snp-sites →
2.1.3-2 →
armhf → 2016-02-05 11:19:00
sbuild (Debian sbuild) 0.65.2 (24 Mar 2015) on bm-wb-02
╔══════════════════════════════════════════════════════════════════════════════╗
║ snp-sites 2.1.3-2 (armhf) 05 Feb 2016 11:06 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: snp-sites
Version: 2.1.3-2
Source Version: 2.1.3-2
Distribution: stretch-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'build/snp-sites-9Mhoor/snp-sites-2.1.3' with '«PKGBUILDDIR»'
I: NOTICE: Log filtering will replace 'build/snp-sites-9Mhoor' with '«BUILDDIR»'
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/stretch-staging-armhf-sbuild-76b38e55-f257-49bc-a0fb-5065e7532965' with '«CHROOT»'
┌──────────────────────────────────────────────────────────────────────────────┐
│ Update chroot │
└──────────────────────────────────────────────────────────────────────────────┘
Get:1 http://172.17.0.1/private stretch-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private stretch-staging/main Sources [8668 kB]
Get:3 http://172.17.0.1/private stretch-staging/main armhf Packages [10.7 MB]
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┌──────────────────────────────────────────────────────────────────────────────┐
│ Fetch source files │
└──────────────────────────────────────────────────────────────────────────────┘
Check APT
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Building dependency tree...
Reading state information...
NOTICE: 'snp-sites' packaging is maintained in the 'Git' version control system at:
https://anonscm.debian.org/git/debian-med/snp-sites.git
Please use:
git clone https://anonscm.debian.org/git/debian-med/snp-sites.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 15.6 MB of source archives.
Get:1 http://172.17.0.1/private stretch-staging/main snp-sites 2.1.3-2 (dsc) [2281 B]
Get:2 http://172.17.0.1/private stretch-staging/main snp-sites 2.1.3-2 (tar) [15.6 MB]
Get:3 http://172.17.0.1/private stretch-staging/main snp-sites 2.1.3-2 (diff) [7904 B]
Fetched 15.6 MB in 1s (9299 kB/s)
Download complete and in download only mode
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Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/«BUILDDIR»/resolver-0efb6l/apt_archive/sbuild-build-depends-core-dummy.deb'.
OK
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Get:3 file:/«BUILDDIR»/resolver-0efb6l/apt_archive ./ Release.gpg [299 B]
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Get:4 file:/«BUILDDIR»/resolver-0efb6l/apt_archive ./ Sources [188 B]
Get:5 file:/«BUILDDIR»/resolver-0efb6l/apt_archive ./ Packages [507 B]
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┌──────────────────────────────────────────────────────────────────────────────┐
│ Install core build dependencies (apt-based resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
Installing build dependencies
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The following NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 1 not upgraded.
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Merged Build-Depends: libc6-dev | libc-dev, gcc (>= 4:4.9.1), g++ (>= 4:4.9.1), make, dpkg-dev (>= 1.17.11), debhelper (>= 9.0.0), autotools-dev, zlib1g-dev, check, pkg-config, dh-autoreconf, d-shlibs, libxml2-utils, docbook, docbook-xsl, xsltproc, asciidoc
Filtered Build-Depends: libc6-dev, gcc (>= 4:4.9.1), g++ (>= 4:4.9.1), make, dpkg-dev (>= 1.17.11), debhelper (>= 9.0.0), autotools-dev, zlib1g-dev, check, pkg-config, dh-autoreconf, d-shlibs, libxml2-utils, docbook, docbook-xsl, xsltproc, asciidoc
dpkg-deb: building package 'sbuild-build-depends-snp-sites-dummy' in '/«BUILDDIR»/resolver-PeniJx/apt_archive/sbuild-build-depends-snp-sites-dummy.deb'.
OK
Get:1 file:/«BUILDDIR»/resolver-PeniJx/apt_archive ./ InRelease
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Get:2 file:/«BUILDDIR»/resolver-PeniJx/apt_archive ./ Release [2119 B]
Get:2 file:/«BUILDDIR»/resolver-PeniJx/apt_archive ./ Release [2119 B]
Get:3 file:/«BUILDDIR»/resolver-PeniJx/apt_archive ./ Release.gpg [299 B]
Get:3 file:/«BUILDDIR»/resolver-PeniJx/apt_archive ./ Release.gpg [299 B]
Get:4 file:/«BUILDDIR»/resolver-PeniJx/apt_archive ./ Sources [367 B]
Get:5 file:/«BUILDDIR»/resolver-PeniJx/apt_archive ./ Packages [626 B]
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┌──────────────────────────────────────────────────────────────────────────────┐
│ Install snp-sites build dependencies (apt-based resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following additional packages will be installed:
asciidoc autoconf automake autopoint autotools-dev bsdmainutils check
d-shlibs debhelper dh-autoreconf dh-strip-nondeterminism docbook docbook-xsl
file gettext gettext-base groff-base intltool-debian libarchive-zip-perl
libcroco3 libexpat1 libffi6 libfile-stripnondeterminism-perl libglib2.0-0
libicu55 libmagic1 libpipeline1 libpython-stdlib libpython2.7-minimal
libpython2.7-stdlib libsigsegv2 libsqlite3-0 libssl1.0.2 libsubunit-dev
libsubunit0 libtool libunistring0 libxml2 libxml2-utils libxslt1.1 m4 man-db
mime-support pkg-config po-debconf python python-minimal python2.7
python2.7-minimal sgml-base sgml-data xml-core xsltproc zlib1g-dev
Suggested packages:
source-highlight vim-addon-manager autoconf-archive gnu-standards
autoconf-doc wamerican | wordlist whois vacation dh-make docbook-defguide
docbook-dsssl docbook-xml psgml dbtoepub docbook-xsl-doc-html
| docbook-xsl-doc-pdf | docbook-xsl-doc-text | docbook-xsl-doc
docbook-xsl-saxon fop libsaxon-java libxalan2-java libxslthl-java xalan
gettext-doc libasprintf-dev libgettextpo-dev groff libtool-doc gfortran
| fortran95-compiler gcj-jdk less www-browser libmail-box-perl python-doc
python-tk python2.7-doc binfmt-support sgml-base-doc perlsgml w3-recs opensp
Recommended packages:
dblatex docbook-utils xmlto docbook-xml curl | wget | lynx-cur
libglib2.0-data shared-mime-info xdg-user-dirs libltdl-dev
libmail-sendmail-perl
The following NEW packages will be installed:
asciidoc autoconf automake autopoint autotools-dev bsdmainutils check
d-shlibs debhelper dh-autoreconf dh-strip-nondeterminism docbook docbook-xsl
file gettext gettext-base groff-base intltool-debian libarchive-zip-perl
libcroco3 libexpat1 libffi6 libfile-stripnondeterminism-perl libglib2.0-0
libicu55 libmagic1 libpipeline1 libpython-stdlib libpython2.7-minimal
libpython2.7-stdlib libsigsegv2 libsqlite3-0 libssl1.0.2 libsubunit-dev
libsubunit0 libtool libunistring0 libxml2 libxml2-utils libxslt1.1 m4 man-db
mime-support pkg-config po-debconf python python-minimal python2.7
python2.7-minimal sbuild-build-depends-snp-sites-dummy sgml-base sgml-data
xml-core xsltproc zlib1g-dev
0 upgraded, 55 newly installed, 0 to remove and 1 not upgraded.
Need to get 27.2 MB/27.2 MB of archives.
After this operation, 107 MB of additional disk space will be used.
Get:1 file:/«BUILDDIR»/resolver-PeniJx/apt_archive ./ sbuild-build-depends-snp-sites-dummy 0.invalid.0 [882 B]
Get:2 http://172.17.0.1/private stretch-staging/main armhf groff-base armhf 1.22.3-7 [1083 kB]
Get:3 http://172.17.0.1/private stretch-staging/main armhf bsdmainutils armhf 9.0.6 [177 kB]
Get:4 http://172.17.0.1/private stretch-staging/main armhf libpipeline1 armhf 1.4.1-2 [23.7 kB]
Get:5 http://172.17.0.1/private stretch-staging/main armhf man-db armhf 2.7.5-1 [975 kB]
Get:6 http://172.17.0.1/private stretch-staging/main armhf libpython2.7-minimal armhf 2.7.11-3 [380 kB]
Get:7 http://172.17.0.1/private stretch-staging/main armhf python2.7-minimal armhf 2.7.11-3 [1093 kB]
Get:8 http://172.17.0.1/private stretch-staging/main armhf python-minimal armhf 2.7.11-1 [40.0 kB]
Get:9 http://172.17.0.1/private stretch-staging/main armhf mime-support all 3.59 [36.4 kB]
Get:10 http://172.17.0.1/private stretch-staging/main armhf libexpat1 armhf 2.1.0-7 [59.8 kB]
Get:11 http://172.17.0.1/private stretch-staging/main armhf libffi6 armhf 3.2.1-4 [18.5 kB]
Get:12 http://172.17.0.1/private stretch-staging/main armhf libsqlite3-0 armhf 3.10.2-1 [408 kB]
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Get:14 http://172.17.0.1/private stretch-staging/main armhf libpython2.7-stdlib armhf 2.7.11-3 [1836 kB]
Get:15 http://172.17.0.1/private stretch-staging/main armhf python2.7 armhf 2.7.11-3 [266 kB]
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Get:27 http://172.17.0.1/private stretch-staging/main armhf asciidoc all 8.6.9-3 [830 kB]
Get:28 http://172.17.0.1/private stretch-staging/main armhf autoconf all 2.69-9 [338 kB]
Get:29 http://172.17.0.1/private stretch-staging/main armhf autotools-dev all 20150820.1 [71.7 kB]
Get:30 http://172.17.0.1/private stretch-staging/main armhf automake all 1:1.15-3 [735 kB]
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Get:34 http://172.17.0.1/private stretch-staging/main armhf check armhf 0.10.0-3 [178 kB]
Get:35 http://172.17.0.1/private stretch-staging/main armhf d-shlibs all 0.63+rpi1 [16.4 kB]
Get:36 http://172.17.0.1/private stretch-staging/main armhf libglib2.0-0 armhf 2.46.2-3 [2482 kB]
Get:37 http://172.17.0.1/private stretch-staging/main armhf libcroco3 armhf 0.6.11-1 [131 kB]
Get:38 http://172.17.0.1/private stretch-staging/main armhf gettext armhf 0.19.7-2 [1400 kB]
Get:39 http://172.17.0.1/private stretch-staging/main armhf intltool-debian all 0.35.0+20060710.4 [26.3 kB]
Get:40 http://172.17.0.1/private stretch-staging/main armhf po-debconf all 1.0.19 [249 kB]
Get:41 http://172.17.0.1/private stretch-staging/main armhf libarchive-zip-perl all 1.56-2 [94.9 kB]
Get:42 http://172.17.0.1/private stretch-staging/main armhf libfile-stripnondeterminism-perl all 0.015-1 [11.0 kB]
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Get:44 http://172.17.0.1/private stretch-staging/main armhf debhelper all 9.20160115 [827 kB]
Get:45 http://172.17.0.1/private stretch-staging/main armhf libtool all 2.4.2-1.11 [190 kB]
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Get:47 http://172.17.0.1/private stretch-staging/main armhf xml-core all 0.13+nmu2 [24.2 kB]
Get:48 http://172.17.0.1/private stretch-staging/main armhf sgml-data all 2.0.10 [181 kB]
Get:49 http://172.17.0.1/private stretch-staging/main armhf docbook all 4.5-5.1 [453 kB]
Get:50 http://172.17.0.1/private stretch-staging/main armhf docbook-xsl all 1.79.1+dfsg-1 [1249 kB]
Get:51 http://172.17.0.1/private stretch-staging/main armhf libxml2-utils armhf 2.9.3+dfsg1-1 [101 kB]
Get:52 http://172.17.0.1/private stretch-staging/main armhf libxslt1.1 armhf 1.1.28-2.1 [211 kB]
Get:53 http://172.17.0.1/private stretch-staging/main armhf pkg-config armhf 0.29-3 [59.0 kB]
Get:54 http://172.17.0.1/private stretch-staging/main armhf xsltproc armhf 1.1.28-2.1 [118 kB]
Get:55 http://172.17.0.1/private stretch-staging/main armhf zlib1g-dev armhf 1:1.2.8.dfsg-2+b1 [197 kB]
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Setting up bsdmainutils (9.0.6) ...
update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode
update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode
Setting up libpipeline1:armhf (1.4.1-2) ...
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Not building database; man-db/auto-update is not 'true'.
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Setting up libexpat1:armhf (2.1.0-7) ...
Setting up libffi6:armhf (3.2.1-4) ...
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Setting up python (2.7.11-1) ...
Setting up libsigsegv2:armhf (2.10-4) ...
Setting up libunistring0:armhf (0.9.3-5.2) ...
Setting up sgml-base (1.26+nmu4) ...
Setting up libmagic1:armhf (1:5.25-2) ...
Setting up file (1:5.25-2) ...
Setting up gettext-base (0.19.7-2) ...
Setting up libicu55:armhf (55.1-7) ...
Setting up libxml2:armhf (2.9.3+dfsg1-1) ...
Setting up m4 (1.4.17-5) ...
Setting up asciidoc (8.6.9-3) ...
Setting up autoconf (2.69-9) ...
Setting up autotools-dev (20150820.1) ...
Setting up automake (1:1.15-3) ...
update-alternatives: using /usr/bin/automake-1.15 to provide /usr/bin/automake (automake) in auto mode
Setting up autopoint (0.19.7-2) ...
Setting up libsubunit0:armhf (1.1.0-3) ...
Setting up libsubunit-dev (1.1.0-3) ...
Setting up check:armhf (0.10.0-3) ...
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Setting up gettext (0.19.7-2) ...
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Setting up po-debconf (1.0.19) ...
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Setting up docbook (4.5-5.1) ...
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Setting up dh-strip-nondeterminism (0.015-1) ...
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Setting up dh-autoreconf (10) ...
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Processing triggers for libc-bin (2.21-7) ...
W: No sandbox user '_apt' on the system, can not drop privileges
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build environment │
└──────────────────────────────────────────────────────────────────────────────┘
Kernel: Linux 3.19.0-trunk-armmp armhf (armv7l)
Toolchain package versions: binutils_2.26-2 dpkg-dev_1.18.4 g++-5_5.3.1-7+rpi1 gcc-5_5.3.1-7+rpi1 libc6-dev_2.21-7 libstdc++-4.9-dev_4.9.3-10 libstdc++-5-dev_5.3.1-7+rpi1 libstdc++6_5.3.1-7+rpi1 linux-libc-dev_3.18.5-1~exp1+rpi19+stretch
Package versions: acl_2.2.52-2 adduser_3.113+nmu3 apt_1.2.1 asciidoc_8.6.9-3 autoconf_2.69-9 automake_1:1.15-3 autopoint_0.19.7-2 autotools-dev_20150820.1 base-files_9.5+rpi1 base-passwd_3.5.39 bash_4.3-14 binutils_2.26-2 bsdmainutils_9.0.6 bsdutils_1:2.27.1-3 build-essential_11.7 bzip2_1.0.6-8 check_0.10.0-3 coreutils_8.24-1 cpio_2.11+dfsg-4.1 cpp_4:5.3.1-1+rpi1 cpp-5_5.3.1-7+rpi1 d-shlibs_0.63+rpi1 dash_0.5.8-2.1 debconf_1.5.58 debfoster_2.7-2 debhelper_9.20160115 debianutils_4.7 dh-autoreconf_10 dh-strip-nondeterminism_0.015-1 diffutils_1:3.3-3 dmsetup_2:1.02.115-1 docbook_4.5-5.1 docbook-xsl_1.79.1+dfsg-1 dpkg_1.18.4 dpkg-dev_1.18.4 e2fslibs_1.42.13-1 e2fsprogs_1.42.13-1 fakeroot_1.20.2-1 file_1:5.25-2 findutils_4.6.0-2 g++_4:5.3.1-1+rpi1 g++-5_5.3.1-7+rpi1 gcc_4:5.3.1-1+rpi1 gcc-4.6-base_4.6.4-5+rpi1 gcc-4.7-base_4.7.3-11+rpi1 gcc-4.8-base_4.8.5-4 gcc-4.9-base_4.9.3-10 gcc-5_5.3.1-7+rpi1 gcc-5-base_5.3.1-7+rpi1 gettext_0.19.7-2 gettext-base_0.19.7-2 gnupg_1.4.20-1 gpgv_1.4.20-1 grep_2.22-1 groff-base_1.22.3-7 gzip_1.6-4 hostname_3.16 init_1.24 init-system-helpers_1.24 initramfs-tools_0.120 initscripts_2.88dsf-59.2 insserv_1.14.0-5.1 intltool-debian_0.35.0+20060710.4 klibc-utils_2.0.4-7+rpi1 kmod_22-1 libacl1_2.2.52-2 libapparmor1_2.10-3 libapt-pkg4.12_1.0.9.10 libapt-pkg5.0_1.2.1 libarchive-zip-perl_1.56-2 libasan1_4.9.3-10 libasan2_5.3.1-7+rpi1 libatomic1_5.3.1-7+rpi1 libattr1_1:2.4.47-2 libaudit-common_1:2.4.5-1 libaudit1_1:2.4.5-1 libblkid1_2.27.1-3 libbz2-1.0_1.0.6-8 libc-bin_2.21-7 libc-dev-bin_2.21-7 libc6_2.21-7 libc6-dev_2.21-7 libcap2_1:2.24-12 libcap2-bin_1:2.24-12 libcc1-0_5.3.1-7+rpi1 libcomerr2_1.42.13-1 libcroco3_0.6.11-1 libcryptsetup4_2:1.7.0-2 libdb5.3_5.3.28-11 libdbus-1-3_1.10.6-1 libdebconfclient0_0.201 libdevmapper1.02.1_2:1.02.115-1 libdpkg-perl_1.18.4 libdrm2_2.4.66-2 libexpat1_2.1.0-7 libfakeroot_1.20.2-1 libfdisk1_2.27.1-3 libffi6_3.2.1-4 libfile-stripnondeterminism-perl_0.015-1 libgc1c2_1:7.4.2-7.3 libgcc-4.9-dev_4.9.3-10 libgcc-5-dev_5.3.1-7+rpi1 libgcc1_1:5.3.1-7+rpi1 libgcrypt20_1.6.4-5 libgdbm3_1.8.3-13.1 libglib2.0-0_2.46.2-3 libgmp10_2:6.1.0+dfsg-2 libgomp1_5.3.1-7+rpi1 libgpg-error0_1.21-1 libicu55_55.1-7 libisl15_0.16.1-1 libklibc_2.0.4-7+rpi1 libkmod2_22-1 liblz4-1_0.0~r131-1 liblzma5_5.1.1alpha+20120614-2.1 libmagic1_1:5.25-2 libmount1_2.27.1-3 libmpc3_1.0.3-1 libmpfr4_3.1.3-2 libncurses5_6.0+20151024-2 libncursesw5_6.0+20151024-2 libpam-modules_1.1.8-3.2 libpam-modules-bin_1.1.8-3.2 libpam-runtime_1.1.8-3.2 libpam0g_1.1.8-3.2 libpcre3_2:8.38-1 libperl5.22_5.22.1-4 libpipeline1_1.4.1-2 libpng12-0_1.2.54-1 libprocps3_2:3.3.9-9 libprocps5_2:3.3.11-3 libpython-stdlib_2.7.11-1 libpython2.7-minimal_2.7.11-3 libpython2.7-stdlib_2.7.11-3 libreadline6_6.3-8+b3 libseccomp2_2.2.3-2 libselinux1_2.4-3 libsemanage-common_2.4-3 libsemanage1_2.4-3 libsepol1_2.4-2 libsigsegv2_2.10-4 libslang2_2.3.0-2+b1 libsmartcols1_2.27.1-3 libsqlite3-0_3.10.2-1 libss2_1.42.13-1 libssl1.0.2_1.0.2f-2 libstdc++-4.9-dev_4.9.3-10 libstdc++-5-dev_5.3.1-7+rpi1 libstdc++6_5.3.1-7+rpi1 libsubunit-dev_1.1.0-3 libsubunit0_1.1.0-3 libsystemd0_228-4+b1 libtimedate-perl_2.3000-2 libtinfo5_6.0+20151024-2 libtool_2.4.2-1.11 libubsan0_5.3.1-7+rpi1 libudev1_228-4+b1 libunistring0_0.9.3-5.2 libusb-0.1-4_2:0.1.12-28 libustr-1.0-1_1.0.4-5 libuuid1_2.27.1-3 libxml2_2.9.3+dfsg1-1 libxml2-utils_2.9.3+dfsg1-1 libxslt1.1_1.1.28-2.1 linux-libc-dev_3.18.5-1~exp1+rpi19+stretch login_1:4.2-3.1 lsb-base_9.20160110+rpi1 m4_1.4.17-5 make_4.1-5 makedev_2.3.1-93 man-db_2.7.5-1 manpages_4.04-0.1 mawk_1.3.3-17 mime-support_3.59 mount_2.27.1-3 multiarch-support_2.21-7 nano_2.5.1-1 ncurses-base_6.0+20151024-2 ncurses-bin_6.0+20151024-2 passwd_1:4.2-3.1 patch_2.7.5-1 perl_5.22.1-4 perl-base_5.22.1-4 perl-modules-5.22_5.22.1-4 pkg-config_0.29-3 po-debconf_1.0.19 procps_2:3.3.11-3 python_2.7.11-1 python-minimal_2.7.11-1 python2.7_2.7.11-3 python2.7-minimal_2.7.11-3 raspbian-archive-keyring_20120528.2 readline-common_6.3-8 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-snp-sites-dummy_0.invalid.0 sed_4.2.2-6.1 sensible-utils_0.0.9 sgml-base_1.26+nmu4 sgml-data_2.0.10 startpar_0.59-3 systemd_228-4+b1 systemd-sysv_228-4+b1 sysv-rc_2.88dsf-59.2 sysvinit-utils_2.88dsf-59.2 tar_1.28-2.1 tzdata_2016a-1 udev_228-4+b1 util-linux_2.27.1-3 xml-core_0.13+nmu2 xsltproc_1.1.28-2.1 xz-utils_5.1.1alpha+20120614-2.1 zlib1g_1:1.2.8.dfsg-2+b1 zlib1g-dev_1:1.2.8.dfsg-2+b1
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
└──────────────────────────────────────────────────────────────────────────────┘
Unpack source
─────────────
gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error
gpgv: Signature made Sat Jan 30 11:27:18 2016 UTC using RSA key ID F09F4872
gpgv: Can't check signature: public key not found
dpkg-source: warning: failed to verify signature on ./snp-sites_2.1.3-2.dsc
dpkg-source: info: extracting snp-sites in snp-sites-2.1.3
dpkg-source: info: unpacking snp-sites_2.1.3.orig.tar.gz
dpkg-source: info: unpacking snp-sites_2.1.3-2.debian.tar.xz
dpkg-source: info: applying fix_manpage.patch
dpkg-source: info: applying reproducible-build.patch
Check disc space
────────────────
Sufficient free space for build
User Environment
────────────────
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=stretch-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=stretch-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=stretch-staging-armhf-sbuild-76b38e55-f257-49bc-a0fb-5065e7532965
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=linux
USER=buildd
dpkg-buildpackage
─────────────────
dpkg-buildpackage: source package snp-sites
dpkg-buildpackage: source version 2.1.3-2
dpkg-buildpackage: source distribution unstable
dpkg-source --before-build snp-sites-2.1.3
dpkg-buildpackage: host architecture armhf
fakeroot debian/rules clean
dh clean --with autoreconf
dh_testdir
dh_auto_clean
dh_autoreconf_clean
dh_clean
debian/rules build-arch
dh build-arch --with autoreconf
dh_testdir -a
dh_update_autotools_config -a
dh_autoreconf -a
libtoolize: putting auxiliary files in `.'.
libtoolize: copying file `./ltmain.sh'
libtoolize: putting macros in AC_CONFIG_MACRO_DIR, `m4'.
libtoolize: copying file `m4/libtool.m4'
libtoolize: copying file `m4/ltoptions.m4'
libtoolize: copying file `m4/ltsugar.m4'
libtoolize: copying file `m4/ltversion.m4'
libtoolize: copying file `m4/lt~obsolete.m4'
Unescaped left brace in regex is deprecated, passed through in regex; marked by <-- HERE in m/\${ <-- HERE ([^ \t=:+{}]+)}/ at /usr/bin/automake line 3936.
configure.ac:13: installing './compile'
configure.ac:7: installing './config.guess'
configure.ac:7: installing './config.sub'
configure.ac:2: installing './install-sh'
configure.ac:2: installing './missing'
src/Makefile.am: installing './depcomp'
parallel-tests: installing './test-driver'
dh_auto_configure -a
./configure --build=arm-linux-gnueabihf --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-silent-rules --libdir=\${prefix}/lib/arm-linux-gnueabihf --libexecdir=\${prefix}/lib/arm-linux-gnueabihf --disable-maintainer-mode --disable-dependency-tracking
configure: WARNING: unrecognized options: --disable-maintainer-mode
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... /bin/mkdir -p
checking for gawk... no
checking for mawk... mawk
checking whether make sets $(MAKE)... yes
checking whether make supports nested variables... yes
checking build system type... arm-unknown-linux-gnueabihf
checking host system type... arm-unknown-linux-gnueabihf
checking for pkg-config... /usr/bin/pkg-config
checking pkg-config is at least version 0.9.0... yes
checking for CHECK... yes
checking for style of include used by make... GNU
checking for gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking whether gcc understands -c and -o together... yes
checking dependency style of gcc... none
checking how to run the C preprocessor... gcc -E
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking zlib.h usability... yes
checking zlib.h presence... yes
checking for zlib.h... yes
checking math.h usability... yes
checking math.h presence... yes
checking for math.h... yes
checking getopt.h usability... yes
checking getopt.h presence... yes
checking for getopt.h... yes
checking for floor in -lm... yes
checking if zlib is wanted... yes
checking for inflateEnd in -lz... yes
checking for zlib.h... (cached) yes
checking how to print strings... printf
checking for a sed that does not truncate output... /bin/sed
checking for fgrep... /bin/grep -F
checking for ld used by gcc... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
checking the name lister (/usr/bin/nm -B) interface... BSD nm
checking whether ln -s works... yes
checking the maximum length of command line arguments... 1572864
checking whether the shell understands some XSI constructs... yes
checking whether the shell understands "+="... yes
checking how to convert arm-unknown-linux-gnueabihf file names to arm-unknown-linux-gnueabihf format... func_convert_file_noop
checking how to convert arm-unknown-linux-gnueabihf file names to toolchain format... func_convert_file_noop
checking for /usr/bin/ld option to reload object files... -r
checking for objdump... objdump
checking how to recognize dependent libraries... pass_all
checking for dlltool... no
checking how to associate runtime and link libraries... printf %s\n
checking for ar... ar
checking for archiver @FILE support... @
checking for strip... strip
checking for ranlib... ranlib
checking command to parse /usr/bin/nm -B output from gcc object... ok
checking for sysroot... no
checking for mt... mt
checking if mt is a manifest tool... no
checking for dlfcn.h... yes
checking for objdir... .libs
checking if gcc supports -fno-rtti -fno-exceptions... no
checking for gcc option to produce PIC... -fPIC -DPIC
checking if gcc PIC flag -fPIC -DPIC works... yes
checking if gcc static flag -static works... yes
checking if gcc supports -c -o file.o... yes
checking if gcc supports -c -o file.o... (cached) yes
checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes
checking whether -lc should be explicitly linked in... no
checking dynamic linker characteristics... GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking whether stripping libraries is possible... yes
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... yes
checking whether to build static libraries... yes
checking for gcc... (cached) gcc
checking whether we are using the GNU C compiler... (cached) yes
checking whether gcc accepts -g... (cached) yes
checking for gcc option to accept ISO C89... (cached) none needed
checking whether gcc understands -c and -o together... (cached) yes
checking dependency style of gcc... (cached) none
checking for g++... g++
checking whether we are using the GNU C++ compiler... yes
checking whether g++ accepts -g... yes
checking dependency style of g++... none
checking how to run the C++ preprocessor... g++ -E
checking for ld used by g++... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes
checking for g++ option to produce PIC... -fPIC -DPIC
checking if g++ PIC flag -fPIC -DPIC works... yes
checking if g++ static flag -static works... yes
checking if g++ supports -c -o file.o... yes
checking if g++ supports -c -o file.o... (cached) yes
checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating Makefile
config.status: creating src/Makefile
config.status: creating config.h
config.status: executing depfiles commands
config.status: executing libtool commands
configure: WARNING: unrecognized options: --disable-maintainer-mode
dh_auto_build -a
make -j1
make[1]: Entering directory '/«PKGBUILDDIR»'
make all-recursive
make[2]: Entering directory '/«PKGBUILDDIR»'
Making all in src
make[3]: Entering directory '/«PKGBUILDDIR»/src'
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include -I/usr/include -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o alignment-file.lo alignment-file.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include -I/usr/include -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c alignment-file.c -fPIC -DPIC -o .libs/alignment-file.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include -I/usr/include -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c alignment-file.c -o alignment-file.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include -I/usr/include -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o vcf.lo vcf.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include -I/usr/include -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c vcf.c -fPIC -DPIC -o .libs/vcf.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include -I/usr/include -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c vcf.c -o vcf.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include -I/usr/include -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o phylib-of-snp-sites.lo phylib-of-snp-sites.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include -I/usr/include -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c phylib-of-snp-sites.c -fPIC -DPIC -o .libs/phylib-of-snp-sites.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include -I/usr/include -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c phylib-of-snp-sites.c -o phylib-of-snp-sites.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include -I/usr/include -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o snp-sites.lo snp-sites.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include -I/usr/include -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c snp-sites.c -fPIC -DPIC -o .libs/snp-sites.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include -I/usr/include -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c snp-sites.c -o snp-sites.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include -I/usr/include -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o fasta-of-snp-sites.lo fasta-of-snp-sites.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include -I/usr/include -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c fasta-of-snp-sites.c -fPIC -DPIC -o .libs/fasta-of-snp-sites.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include -I/usr/include -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c fasta-of-snp-sites.c -o fasta-of-snp-sites.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CC --mode=link gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -version-info 1:0 -Wl,-z,relro -L/usr/lib -L/usr/lib -o libsnp-sites.la -rpath /usr/lib/arm-linux-gnueabihf alignment-file.lo vcf.lo phylib-of-snp-sites.lo snp-sites.lo fasta-of-snp-sites.lo -lz -lm
libtool: link: gcc -shared -fPIC -DPIC .libs/alignment-file.o .libs/vcf.o .libs/phylib-of-snp-sites.o .libs/snp-sites.o .libs/fasta-of-snp-sites.o -L/usr/lib -lz -lm -O2 -Wl,-z -Wl,relro -Wl,-soname -Wl,libsnp-sites.so.1 -o .libs/libsnp-sites.so.1.0.0
libtool: link: (cd ".libs" && rm -f "libsnp-sites.so.1" && ln -s "libsnp-sites.so.1.0.0" "libsnp-sites.so.1")
libtool: link: (cd ".libs" && rm -f "libsnp-sites.so" && ln -s "libsnp-sites.so.1.0.0" "libsnp-sites.so")
libtool: link: ar cru .libs/libsnp-sites.a alignment-file.o vcf.o phylib-of-snp-sites.o snp-sites.o fasta-of-snp-sites.o
ar: `u' modifier ignored since `D' is the default (see `U')
libtool: link: ranlib .libs/libsnp-sites.a
libtool: link: ( cd ".libs" && rm -f "libsnp-sites.la" && ln -s "../libsnp-sites.la" "libsnp-sites.la" )
gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include -I/usr/include --std=c99 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o snp_sites-main.o `test -f 'main.c' || echo './'`main.c
/bin/bash ../libtool --tag=CC --mode=link gcc --std=c99 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -L/usr/lib -L/usr/lib -o snp-sites snp_sites-main.o libsnp-sites.la -lpthread -lz -lm
libtool: link: gcc --std=c99 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -o .libs/snp-sites snp_sites-main.o -L/usr/lib ./.libs/libsnp-sites.so -lpthread -lz -lm
make[3]: Leaving directory '/«PKGBUILDDIR»/src'
make[3]: Entering directory '/«PKGBUILDDIR»'
make[3]: Leaving directory '/«PKGBUILDDIR»'
make[2]: Leaving directory '/«PKGBUILDDIR»'
make[1]: Leaving directory '/«PKGBUILDDIR»'
dh_auto_test -a
make -j1 check
make[1]: Entering directory '/«PKGBUILDDIR»'
Making check in src
make[2]: Entering directory '/«PKGBUILDDIR»/src'
make run-all-tests
make[3]: Entering directory '/«PKGBUILDDIR»/src'
gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include -I/usr/include -pthread -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o ../tests/run_all_tests-check-snp-sites.o `test -f '../tests/check-snp-sites.c' || echo './'`../tests/check-snp-sites.c
gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include -I/usr/include -pthread -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o ../tests/run_all_tests-check-vcf.o `test -f '../tests/check-vcf.c' || echo './'`../tests/check-vcf.c
gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include -I/usr/include -pthread -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o ../tests/run_all_tests-helper-methods.o `test -f '../tests/helper-methods.c' || echo './'`../tests/helper-methods.c
gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include -I/usr/include -pthread -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o ../tests/run_all_tests-run-all-tests.o `test -f '../tests/run-all-tests.c' || echo './'`../tests/run-all-tests.c
/bin/bash ../libtool --tag=CC --mode=link gcc -pthread -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -L/usr/lib -L/usr/lib -o run-all-tests ../tests/run_all_tests-check-snp-sites.o ../tests/run_all_tests-check-vcf.o ../tests/run_all_tests-helper-methods.o ../tests/run_all_tests-run-all-tests.o libsnp-sites.la -lpthread -lcheck_pic -pthread -lrt -lm -lsubunit -lz -lm
libtool: link: gcc -pthread -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -o .libs/run-all-tests ../tests/run_all_tests-check-snp-sites.o ../tests/run_all_tests-check-vcf.o ../tests/run_all_tests-helper-methods.o ../tests/run_all_tests-run-all-tests.o -pthread -L/usr/lib ./.libs/libsnp-sites.so -lpthread -lcheck_pic -lrt -lsubunit -lz -lm -pthread
make[3]: Leaving directory '/«PKGBUILDDIR»/src'
make check-TESTS
make[3]: Entering directory '/«PKGBUILDDIR»/src'
make[4]: Entering directory '/«PKGBUILDDIR»/src'
PASS: run-all-tests
============================================================================
Testsuite summary for snp-sites 2.1.3
============================================================================
# TOTAL: 1
# PASS: 1
# SKIP: 0
# XFAIL: 0
# FAIL: 0
# XPASS: 0
# ERROR: 0
============================================================================
make[4]: Leaving directory '/«PKGBUILDDIR»/src'
make[3]: Leaving directory '/«PKGBUILDDIR»/src'
make[2]: Leaving directory '/«PKGBUILDDIR»/src'
make[2]: Entering directory '/«PKGBUILDDIR»'
make[2]: Leaving directory '/«PKGBUILDDIR»'
make[1]: Leaving directory '/«PKGBUILDDIR»'
fakeroot debian/rules binary-arch
dh binary-arch --with autoreconf
dh_testroot -a
dh_prep -a
dh_auto_install -a
make -j1 install DESTDIR=/«PKGBUILDDIR»/debian/tmp AM_UPDATE_INFO_DIR=no
make[1]: Entering directory '/«PKGBUILDDIR»'
Making install in src
make[2]: Entering directory '/«PKGBUILDDIR»/src'
make[3]: Entering directory '/«PKGBUILDDIR»/src'
/bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/lib/arm-linux-gnueabihf'
/bin/bash ../libtool --mode=install /usr/bin/install -c libsnp-sites.la '/«PKGBUILDDIR»/debian/tmp/usr/lib/arm-linux-gnueabihf'
libtool: install: /usr/bin/install -c .libs/libsnp-sites.so.1.0.0 /«PKGBUILDDIR»/debian/tmp/usr/lib/arm-linux-gnueabihf/libsnp-sites.so.1.0.0
libtool: install: (cd /«PKGBUILDDIR»/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libsnp-sites.so.1.0.0 libsnp-sites.so.1 || { rm -f libsnp-sites.so.1 && ln -s libsnp-sites.so.1.0.0 libsnp-sites.so.1; }; })
libtool: install: (cd /«PKGBUILDDIR»/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libsnp-sites.so.1.0.0 libsnp-sites.so || { rm -f libsnp-sites.so && ln -s libsnp-sites.so.1.0.0 libsnp-sites.so; }; })
libtool: install: /usr/bin/install -c .libs/libsnp-sites.lai /«PKGBUILDDIR»/debian/tmp/usr/lib/arm-linux-gnueabihf/libsnp-sites.la
libtool: install: /usr/bin/install -c .libs/libsnp-sites.a /«PKGBUILDDIR»/debian/tmp/usr/lib/arm-linux-gnueabihf/libsnp-sites.a
libtool: install: chmod 644 /«PKGBUILDDIR»/debian/tmp/usr/lib/arm-linux-gnueabihf/libsnp-sites.a
libtool: install: ranlib /«PKGBUILDDIR»/debian/tmp/usr/lib/arm-linux-gnueabihf/libsnp-sites.a
libtool: install: warning: remember to run `libtool --finish /usr/lib/arm-linux-gnueabihf'
/bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/bin'
/bin/bash ../libtool --mode=install /usr/bin/install -c snp-sites '/«PKGBUILDDIR»/debian/tmp/usr/bin'
libtool: install: warning: `libsnp-sites.la' has not been installed in `/usr/lib/arm-linux-gnueabihf'
libtool: install: /usr/bin/install -c .libs/snp-sites /«PKGBUILDDIR»/debian/tmp/usr/bin/snp-sites
/bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/include/snp-sites'
/usr/bin/install -c -m 644 alignment-file.h vcf.h phylib-of-snp-sites.h snp-sites.h fasta-of-snp-sites.h kseq.h '/«PKGBUILDDIR»/debian/tmp/usr/include/snp-sites'
make[3]: Leaving directory '/«PKGBUILDDIR»/src'
make[2]: Leaving directory '/«PKGBUILDDIR»/src'
make[2]: Entering directory '/«PKGBUILDDIR»'
make[3]: Entering directory '/«PKGBUILDDIR»'
make[3]: Nothing to be done for 'install-exec-am'.
make[3]: Nothing to be done for 'install-data-am'.
make[3]: Leaving directory '/«PKGBUILDDIR»'
make[2]: Leaving directory '/«PKGBUILDDIR»'
make[1]: Leaving directory '/«PKGBUILDDIR»'
debian/rules override_dh_install
make[1]: Entering directory '/«PKGBUILDDIR»'
dh_install
d-shlibmove --commit \
--multiarch \
--exclude-la \
--movedev "debian/tmp/usr/include/snp-sites/*.h" usr/include/snp-sites \
debian/tmp/usr/lib/*/libsnp-sites.so
Library package automatic movement utility
--> zlib1g-dev package exists.
set -e
install -d -m 755 debian/libsnp-sites1-dev/usr/lib/arm-linux-gnueabihf
install -d -m 755 debian/libsnp-sites1/usr/lib/arm-linux-gnueabihf
mv debian/tmp/usr/lib/arm-linux-gnueabihf/libsnp-sites.a debian/libsnp-sites1-dev/usr/lib/arm-linux-gnueabihf
mv debian/tmp/usr/lib/arm-linux-gnueabihf/libsnp-sites.so debian/libsnp-sites1-dev/usr/lib/arm-linux-gnueabihf
mv /«PKGBUILDDIR»/debian/tmp/usr/lib/arm-linux-gnueabihf/libsnp-sites.so.1 debian/libsnp-sites1/usr/lib/arm-linux-gnueabihf
mv /«PKGBUILDDIR»/debian/tmp/usr/lib/arm-linux-gnueabihf/libsnp-sites.so.1.0.0 debian/libsnp-sites1/usr/lib/arm-linux-gnueabihf
PKGDEV=libsnp-sites1-dev
PKGSHL=libsnp-sites1
install -d -m 755 debian/libsnp-sites1-dev/usr/include/snp-sites
mv debian/tmp/usr/include/snp-sites/*.h debian/libsnp-sites1-dev/usr/include/snp-sites
make[1]: Leaving directory '/«PKGBUILDDIR»'
dh_installdocs -a
dh_installchangelogs -a
debian/rules override_dh_installman
make[1]: Entering directory '/«PKGBUILDDIR»'
mkdir -p /«PKGBUILDDIR»/debian/man
a2x --no-xmllint --doctype manpage --format manpage /«PKGBUILDDIR»/snp-sites.txt
mv /«PKGBUILDDIR»/snp-sites.1 /«PKGBUILDDIR»/debian/man
dh_installman --
make[1]: Leaving directory '/«PKGBUILDDIR»'
dh_perl -a
dh_link -a
dh_strip_nondeterminism -a
dh_compress -a
dh_fixperms -a
dh_strip -a
dh_makeshlibs -a
dh_shlibdeps -a
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/snp-sites/usr/bin/snp-sites was not linked against ld-linux-armhf.so.3 (it uses none of the library's symbols)
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/snp-sites/usr/bin/snp-sites was not linked against libz.so.1 (it uses none of the library's symbols)
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/snp-sites/usr/bin/snp-sites was not linked against libm.so.6 (it uses none of the library's symbols)
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/snp-sites/usr/bin/snp-sites was not linked against libpthread.so.0 (it uses none of the library's symbols)
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/libsnp-sites1/usr/lib/arm-linux-gnueabihf/libsnp-sites.so.1.0.0 was not linked against libm.so.6 (it uses none of the library's symbols)
dh_installdeb -a
dh_gencontrol -a
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
dpkg-gencontrol: warning: Depends field of package libsnp-sites1-dev: unknown substitution variable ${shlibs:Depends}
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
dpkg-gencontrol: warning: package libsnp-sites1-dev: unused substitution variable ${devlibs:Depends}
dh_md5sums -a
dh_builddeb -a
dpkg-deb: building package 'libsnp-sites1-dbgsym' in '../libsnp-sites1-dbgsym_2.1.3-2_armhf.deb'.
dpkg-deb: building package 'libsnp-sites1-dev' in '../libsnp-sites1-dev_2.1.3-2_armhf.deb'.
dpkg-deb: building package 'snp-sites-dbgsym' in '../snp-sites-dbgsym_2.1.3-2_armhf.deb'.
dpkg-deb: building package 'snp-sites' in '../snp-sites_2.1.3-2_armhf.deb'.
dpkg-deb: building package 'libsnp-sites1' in '../libsnp-sites1_2.1.3-2_armhf.deb'.
dpkg-genchanges -B -mRaspbian wandboard test autobuilder <root@raspbian.org> >../snp-sites_2.1.3-2_armhf.changes
dpkg-genchanges: warning: package snp-sites-dbgsym listed in files list but not in control info
dpkg-genchanges: warning: package libsnp-sites1-dbgsym listed in files list but not in control info
dpkg-genchanges: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build snp-sites-2.1.3
dpkg-buildpackage: binary-only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
Build finished at 20160205-1115
Finished
────────
I: Built successfully
┌──────────────────────────────────────────────────────────────────────────────┐
│ Post Build Chroot │
└──────────────────────────────────────────────────────────────────────────────┘
┌──────────────────────────────────────────────────────────────────────────────┐
│ Changes │
└──────────────────────────────────────────────────────────────────────────────┘
snp-sites_2.1.3-2_armhf.changes:
────────────────────────────────
Format: 1.8
Date: Sat, 30 Jan 2016 11:20:21 +0000
Source: snp-sites
Binary: snp-sites libsnp-sites1 libsnp-sites1-dev
Architecture: armhf
Version: 2.1.3-2
Distribution: stretch-staging
Urgency: medium
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Sascha Steinbiss <sascha@steinbiss.name>
Description:
libsnp-sites1 - Shared libraries of the package snp-sites
libsnp-sites1-dev - Static libraries and header files for the package snp-sites
snp-sites - Binary code for the package snp-sites
Changes:
snp-sites (2.1.3-2) unstable; urgency=medium
.
* Add copyright entry for new script.
Checksums-Sha1:
c6e17b3775571158369f60241324c03f0ed61767 15396 libsnp-sites1-dbgsym_2.1.3-2_armhf.deb
5edbd26493b68ac2142f16148cd9f98c7d56ccd6 12026 libsnp-sites1-dev_2.1.3-2_armhf.deb
a3bdecbb6e92fd5be2539310c50b0f932016a0c1 8960 libsnp-sites1_2.1.3-2_armhf.deb
551356531bf8edeb26711f57084d76548b4b05bf 5312 snp-sites-dbgsym_2.1.3-2_armhf.deb
29d30c06cb64a9c10102c0c025c52a2532417f7b 7516 snp-sites_2.1.3-2_armhf.deb
Checksums-Sha256:
c607e51df5a659358ac2aa62eba495d060110a3852442f71880afc402c7c8b88 15396 libsnp-sites1-dbgsym_2.1.3-2_armhf.deb
29ce5d5b73b3d78ad02b59af46d9402129d133c3a58fa6d3ec36915fab0c70b0 12026 libsnp-sites1-dev_2.1.3-2_armhf.deb
a3490dfb10d911cbb3f4a1678583be3a6b44fc18f12120d979968e9bedfb2104 8960 libsnp-sites1_2.1.3-2_armhf.deb
4cb71395b368ba6f5e4dc40ae17df5763e9da13280124c49f159fcef0fe2ec3c 5312 snp-sites-dbgsym_2.1.3-2_armhf.deb
3e86ac6d2240d26ec24d525f46e51d9fd5d0c156b93f5be7384b7ffcbc965247 7516 snp-sites_2.1.3-2_armhf.deb
Files:
42051a05f001814e1c992203468c1b79 15396 debug extra libsnp-sites1-dbgsym_2.1.3-2_armhf.deb
117abb991901854eb66865601dbf5fab 12026 libdevel optional libsnp-sites1-dev_2.1.3-2_armhf.deb
1b103c854b4075549a06188f73d7749d 8960 libs optional libsnp-sites1_2.1.3-2_armhf.deb
108feb1845a060d25819cc0233c40afe 5312 debug extra snp-sites-dbgsym_2.1.3-2_armhf.deb
f38c9cf74e07276d203a7493e2cc59fd 7516 science optional snp-sites_2.1.3-2_armhf.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
libsnp-sites1-dbgsym_2.1.3-2_armhf.deb
──────────────────────────────────────
new debian package, version 2.0.
size 15396 bytes: control archive=503 bytes.
442 bytes, 13 lines control
106 bytes, 1 lines md5sums
Package: libsnp-sites1-dbgsym
Source: snp-sites
Version: 2.1.3-2
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 29
Depends: libsnp-sites1 (= 2.1.3-2)
Section: debug
Priority: extra
Homepage: https://github.com/sanger-pathogens/snp_sites
Description: Debug symbols for libsnp-sites1
Auto-Built-Package: debug-symbols
Build-Ids: c9ef2def51af413d7e93d68c664a3ead6c0cea2d
drwxr-xr-x root/root 0 2016-02-05 11:15 ./
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/lib/
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/lib/debug/
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/lib/debug/.build-id/c9/
-rw-r--r-- root/root 19308 2016-02-05 11:15 ./usr/lib/debug/.build-id/c9/ef2def51af413d7e93d68c664a3ead6c0cea2d.debug
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/share/
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/share/doc/
lrwxrwxrwx root/root 0 2016-02-05 11:15 ./usr/share/doc/libsnp-sites1-dbgsym -> libsnp-sites1
libsnp-sites1-dev_2.1.3-2_armhf.deb
───────────────────────────────────
new debian package, version 2.0.
size 12026 bytes: control archive=1078 bytes.
954 bytes, 24 lines control
740 bytes, 10 lines md5sums
Package: libsnp-sites1-dev
Source: snp-sites
Version: 2.1.3-2
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 52
Depends: libsnp-sites1 (= 2.1.3-2)
Conflicts: libsnp-sites-dev
Provides: libsnp-sites-dev
Section: libdevel
Priority: optional
Homepage: https://github.com/sanger-pathogens/snp_sites
Description: Static libraries and header files for the package snp-sites
Snp-sites finds single nucleotide polymorphism (SNP) sites from
multi-fasta alignment input files (which might be compressed). Its
output can be in various widely used formats (Multi Fasta Alignment,
Vcf, phylip).
.
The software has been developed at the Wellcome Trust Sanger Institute.
.
This package contains the development files to include snp-sites
into your own code. The library enables Python developers to make
snp-sites function calls (Python bindings) through the Boost Python
Library.
drwxr-xr-x root/root 0 2016-02-05 11:15 ./
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/include/
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/include/snp-sites/
-rw-r--r-- root/root 1262 2016-02-05 11:15 ./usr/include/snp-sites/alignment-file.h
-rw-r--r-- root/root 1067 2016-02-05 11:15 ./usr/include/snp-sites/fasta-of-snp-sites.h
-rw-r--r-- root/root 8809 2016-02-05 11:15 ./usr/include/snp-sites/kseq.h
-rw-r--r-- root/root 1071 2016-02-05 11:15 ./usr/include/snp-sites/phylib-of-snp-sites.h
-rw-r--r-- root/root 1134 2016-02-05 11:15 ./usr/include/snp-sites/snp-sites.h
-rw-r--r-- root/root 1903 2016-02-05 11:15 ./usr/include/snp-sites/vcf.h
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/lib/
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/lib/arm-linux-gnueabihf/
-rw-r--r-- root/root 16552 2016-02-05 11:15 ./usr/lib/arm-linux-gnueabihf/libsnp-sites.a
lrwxrwxrwx root/root 0 2016-02-05 11:15 ./usr/lib/arm-linux-gnueabihf/libsnp-sites.so -> libsnp-sites.so.1.0.0
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/share/
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/share/doc/
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/share/doc/libsnp-sites1-dev/
-rw-r--r-- root/root 552 2015-12-10 00:16 ./usr/share/doc/libsnp-sites1-dev/README.Debian
-rw-r--r-- root/root 605 2016-01-30 11:23 ./usr/share/doc/libsnp-sites1-dev/changelog.Debian.gz
-rw-r--r-- root/root 2333 2016-01-30 11:23 ./usr/share/doc/libsnp-sites1-dev/copyright
libsnp-sites1_2.1.3-2_armhf.deb
───────────────────────────────
new debian package, version 2.0.
size 8960 bytes: control archive=864 bytes.
732 bytes, 19 lines control
238 bytes, 3 lines md5sums
29 bytes, 1 lines shlibs
60 bytes, 2 lines triggers
Package: libsnp-sites1
Source: snp-sites
Version: 2.1.3-2
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 29
Depends: libc6 (>= 2.4), zlib1g (>= 1:1.1.4)
Section: libs
Priority: optional
Homepage: https://github.com/sanger-pathogens/snp_sites
Description: Shared libraries of the package snp-sites
Snp-sites finds single nucleotide polymorphism (SNP) sites from
multi-fasta alignment input files (which might be compressed). Its
output can be in various widely used formats (Multi Fasta Alignment,
Vcf, phylip).
.
The software has been developed at the Wellcome Trust Sanger Institute.
.
This package contains the dynamic library uses by snp-sites.
drwxr-xr-x root/root 0 2016-02-05 11:15 ./
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/lib/
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/lib/arm-linux-gnueabihf/
lrwxrwxrwx root/root 0 2016-02-05 11:15 ./usr/lib/arm-linux-gnueabihf/libsnp-sites.so.1 -> libsnp-sites.so.1.0.0
-rw-r--r-- root/root 13868 2016-02-05 11:15 ./usr/lib/arm-linux-gnueabihf/libsnp-sites.so.1.0.0
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/share/
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/share/doc/
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/share/doc/libsnp-sites1/
-rw-r--r-- root/root 605 2016-01-30 11:23 ./usr/share/doc/libsnp-sites1/changelog.Debian.gz
-rw-r--r-- root/root 2333 2016-01-30 11:23 ./usr/share/doc/libsnp-sites1/copyright
snp-sites-dbgsym_2.1.3-2_armhf.deb
──────────────────────────────────
new debian package, version 2.0.
size 5312 bytes: control archive=499 bytes.
430 bytes, 13 lines control
106 bytes, 1 lines md5sums
Package: snp-sites-dbgsym
Source: snp-sites
Version: 2.1.3-2
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 18
Depends: snp-sites (= 2.1.3-2)
Section: debug
Priority: extra
Homepage: https://github.com/sanger-pathogens/snp_sites
Description: Debug symbols for snp-sites
Auto-Built-Package: debug-symbols
Build-Ids: 2e0e76c34f47f53ee62968c5d740183e9a5674bc
drwxr-xr-x root/root 0 2016-02-05 11:15 ./
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/lib/
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/lib/debug/
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/lib/debug/.build-id/2e/
-rw-r--r-- root/root 8184 2016-02-05 11:15 ./usr/lib/debug/.build-id/2e/0e76c34f47f53ee62968c5d740183e9a5674bc.debug
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/share/
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/share/doc/
lrwxrwxrwx root/root 0 2016-02-05 11:15 ./usr/share/doc/snp-sites-dbgsym -> snp-sites
snp-sites_2.1.3-2_armhf.deb
───────────────────────────
new debian package, version 2.0.
size 7516 bytes: control archive=1092 bytes.
1159 bytes, 24 lines control
406 bytes, 6 lines md5sums
Package: snp-sites
Version: 2.1.3-2
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 24
Depends: libc6 (>= 2.4), libsnp-sites1, zlib1g (>= 1:1.1.4)
Section: science
Priority: optional
Homepage: https://github.com/sanger-pathogens/snp_sites
Description: Binary code for the package snp-sites
This program finds single nucleotide polymorphism (SNP) sites from
multi-fasta alignment input files (which might be compressed). Its
output can be in various widely used formats (Multi Fasta Alignment,
Vcf, phylip).
.
The software has been developed at the Wellcome Trust Sanger Institute.
.
A Single Nucleotide - polymorphism (SNP, pronounced snip; plural snips)
is a DNA sequence variation occurring when a Single Nucleotide — A, T, C
or G — in the genome (or other shared sequence) differs between members
of a biological species or paired chromosomes. For example, two
sequenced DNA fragments from different individuals, AAGCCTA to AAGCTTA,
contain a difference in a single nucleotide. In this case there are two
alleles. Almost all common SNPs have only two alleles.
drwxr-xr-x root/root 0 2016-02-05 11:15 ./
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/bin/
-rwxr-xr-x root/root 5632 2016-02-05 11:15 ./usr/bin/snp-sites
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/share/
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/share/doc/
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/share/doc/snp-sites/
-rw-r--r-- root/root 378 2015-12-10 00:16 ./usr/share/doc/snp-sites/README.Debian
-rw-r--r-- root/root 1427 2016-01-27 09:10 ./usr/share/doc/snp-sites/README.md
-rw-r--r-- root/root 605 2016-01-30 11:23 ./usr/share/doc/snp-sites/changelog.Debian.gz
-rw-r--r-- root/root 2333 2016-01-30 11:23 ./usr/share/doc/snp-sites/copyright
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/share/man/
drwxr-xr-x root/root 0 2016-02-05 11:15 ./usr/share/man/man1/
-rw-r--r-- root/root 1192 2016-02-05 11:15 ./usr/share/man/man1/snp-sites.1.gz
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│ Post Build │
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┌──────────────────────────────────────────────────────────────────────────────┐
│ Cleanup │
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Purging /«BUILDDIR»
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┌──────────────────────────────────────────────────────────────────────────────┐
│ Summary │
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Build Architecture: armhf
Build-Space: 21052
Build-Time: 141
Distribution: stretch-staging
Host Architecture: armhf
Install-Time: 352
Job: snp-sites_2.1.3-2
Machine Architecture: armhf
Package: snp-sites
Package-Time: 535
Source-Version: 2.1.3-2
Space: 21052
Status: successful
Version: 2.1.3-2
────────────────────────────────────────────────────────────────────────────────
Finished at 20160205-1115
Build needed 00:08:55, 21052k disc space