652e4c-405e-42b9-9245-be9b926bcce4
SCHROOT_UID=112
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd
XDG_RUNTIME_DIR=/run/user/112
XDG_SESSION_CLASS=background
XDG_SESSION_ID=c40527
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 gffread
dpkg-buildpackage: info: source version 0.12.7-4
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
debian/rules clean
dh clean
dh_auto_clean
make -j4 clean
make[1]: Entering directory '/<<PKGBUILDDIR>>'
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_clean
debian/rules binary-arch
dh binary-arch
dh_update_autotools_config -a
dh_autoreconf -a
dh_auto_configure -a
debian/rules override_dh_auto_build
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_auto_build -- 'LINKER=$(CXX)'
make -j4 "INSTALL=install --strip-program=true" LINKER=\$\(CXX\)
make[2]: Entering directory '/<<PKGBUILDDIR>>'
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -std=c++11 -I. -I/usr/include/gclib -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_REENTRANT -fno-strict-aliasing -fno-exceptions -fno-rtti -Wno-class-memaccess -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -g -O0 -DDEBUG -D_DEBUG -DGDEBUG -c gffread.cpp -o gffread.o
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -std=c++11 -I. -I/usr/include/gclib -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_REENTRANT -fno-strict-aliasing -fno-exceptions -fno-rtti -Wno-class-memaccess -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -g -O0 -DDEBUG -D_DEBUG -DGDEBUG -c gff_utils.cpp -o gff_utils.o
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -o gffread gffread.o gff_utils.o -lgclib -pthread
make[2]: Leaving directory '/<<PKGBUILDDIR>>'
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_auto_test -a
create-stamp debian/debhelper-build-stamp
dh_prep -a
dh_auto_install --destdir=debian/gffread/ -a
dh_install -a
dh_installdocs -a
dh_installchangelogs -a
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
dh_makeshlibs -a
dh_shlibdeps -a
dpkg-shlibdeps: warning: debian/gffread/usr/bin/gffread contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/gffread/usr/bin/gffread was not linked against ld-linux-armhf.so.3 (it uses none of the library's symbols)
dh_installdeb -a
dh_gencontrol -a
dh_md5sums -a
dh_builddeb -a
dpkg-deb: building package 'gffread' in '../gffread_0.12.7-4_armhf.deb'.
dpkg-deb: building package 'gffread-dbgsym' in '../gffread-dbgsym_0.12.7-4_armhf.deb'.
dpkg-genbuildinfo --build=any -O../gffread_0.12.7-4_armhf.buildinfo
dpkg-genchanges --build=any -mRaspbian pi4 based autobuilder <root@raspbian.org> -O../gffread_0.12.7-4_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 2023-09-16T18:53:34Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
gffread_0.12.7-4_armhf.changes:
-------------------------------
Format: 1.8
Date: Tue, 20 Jun 2023 21:03:42 +0200
Source: gffread
Binary: gffread gffread-dbgsym
Architecture: armhf
Version: 0.12.7-4
Distribution: trixie-staging
Urgency: medium
Maintainer: Raspbian pi4 based autobuilder <root@raspbian.org>
Changed-By: Étienne Mollier <emollier@debian.org>
Description:
gffread - GFF/GTF format conversions, region filtering, FASTA sequence extr
Closes: 1033703
Changes:
gffread (0.12.7-4) unstable; urgency=medium
.
* Team upload.
* d/t/*: work around uninstallable packages.
The change involves not testing gffread anymore against trinityrnaseq
until it is back to testing, and not testing against R BioC modules
until libboost 1.81 transition is finished. (Closes: #1033703)
* Update standards version to 4.6.2, no changes needed.
Checksums-Sha1:
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Files:
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8866dc7f3c672bf818e53d22394a6236 5175 science optional gffread_0.12.7-4_armhf.buildinfo
91b5c0c3c7e4d4665ac63654a6e806ee 49740 science optional gffread_0.12.7-4_armhf.deb
+------------------------------------------------------------------------------+
| Buildinfo |
+------------------------------------------------------------------------------+
Format: 1.0
Source: gffread
Binary: gffread gffread-dbgsym
Architecture: armhf
Version: 0.12.7-4
Checksums-Md5:
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Checksums-Sha1:
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Build-Origin: Raspbian
Build-Architecture: armhf
Build-Date: Sat, 16 Sep 2023 18:53:33 +0000
Build-Path: /<<PKGBUILDDIR>>
Build-Tainted-By:
merged-usr-via-aliased-dirs
Installed-Build-Depends:
autoconf (= 2.71-3),
automake (= 1:1.16.5-1.3),
autopoint (= 0.21-13),
autotools-dev (= 20220109.1),
base-files (= 12.4+rpi1+deb12u1),
base-passwd (= 3.6.1),
bash (= 5.2.15-2),
binutils (= 2.40-2+rpi2),
binutils-arm-linux-gnueabihf (= 2.40-2+rpi2),
binutils-common (= 2.40-2+rpi2),
bsdextrautils (= 2.38.1-5),
bsdutils (= 1:2.38.1-5),
build-essential (= 12.9),
bzip2 (= 1.0.8-5+b2),
coreutils (= 9.1-1),
cpp (= 4:12.2.0-3+rpi1),
cpp-12 (= 12.2.0-14+rpi1),
dash (= 0.5.12-2),
debconf (= 1.5.82),
debhelper (= 13.11.6),
debianutils (= 5.7-0.4),
dh-autoreconf (= 20),
dh-strip-nondeterminism (= 1.13.1-1),
diffutils (= 1:3.8-4),
dpkg (= 1.21.22+rpi1),
dpkg-dev (= 1.21.22+rpi1),
dwz (= 0.15-1),
file (= 1:5.44-3),
findutils (= 4.9.0-4),
g++ (= 4:12.2.0-3+rpi1),
g++-12 (= 12.2.0-14+rpi1),
gcc (= 4:12.2.0-3+rpi1),
gcc-12 (= 12.2.0-14+rpi1),
gcc-12-base (= 12.2.0-14+rpi1),
gettext (= 0.21-12),
gettext-base (= 0.21-12),
grep (= 3.8-5),
groff-base (= 1.22.4-10),
gzip (= 1.12-1),
hostname (= 3.23+nmu1),
init-system-helpers (= 1.65.2),
intltool-debian (= 0.35.0+20060710.6),
libacl1 (= 2.3.1-3),
libarchive-zip-perl (= 1.68-1),
libasan8 (= 12.2.0-14+rpi1),
libatomic1 (= 12.2.0-14+rpi1),
libattr1 (= 1:2.5.1-4),
libaudit-common (= 1:3.1.1-1),
libaudit1 (= 1:3.0.9-1),
libbinutils (= 2.40-2+rpi2),
libblkid1 (= 2.38.1-5),
libbz2-1.0 (= 1.0.8-5+b2),
libc-bin (= 2.36-9+rpi1+deb12u1),
libc-dev-bin (= 2.36-9+rpi1+deb12u1),
libc6 (= 2.36-9+rpi1+deb12u1),
libc6-dev (= 2.36-9+rpi1+deb12u1),
libcap-ng0 (= 0.8.3-1+b1),
libcap2 (= 1:2.66-4),
libcc1-0 (= 12.2.0-14+rpi1),
libcom-err2 (= 1.47.0-2),
libcrypt-dev (= 1:4.4.33-2),
libcrypt1 (= 1:4.4.33-2),
libctf-nobfd0 (= 2.40-2+rpi2),
libctf0 (= 2.40-2+rpi2),
libdb5.3 (= 5.3.28+dfsg2-1),
libdebconfclient0 (= 0.270),
libdebhelper-perl (= 13.11.6),
libdpkg-perl (= 1.21.22+rpi1),
libelf1 (= 0.188-2.1+rpi1),
libfile-find-rule-perl (= 0.34-3),
libfile-stripnondeterminism-perl (= 1.13.1-1),
libgcc-12-dev (= 12.2.0-14+rpi1),
libgcc-s1 (= 12.2.0-14+rpi1),
libgclib-dev (= 0.12.7+ds-5),
libgclib3 (= 0.12.7+ds-5),
libgcrypt20 (= 1.10.1-3),
libgdbm-compat4 (= 1.23-3),
libgdbm6 (= 1.23-3),
libgmp10 (= 2:6.2.1+dfsg1-1.1),
libgomp1 (= 12.2.0-14+rpi1),
libgpg-error0 (= 1.46-1),
libgssapi-krb5-2 (= 1.20.1-2),
libicu72 (= 72.1-3),
libisl23 (= 0.25-1),
libjansson4 (= 2.14-2),
libk5crypto3 (= 1.20.1-2),
libkeyutils1 (= 1.6.3-2),
libkrb5-3 (= 1.20.1-2),
libkrb5support0 (= 1.20.1-2),
liblz4-1 (= 1.9.4-1+rpi1+b1),
liblzma5 (= 5.4.1-0.2),
libmagic-mgc (= 1:5.44-3),
libmagic1 (= 1:5.44-3),
libmd0 (= 1.0.4-2),
libmount1 (= 2.38.1-5),
libmpc3 (= 1.3.1-1),
libmpfr6 (= 4.2.0-1),
libnsl-dev (= 1.3.0-2),
libnsl2 (= 1.3.0-2),
libnumber-compare-perl (= 0.03-3),
libpam-modules (= 1.5.2-6),
libpam-modules-bin (= 1.5.2-6),
libpam-runtime (= 1.5.2-7),
libpam0g (= 1.5.2-6),
libpcre2-8-0 (= 10.42-1),
libperl5.36 (= 5.36.0-7),
libpipeline1 (= 1.5.7-1),
libseccomp2 (= 2.5.4-1+rpi1+b1),
libselinux1 (= 3.4-1+b2),
libsmartcols1 (= 2.38.1-5),
libssl3 (= 3.0.9-1),
libstdc++-12-dev (= 12.2.0-14+rpi1),
libstdc++6 (= 12.2.0-14+rpi1),
libsub-override-perl (= 0.09-4),
libsystemd0 (= 252.12-1~deb12u1+rpi1),
libtext-glob-perl (= 0.11-3),
libtinfo6 (= 6.4-4),
libtirpc-common (= 1.3.3+ds-1),
libtirpc-dev (= 1.3.3+ds-1),
libtirpc3 (= 1.3.3+ds-1),
libtool (= 2.4.7-7),
libubsan1 (= 12.2.0-14+rpi1),
libuchardet0 (= 0.0.7-1),
libudev1 (= 252.12-1~deb12u1+rpi1),
libunistring2 (= 1.0-2),
libuuid1 (= 2.38.1-5),
libxml2 (= 2.9.14+dfsg-1.3),
libzstd1 (= 1.5.4+dfsg2-5),
linux-libc-dev (= 6.1.38-1+rpi1),
login (= 1:4.13+dfsg1-1),
m4 (= 1.4.19-3),
make (= 4.3-4.1),
man-db (= 2.11.2-2),
mawk (= 1.3.4.20200120-3.1),
ncurses-base (= 6.4+20230625-2),
ncurses-bin (= 6.4-4),
patch (= 2.7.6-7),
perl (= 5.36.0-7),
perl-base (= 5.36.0-7),
perl-modules-5.36 (= 5.36.0-7),
po-debconf (= 1.0.21+nmu1),
rpcsvc-proto (= 1.4.3-1),
sed (= 4.9-1),
sensible-utils (= 0.0.20),
sysvinit-utils (= 3.06-4),
tar (= 1.34+dfsg-1.2),
usrmerge (= 37),
util-linux (= 2.38.1-5),
util-linux-extra (= 2.38.1-5),
xz-utils (= 5.4.1-0.2),
zlib1g (= 1:1.2.13.dfsg-1)
Environment:
DEB_BUILD_OPTIONS="parallel=4"
LANG="en_GB.UTF-8"
LC_ALL="C.UTF-8"
SOURCE_DATE_EPOCH="1687287822"
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
gffread-dbgsym_0.12.7-4_armhf.deb
---------------------------------
new Debian package, version 2.0.
size 207124 bytes: control archive=536 bytes.
372 bytes, 12 lines control
106 bytes, 1 lines md5sums
Package: gffread-dbgsym
Source: gffread
Version: 0.12.7-4
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 299
Depends: gffread (= 0.12.7-4)
Section: debug
Priority: optional
Description: debug symbols for gffread
Build-Ids: 96fa2e011404dc790b7c112ebe328eb0747139f8
drwxr-xr-x root/root 0 2023-06-20 19:03 ./
drwxr-xr-x root/root 0 2023-06-20 19:03 ./usr/
drwxr-xr-x root/root 0 2023-06-20 19:03 ./usr/lib/
drwxr-xr-x root/root 0 2023-06-20 19:03 ./usr/lib/debug/
drwxr-xr-x root/root 0 2023-06-20 19:03 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2023-06-20 19:03 ./usr/lib/debug/.build-id/96/
-rw-r--r-- root/root 295864 2023-06-20 19:03 ./usr/lib/debug/.build-id/96/fa2e011404dc790b7c112ebe328eb0747139f8.debug
drwxr-xr-x root/root 0 2023-06-20 19:03 ./usr/share/
drwxr-xr-x root/root 0 2023-06-20 19:03 ./usr/share/doc/
lrwxrwxrwx root/root 0 2023-06-20 19:03 ./usr/share/doc/gffread-dbgsym -> gffread
gffread_0.12.7-4_armhf.deb
--------------------------
new Debian package, version 2.0.
size 49740 bytes: control archive=776 bytes.
635 bytes, 14 lines control
258 bytes, 4 lines md5sums
Package: gffread
Version: 0.12.7-4
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 251
Depends: libc6 (>= 2.34), libgcc-s1 (>= 3.5), libgclib3 (>= 0.12.7+ds), libstdc++6 (>= 4.1.1)
Breaks: cufflinks (<< 2.2.1+dfsg.1-4)
Replaces: cufflinks (<< 2.2.1+dfsg.1-4)
Section: science
Priority: optional
Homepage: https://ccb.jhu.edu/software/stringtie/gff.shtml
Description: GFF/GTF format conversions, region filtering, FASTA sequence extraction
Gffread is a GFF/GTF parsing utility providing format conversions,
region filtering, FASTA sequence extraction and more.
drwxr-xr-x root/root 0 2023-06-20 19:03 ./
drwxr-xr-x root/root 0 2023-06-20 19:03 ./usr/
drwxr-xr-x root/root 0 2023-06-20 19:03 ./usr/bin/
-rwxr-xr-x root/root 239072 2023-06-20 19:03 ./usr/bin/gffread
drwxr-xr-x root/root 0 2023-06-20 19:03 ./usr/share/
drwxr-xr-x root/root 0 2023-06-20 19:03 ./usr/share/doc/
drwxr-xr-x root/root 0 2023-06-20 19:03 ./usr/share/doc/gffread/
-rw-r--r-- root/root 1521 2023-06-20 19:03 ./usr/share/doc/gffread/changelog.Debian.gz
-rw-r--r-- root/root 1340 2023-06-20 19:03 ./usr/share/doc/gffread/copyright
drwxr-xr-x root/root 0 2023-06-20 19:03 ./usr/share/man/
drwxr-xr-x root/root 0 2023-06-20 19:03 ./usr/share/man/man1/
-rw-r--r-- root/root 3096 2023-06-20 19:03 ./usr/share/man/man1/gffread.1.gz
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build Type: any
Build-Space: 4624
Build-Time: 21
Distribution: trixie-staging
Host Architecture: armhf
Install-Time: 277
Job: gffread_0.12.7-4
Machine Architecture: armhf
Package: gffread
Package-Time: 339
Source-Version: 0.12.7-4
Space: 4624
Status: successful
Version: 0.12.7-4
--------------------------------------------------------------------------------
Finished at 2023-09-16T18:53:34Z
Build needed 00:05:39, 4624k disk space