eigensoft →
6.1.2+dfsg-1 →
armhf → 2016-07-26 12:20:02
sbuild (Debian sbuild) 0.66.0 (04 Oct 2015) on bm-wb-03
+==============================================================================+
| eigensoft 6.1.2+dfsg-1 (armhf) 26 Jul 2016 12:11 |
+==============================================================================+
Package: eigensoft
Version: 6.1.2+dfsg-1
Source Version: 6.1.2+dfsg-1
Distribution: stretch-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'build/eigensoft-2IQcm1/eigensoft-6.1.2+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/eigensoft-2IQcm1' with '<<BUILDDIR>>'
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/stretch-staging-armhf-sbuild-ab747e54-67a9-4add-a304-e0cfdcdbf911' 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 [9190 kB]
Get:3 http://172.17.0.1/private stretch-staging/main armhf Packages [11.1 MB]
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| Fetch source files |
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Check APT
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Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'eigensoft' packaging is maintained in the 'Git' version control system at:
https://anonscm.debian.org/git/debian-med/eigensoft.git
Please use:
git clone https://anonscm.debian.org/git/debian-med/eigensoft.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 162 kB of source archives.
Get:1 http://172.17.0.1/private stretch-staging/main eigensoft 6.1.2+dfsg-1 (dsc) [2107 B]
Get:2 http://172.17.0.1/private stretch-staging/main eigensoft 6.1.2+dfsg-1 (tar) [154 kB]
Get:3 http://172.17.0.1/private stretch-staging/main eigensoft 6.1.2+dfsg-1 (diff) [5668 B]
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Download complete and in download only mode
Check architectures
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Check dependencies
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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-mtOM1d/apt_archive/sbuild-build-depends-core-dummy.deb'.
Warning: apt-key output should not be parsed (stdout is not a terminal)
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Get:1 file:/<<BUILDDIR>>/resolver-mtOM1d/apt_archive ./ InRelease
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Get:3 file:/<<BUILDDIR>>/resolver-mtOM1d/apt_archive ./ Release.gpg [299 B]
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Get:5 file:/<<BUILDDIR>>/resolver-mtOM1d/apt_archive ./ Packages [528 B]
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| Install core build dependencies (apt-based resolver) |
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Installing build dependencies
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Building dependency tree...
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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 40 not upgraded.
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Merged Build-Depends: debhelper (>= 9), gfortran, libblas-dev, liblapack-dev, liblapacke-dev, libgsl-dev
Filtered Build-Depends: debhelper (>= 9), gfortran, libblas-dev, liblapack-dev, liblapacke-dev, libgsl-dev
dpkg-deb: building package 'sbuild-build-depends-eigensoft-dummy' in '/<<BUILDDIR>>/resolver-dFC4Kz/apt_archive/sbuild-build-depends-eigensoft-dummy.deb'.
Warning: apt-key output should not be parsed (stdout is not a terminal)
OK
Get:1 file:/<<BUILDDIR>>/resolver-dFC4Kz/apt_archive ./ InRelease
Ign:1 file:/<<BUILDDIR>>/resolver-dFC4Kz/apt_archive ./ InRelease
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Get:3 file:/<<BUILDDIR>>/resolver-dFC4Kz/apt_archive ./ Release.gpg [299 B]
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Get:5 file:/<<BUILDDIR>>/resolver-dFC4Kz/apt_archive ./ Packages [558 B]
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+------------------------------------------------------------------------------+
| Install eigensoft build dependencies (apt-based resolver) |
+------------------------------------------------------------------------------+
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils debhelper
dh-autoreconf dh-strip-nondeterminism file gettext gettext-base gfortran
gfortran-5 groff-base intltool-debian libarchive-zip-perl libblas-common
libblas-dev libblas3 libbsd0 libcroco3 libffi6
libfile-stripnondeterminism-perl libgfortran-5-dev libgfortran3 libglib2.0-0
libgsl-dev libgsl2 libicu55 liblapack-dev liblapack3 liblapacke
liblapacke-dev libmagic1 libpipeline1 libsigsegv2 libtimedate-perl
libtmglib-dev libtmglib3 libtool libunistring0 libxml2 m4 man-db po-debconf
Suggested packages:
autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev gfortran-doc
gfortran-5-doc libgfortran3-dbg groff liblapack-doc-man liblapack-doc
gsl-ref-psdoc | gsl-doc-pdf | gsl-doc-info | gsl-ref-html libtool-doc
gcj-jdk less www-browser libmail-box-perl
Recommended packages:
curl | wget | lynx-cur libglib2.0-data shared-mime-info xdg-user-dirs
libltdl-dev xml-core libmail-sendmail-perl
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils debhelper
dh-autoreconf dh-strip-nondeterminism file gettext gettext-base gfortran
gfortran-5 groff-base intltool-debian libarchive-zip-perl libblas-common
libblas-dev libblas3 libbsd0 libcroco3 libffi6
libfile-stripnondeterminism-perl libgfortran-5-dev libgfortran3 libglib2.0-0
libgsl-dev libgsl2 libicu55 liblapack-dev liblapack3 liblapacke
liblapacke-dev libmagic1 libpipeline1 libsigsegv2 libtimedate-perl
libtmglib-dev libtmglib3 libtool libunistring0 libxml2 m4 man-db po-debconf
sbuild-build-depends-eigensoft-dummy
0 upgraded, 46 newly installed, 0 to remove and 40 not upgraded.
Need to get 40.4 MB/47.8 MB of archives.
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Get:1 file:/<<BUILDDIR>>/resolver-dFC4Kz/apt_archive ./ sbuild-build-depends-eigensoft-dummy 0.invalid.0 [798 B]
Get:2 http://172.17.0.1/private stretch-staging/main armhf groff-base armhf 1.22.3-8 [1087 kB]
Get:3 http://172.17.0.1/private stretch-staging/main armhf libbsd0 armhf 0.8.3-1 [89.0 kB]
Get:4 http://172.17.0.1/private stretch-staging/main armhf bsdmainutils armhf 9.0.10 [177 kB]
Get:5 http://172.17.0.1/private stretch-staging/main armhf libpipeline1 armhf 1.4.1-2 [23.7 kB]
Get:6 http://172.17.0.1/private stretch-staging/main armhf man-db armhf 2.7.5-1 [975 kB]
Get:7 http://172.17.0.1/private stretch-staging/main armhf libmagic1 armhf 1:5.28-2 [269 kB]
Get:8 http://172.17.0.1/private stretch-staging/main armhf file armhf 1:5.28-2 [62.4 kB]
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Get:10 http://172.17.0.1/private stretch-staging/main armhf libxml2 armhf 2.9.4+dfsg1-1 [804 kB]
Get:11 http://172.17.0.1/private stretch-staging/main armhf libsigsegv2 armhf 2.10-5 [28.4 kB]
Get:12 http://172.17.0.1/private stretch-staging/main armhf m4 armhf 1.4.17-5 [239 kB]
Get:13 http://172.17.0.1/private stretch-staging/main armhf autoconf all 2.69-10 [338 kB]
Get:14 http://172.17.0.1/private stretch-staging/main armhf autotools-dev all 20160430.1 [72.6 kB]
Get:15 http://172.17.0.1/private stretch-staging/main armhf automake all 1:1.15-4 [735 kB]
Get:16 http://172.17.0.1/private stretch-staging/main armhf autopoint all 0.19.8.1-1 [433 kB]
Get:17 http://172.17.0.1/private stretch-staging/main armhf libglib2.0-0 armhf 2.48.1-2 [2546 kB]
Get:18 http://172.17.0.1/private stretch-staging/main armhf libcroco3 armhf 0.6.11-1 [131 kB]
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Get:20 http://172.17.0.1/private stretch-staging/main armhf gettext armhf 0.19.8.1-1 [1433 kB]
Get:21 http://172.17.0.1/private stretch-staging/main armhf intltool-debian all 0.35.0+20060710.4 [26.3 kB]
Get:22 http://172.17.0.1/private stretch-staging/main armhf po-debconf all 1.0.19 [249 kB]
Get:23 http://172.17.0.1/private stretch-staging/main armhf libarchive-zip-perl all 1.57-1 [95.1 kB]
Get:24 http://172.17.0.1/private stretch-staging/main armhf libfile-stripnondeterminism-perl all 0.019-1 [12.2 kB]
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Get:26 http://172.17.0.1/private stretch-staging/main armhf dh-strip-nondeterminism all 0.019-1 [7352 B]
Get:27 http://172.17.0.1/private stretch-staging/main armhf libtool all 2.4.6-0.1 [200 kB]
Get:28 http://172.17.0.1/private stretch-staging/main armhf dh-autoreconf all 12 [15.8 kB]
Get:29 http://172.17.0.1/private stretch-staging/main armhf debhelper all 9.20160709 [799 kB]
Get:30 http://172.17.0.1/private stretch-staging/main armhf libgfortran3 armhf 6.1.1-1+rpi1 [166 kB]
Get:31 http://172.17.0.1/private stretch-staging/main armhf libgfortran-5-dev armhf 5.4.0-4 [182 kB]
Get:32 http://172.17.0.1/private stretch-staging/main armhf gfortran-5 armhf 5.4.0-4 [23.7 MB]
Get:33 http://172.17.0.1/private stretch-staging/main armhf gfortran armhf 4:5.3.1-3 [1370 B]
Get:34 http://172.17.0.1/private stretch-staging/main armhf libblas-common armhf 3.6.1-2 [13.9 kB]
Get:35 http://172.17.0.1/private stretch-staging/main armhf libblas3 armhf 3.6.1-2 [112 kB]
Get:36 http://172.17.0.1/private stretch-staging/main armhf libblas-dev armhf 3.6.1-2 [18.9 kB]
Get:37 http://172.17.0.1/private stretch-staging/main armhf libgsl2 armhf 2.1+dfsg-2 [697 kB]
Get:38 http://172.17.0.1/private stretch-staging/main armhf libgsl-dev armhf 2.1+dfsg-2 [812 kB]
Get:39 http://172.17.0.1/private stretch-staging/main armhf liblapack3 armhf 3.6.1-2 [1392 kB]
Get:40 http://172.17.0.1/private stretch-staging/main armhf liblapack-dev armhf 3.6.1-2 [1379 kB]
Get:41 http://172.17.0.1/private stretch-staging/main armhf libtmglib3 armhf 3.6.1-2 [90.3 kB]
Get:42 http://172.17.0.1/private stretch-staging/main armhf liblapacke armhf 3.6.1-2 [261 kB]
Get:43 http://172.17.0.1/private stretch-staging/main armhf libtmglib-dev armhf 3.6.1-2 [91.7 kB]
Get:44 http://172.17.0.1/private stretch-staging/main armhf liblapacke-dev armhf 3.6.1-2 [235 kB]
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Setting up gettext-base (0.19.8.1-1) ...
Setting up libpipeline1:armhf (1.4.1-2) ...
Setting up libgsl2:armhf (2.1+dfsg-2) ...
Setting up m4 (1.4.17-5) ...
Setting up libbsd0:armhf (0.8.3-1) ...
Setting up libxml2:armhf (2.9.4+dfsg1-1) ...
Setting up libgfortran-5-dev:armhf (5.4.0-4) ...
Setting up libmagic1:armhf (1:5.28-2) ...
Setting up libblas3 (3.6.1-2) ...
update-alternatives: using /usr/lib/libblas/libblas.so.3 to provide /usr/lib/libblas.so.3 (libblas.so.3) in auto mode
Setting up autotools-dev (20160430.1) ...
Setting up libunistring0:armhf (0.9.6+really0.9.3-0.1) ...
Setting up libffi6:armhf (3.2.1-4) ...
Setting up bsdmainutils (9.0.10) ...
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 autopoint (0.19.8.1-1) ...
Setting up libfile-stripnondeterminism-perl (0.019-1) ...
Setting up libgsl-dev (2.1+dfsg-2) ...
Setting up liblapack3 (3.6.1-2) ...
update-alternatives: using /usr/lib/lapack/liblapack.so.3 to provide /usr/lib/liblapack.so.3 (liblapack.so.3) in auto mode
Setting up libglib2.0-0:armhf (2.48.1-2) ...
No schema files found: doing nothing.
Setting up gfortran-5 (5.4.0-4) ...
Setting up autoconf (2.69-10) ...
Setting up file (1:5.28-2) ...
Setting up libcroco3:armhf (0.6.11-1) ...
Setting up automake (1:1.15-4) ...
update-alternatives: using /usr/bin/automake-1.15 to provide /usr/bin/automake (automake) in auto mode
Setting up man-db (2.7.5-1) ...
Not building database; man-db/auto-update is not 'true'.
Setting up libtool (2.4.6-0.1) ...
Setting up gfortran (4:5.3.1-3) ...
update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode
update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode
Setting up libtmglib3 (3.6.1-2) ...
Setting up gettext (0.19.8.1-1) ...
Setting up libblas-dev (3.6.1-2) ...
update-alternatives: using /usr/lib/libblas/libblas.so to provide /usr/lib/libblas.so (libblas.so) in auto mode
Setting up intltool-debian (0.35.0+20060710.4) ...
Setting up liblapacke (3.6.1-2) ...
Setting up liblapack-dev (3.6.1-2) ...
update-alternatives: using /usr/lib/lapack/liblapack.so to provide /usr/lib/liblapack.so (liblapack.so) in auto mode
Setting up po-debconf (1.0.19) ...
Setting up libtmglib-dev (3.6.1-2) ...
Setting up liblapacke-dev (3.6.1-2) ...
Setting up dh-autoreconf (12) ...
Setting up dh-strip-nondeterminism (0.019-1) ...
Setting up debhelper (9.20160709) ...
Setting up sbuild-build-depends-eigensoft-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.23-1+rpi1) ...
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_2.26.1-1 dpkg-dev_1.18.7 g++-5_5.4.0-4 gcc-5_5.4.0-4 libc6-dev_2.23-1+rpi1 libstdc++-5-dev_5.4.0-4 libstdc++6_6.1.1-1+rpi1 linux-libc-dev_3.18.5-1~exp1+rpi19+stretch
Package versions: adduser_3.115 apt_1.3~pre2 autoconf_2.69-10 automake_1:1.15-4 autopoint_0.19.8.1-1 autotools-dev_20160430.1 base-files_9.6+rpi1 base-passwd_3.5.39 bash_4.3-15 binutils_2.26.1-1 bsdmainutils_9.0.10 bsdutils_1:2.28-5 build-essential_11.7 bzip2_1.0.6-8 console-setup_1.146 console-setup-linux_1.146 coreutils_8.25-2 cpio_2.11+dfsg-5 cpp_4:5.3.1-3 cpp-5_5.4.0-4 dash_0.5.8-2.3 debconf_1.5.59 debfoster_2.7-2 debhelper_9.20160709 debianutils_4.8 dh-autoreconf_12 dh-strip-nondeterminism_0.019-1 diffutils_1:3.3-3 dmsetup_2:1.02.127-1 dpkg_1.18.7 dpkg-dev_1.18.7 e2fslibs_1.43.1-1 e2fsprogs_1.43.1-1 fakeroot_1.21-1 file_1:5.28-2 findutils_4.6.0+git+20160517-5 fuse2fs_1.43.1-1 g++_4:5.3.1-3 g++-5_5.4.0-4 gcc_4:5.3.1-3 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_4.9.3-14 gcc-5_5.4.0-4 gcc-5-base_5.4.0-4 gcc-6-base_6.1.1-1+rpi1 gettext_0.19.8.1-1 gettext-base_0.19.8.1-1 gfortran_4:5.3.1-3 gfortran-5_5.4.0-4 gnupg_1.4.20-6 gpgv_1.4.20-6 grep_2.25-6 groff-base_1.22.3-8 gzip_1.6-5 hostname_3.18 ifupdown_0.8.13 init_1.36 init-system-helpers_1.36 initscripts_2.88dsf-59.7 insserv_1.14.0-5.3 intltool-debian_0.35.0+20060710.4 iproute2_4.3.0-1 kbd_2.0.3-2 keyboard-configuration_1.146 klibc-utils_2.0.4-9+rpi1 kmod_22-1.1 libacl1_2.2.52-3 libapparmor1_2.10.95-4 libapt-pkg5.0_1.3~pre2 libarchive-zip-perl_1.57-1 libasan2_5.4.0-4 libatm1_1:2.5.1-1.6 libatomic1_6.1.1-1+rpi1 libattr1_1:2.4.47-2 libaudit-common_1:2.5.2-1+rpi1 libaudit1_1:2.5.2-1+rpi1 libblas-common_3.6.1-2 libblas-dev_3.6.1-2 libblas3_3.6.1-2 libblkid1_2.28-5 libbsd0_0.8.3-1 libbz2-1.0_1.0.6-8 libc-bin_2.23-1+rpi1 libc-dev-bin_2.23-1+rpi1 libc6_2.23-1+rpi1 libc6-dev_2.23-1+rpi1 libcap2_1:2.25-1 libcap2-bin_1:2.25-1 libcc1-0_6.1.1-1+rpi1 libcomerr2_1.43.1-1 libcroco3_0.6.11-1 libcryptsetup4_2:1.7.0-2 libdb5.3_5.3.28-11 libdbus-1-3_1.10.8-1 libdebconfclient0_0.213 libdevmapper1.02.1_2:1.02.127-1 libdpkg-perl_1.18.7 libdrm2_2.4.68-1 libfakeroot_1.21-1 libfdisk1_2.28-5 libffi6_3.2.1-4 libfile-stripnondeterminism-perl_0.019-1 libfuse2_2.9.7-1 libgc1c2_1:7.4.2-8 libgcc-5-dev_5.4.0-4 libgcc1_1:6.1.1-1+rpi1 libgcrypt20_1.7.1-2 libgdbm3_1.8.3-14 libgfortran-5-dev_5.4.0-4 libgfortran3_6.1.1-1+rpi1 libglib2.0-0_2.48.1-2 libgmp10_2:6.1.1+dfsg-1 libgomp1_6.1.1-1+rpi1 libgpg-error0_1.23-1 libgsl-dev_2.1+dfsg-2 libgsl2_2.1+dfsg-2 libicu55_55.1-7 libidn11_1.32-3.1 libisl15_0.17.1-1 libklibc_2.0.4-9+rpi1 libkmod2_22-1.1 liblapack-dev_3.6.1-2 liblapack3_3.6.1-2 liblapacke_3.6.1-2 liblapacke-dev_3.6.1-2 liblocale-gettext-perl_1.07-3 liblz4-1_0.0~r131-2 liblzma5_5.1.1alpha+20120614-2.1 libmagic1_1:5.28-2 libmount1_2.28-5 libmpc3_1.0.3-1 libmpfr4_3.1.4-2 libncurses5_6.0+20160319-2 libncursesw5_6.0+20160319-2 libpam-modules_1.1.8-3.3 libpam-modules-bin_1.1.8-3.3 libpam-runtime_1.1.8-3.3 libpam0g_1.1.8-3.3 libpcre3_2:8.38-3.1 libperl5.22_5.22.2-2 libpipeline1_1.4.1-2 libplymouth4_0.9.2-3 libpng12-0_1.2.54-6 libprocps5_2:3.3.11-3 libreadline6_6.3-8+b3 libseccomp2_2.3.1-2 libselinux1_2.5-3 libsemanage-common_2.5-1 libsemanage1_2.5-1 libsepol1_2.5-1 libsigsegv2_2.10-5 libsmartcols1_2.28-5 libss2_1.43.1-1 libstdc++-5-dev_5.4.0-4 libstdc++6_6.1.1-1+rpi1 libsystemd0_230-5 libtimedate-perl_2.3000-2 libtinfo5_6.0+20160319-2 libtmglib-dev_3.6.1-2 libtmglib3_3.6.1-2 libtool_2.4.6-0.1 libubsan0_6.1.1-1+rpi1 libudev1_230-5 libunistring0_0.9.6+really0.9.3-0.1 libusb-0.1-4_2:0.1.12-30 libustr-1.0-1_1.0.4-5 libuuid1_2.28-5 libxml2_2.9.4+dfsg1-1 linux-libc-dev_3.18.5-1~exp1+rpi19+stretch login_1:4.2-3.1 lsb-base_9.20160629+rpi1 m4_1.4.17-5 make_4.1-9 makedev_2.3.1-93 man-db_2.7.5-1 manpages_4.06-1 mawk_1.3.3-17 mount_2.28-5 multiarch-support_2.23-1+rpi1 ncurses-base_6.0+20160319-2 ncurses-bin_6.0+20160319-2 netbase_5.3 passwd_1:4.2-3.1 patch_2.7.5-1 perl_5.22.2-2 perl-base_5.22.2-2 perl-modules-5.22_5.22.2-2 po-debconf_1.0.19 procps_2:3.3.11-3 psmisc_22.21-2.1 raspbian-archive-keyring_20120528.2 readline-common_6.3-8 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-eigensoft-dummy_0.invalid.0 sed_4.2.2-7.1 sensible-utils_0.0.9 startpar_0.59-3 systemd_230-5 systemd-sysv_230-5 sysv-rc_2.88dsf-59.7 sysvinit-utils_2.88dsf-59.7 tar_1.29-1+rpi1 tzdata_2016f-1 udev_230-5 util-linux_2.28-5 xkb-data_2.17-1 xz-utils_5.1.1alpha+20120614-2.1 zlib1g_1:1.2.8.dfsg-2+b1
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error
gpgv: Signature made Thu Jul 21 06:50:42 2016 UTC using RSA key ID D1C646D1
gpgv: Can't check signature: public key not found
dpkg-source: warning: failed to verify signature on ./eigensoft_6.1.2+dfsg-1.dsc
dpkg-source: info: extracting eigensoft in eigensoft-6.1.2+dfsg
dpkg-source: info: unpacking eigensoft_6.1.2+dfsg.orig.tar.xz
dpkg-source: info: unpacking eigensoft_6.1.2+dfsg-1.debian.tar.xz
dpkg-source: info: applying blas.patch
dpkg-source: info: applying libm.patch
dpkg-source: info: applying lapacke.patch
dpkg-source: info: applying fixing_headers.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-ab747e54-67a9-4add-a304-e0cfdcdbf911
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=linux
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package eigensoft
dpkg-buildpackage: info: source version 6.1.2+dfsg-1
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build eigensoft-6.1.2+dfsg
dpkg-buildpackage: info: host architecture armhf
fakeroot debian/rules clean
dh clean
dh_testdir
dh_auto_clean
debian/rules override_dh_clean
make[1]: Entering directory '/<<BUILDDIR>>/eigensoft-6.1.2+dfsg'
dh_clean
/usr/bin/make -C src clobber
make[2]: Entering directory '/<<BUILDDIR>>/eigensoft-6.1.2+dfsg/src'
rm -f *.o */*.o */*.a
rm -f baseprog convertf mergeit pca eigensrc/pcatoy eigensrc/smartrel eigensrc/smarteigenstrat eigensrc/twstats eigensrc/eigenstrat eigensrc/eigenstratQTL eigensrc/smartpca
cd ../bin/ ; rm -f baseprog convertf mergeit pca pcatoy smartrel smarteigenstrat twstats eigenstrat eigenstratQTL smartpca ; cd ../src
make[2]: Leaving directory '/<<BUILDDIR>>/eigensoft-6.1.2+dfsg/src'
make[1]: Leaving directory '/<<BUILDDIR>>/eigensoft-6.1.2+dfsg'
debian/rules build-arch
dh build-arch
dh_testdir -a
dh_update_autotools_config -a
dh_auto_configure -a
debian/rules override_dh_auto_build
make[1]: Entering directory '/<<BUILDDIR>>/eigensoft-6.1.2+dfsg'
/usr/bin/make DEBUG_OPTIONS=-g -C src all
make[2]: Entering directory '/<<BUILDDIR>>/eigensoft-6.1.2+dfsg/src'
cc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I../include -Wdate-time -D_FORTIFY_SOURCE=2 -c -o baseprog.o baseprog.c
cc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I../include -Wdate-time -D_FORTIFY_SOURCE=2 -c -o mcio.o mcio.c
mcio.c: In function 'getgenos':
mcio.c:1391:7: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result]
system (cmd);
^
cc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I../include -Wdate-time -D_FORTIFY_SOURCE=2 -c -o egsubs.o egsubs.c
cc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I../include -Wdate-time -D_FORTIFY_SOURCE=2 -c -o admutils.o admutils.c
admutils.c: In function 'setid2pops':
admutils.c:1288:19: warning: format '%s' expects a matching 'char *' argument [-Wformat=]
printf ("(setid2pops): %s not found\n");
^
cc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I../include -Wdate-time -D_FORTIFY_SOURCE=2 -c -o h2d.o h2d.c
cc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I../include -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/exclude.o eigensrc/exclude.c
/usr/bin/make -C nicksrc
make[3]: Entering directory '/<<BUILDDIR>>/eigensoft-6.1.2+dfsg/src/nicksrc'
cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o gauss.o gauss.c
cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o gds.o gds.c
gds.c: In function 'ewens':
gds.c:412:5: warning: 'return' with no value, in function returning non-void
return;
^
cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o getpars.o getpars.c
cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o linsubs.o linsubs.c
cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o sortit.o sortit.c
cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o statsubs.o statsubs.c
cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o strsubs.o strsubs.c
cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o vsubs.o vsubs.c
cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o xsearch.o xsearch.c
cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o twtable.o twtable.c
ar -r libnick.a gauss.o gds.o getpars.o linsubs.o sortit.o statsubs.o strsubs.o vsubs.o xsearch.o twtable.o
ar: creating libnick.a
make[3]: Leaving directory '/<<BUILDDIR>>/eigensoft-6.1.2+dfsg/src/nicksrc'
cc -Wl,-z,relro -Wl,-z,now baseprog.o mcio.o egsubs.o admutils.o h2d.o eigensrc/exclude.o nicksrc/libnick.a -lgsl -lblas -lgfortran -lrt -lm -llapacke -llapack -pthread -o baseprog
cc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I../include -Wdate-time -D_FORTIFY_SOURCE=2 -c -o convertf.o convertf.c
cc -Wl,-z,relro -Wl,-z,now convertf.o mcio.o egsubs.o admutils.o h2d.o eigensrc/exclude.o nicksrc/libnick.a -lgsl -lblas -lgfortran -lrt -lm -llapacke -llapack -pthread -o convertf
cc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I../include -Wdate-time -D_FORTIFY_SOURCE=2 -c -o mergeit.o mergeit.c
cc -Wl,-z,relro -Wl,-z,now mergeit.o mcio.o admutils.o nicksrc/libnick.a -lgsl -lblas -lgfortran -lrt -lm -llapacke -llapack -pthread -o mergeit
cc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I../include -Wdate-time -D_FORTIFY_SOURCE=2 -c -o pca.o pca.c
pca.c: In function 'main':
pca.c:110:7: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
fscanf (fp, "%c", &Xchar);
^
pca.c:186:15: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
fscanf (fp, "%c", &Xchar);
^
pca.c:216:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
fscanf (fp, "%c", &Xchar); /* should be \n character */
^
cc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I../include -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/eigsubs.o eigensrc/eigsubs.c
cc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I../include -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigx.o eigx.c
cc -Wl,-z,relro -Wl,-z,now pca.o eigensrc/eigsubs.o eigx.o nicksrc/libnick.a -lgsl -lblas -lgfortran -lrt -lm -llapacke -llapack -pthread -o pca
cc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I../include -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/pcatoy.o eigensrc/pcatoy.c
cc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I../include -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/eigx.o eigensrc/eigx.c
cc -Wl,-z,relro -Wl,-z,now eigensrc/pcatoy.o eigensrc/eigsubs.o eigensrc/eigx.o nicksrc/libnick.a -lgsl -lblas -lgfortran -lrt -lm -llapacke -llapack -pthread -o eigensrc/pcatoy
cc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I../include -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/smartrel.o eigensrc/smartrel.c
cc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I../include -Wdate-time -D_FORTIFY_SOURCE=2 -c -o twsubs.o twsubs.c
cc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I../include -Wdate-time -D_FORTIFY_SOURCE=2 -c -o qpsubs.o qpsubs.c
qpsubs.c: In function 'doinbreed':
qpsubs.c:2507:3: warning: 'return' with no value, in function returning non-void
return;
^
cc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I../include -Wdate-time -D_FORTIFY_SOURCE=2 -c -o regsubs.o regsubs.c
cc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I../include -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/smartsubs.o eigensrc/smartsubs.c
cc -Wl,-z,relro -Wl,-z,now eigensrc/smartrel.o twsubs.o mcio.o qpsubs.o admutils.o egsubs.o regsubs.o eigensrc/eigsubs.o eigensrc/eigx.o eigensrc/smartsubs.o nicksrc/libnick.a -lgsl -lblas -lgfortran -lrt -lm -llapacke -llapack -pthread -o eigensrc/smartrel
cc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I../include -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/smarteigenstrat.o eigensrc/smarteigenstrat.c
eigensrc/smarteigenstrat.c: In function 'readpcafile':
eigensrc/smarteigenstrat.c:355:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
fscanf (fppca, "%d", &K);
^
eigensrc/smarteigenstrat.c:363:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
fscanf (fppca, "%lf", &tempdouble); /* eigenvalues */
^
eigensrc/smarteigenstrat.c:367:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
fscanf (fppca, "%lf", &V[NSAMPLES * n + k]);
^
eigensrc/smarteigenstrat.c:386:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
fscanf (fppca, "%lf", &tempdouble);
^
cc -Wl,-z,relro -Wl,-z,now eigensrc/smarteigenstrat.o mcio.o admutils.o nicksrc/libnick.a -lgsl -lblas -lgfortran -lrt -lm -llapacke -llapack -pthread -o eigensrc/smarteigenstrat
cc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I../include -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/twstats.o eigensrc/twstats.c
cc -Wl,-z,relro -Wl,-z,now eigensrc/twstats.o nicksrc/libnick.a -lgsl -lblas -lgfortran -lrt -lm -llapacke -llapack -pthread -o eigensrc/twstats
cc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I../include -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/eigenstrat.o eigensrc/eigenstrat.c
eigensrc/eigenstrat.c: In function 'main':
eigensrc/eigenstrat.c:94:7: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
fscanf (fp, "%c", &Xchar);
^
eigensrc/eigenstrat.c:136:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
fscanf (fppca, "%d", &K);
^
eigensrc/eigenstrat.c:144:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
fscanf (fppca, "%lf", &tempdouble); /* eigenvalues */
^
eigensrc/eigenstrat.c:148:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
fscanf (fppca, "%lf", &V[NSAMPLES * n + k]);
^
eigensrc/eigenstrat.c:167:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
fscanf (fppca, "%lf", &tempdouble);
^
eigensrc/eigenstrat.c:184:7: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
fscanf (fppheno, "%c", &Xchar);
^
eigensrc/eigenstrat.c:212:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
fscanf (fppheno, "%c", &Xchar); /* should be end of file */
^
eigensrc/eigenstrat.c:278:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
fscanf (fp, "%c", &Xchar);
^
eigensrc/eigenstrat.c:306:7: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
fscanf (fp, "%c", &Xchar); /* should be \n character */
^
cc -Wl,-z,relro -Wl,-z,now eigensrc/eigenstrat.o -lgsl -lblas -lgfortran -lrt -lm -llapacke -llapack -pthread -o eigensrc/eigenstrat
cc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I../include -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/eigenstratQTL.o eigensrc/eigenstratQTL.c
eigensrc/eigenstratQTL.c: In function 'main':
eigensrc/eigenstratQTL.c:94:7: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
fscanf (fp, "%c", &Xchar);
^
eigensrc/eigenstratQTL.c:136:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
fscanf (fppca, "%d", &K);
^
eigensrc/eigenstratQTL.c:144:5: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
fscanf (fppca, "%lf", &tempdouble); /* eigenvalues */
^
eigensrc/eigenstratQTL.c:148:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
fscanf (fppca, "%lf", &V[NSAMPLES * n + k]);
^
eigensrc/eigenstratQTL.c:167:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
fscanf (fppca, "%lf", &tempdouble);
^
eigensrc/eigenstratQTL.c:192:7: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
fscanf (fppheno, "%lf", &iscase[n]); /* QTL phenotype */
^
eigensrc/eigenstratQTL.c:194:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
fscanf (fppheno, "%lf", &tempdouble); /* to check # entries */
^
eigensrc/eigenstratQTL.c:257:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
fscanf (fp, "%c", &Xchar);
^
eigensrc/eigenstratQTL.c:285:7: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
fscanf (fp, "%c", &Xchar); /* should be \n character */
^
cc -Wl,-z,relro -Wl,-z,now eigensrc/eigenstratQTL.o -lgsl -lblas -lgfortran -lrt -lm -llapacke -llapack -pthread -o eigensrc/eigenstratQTL
cc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I../include -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/smartpca.o eigensrc/smartpca.c
eigensrc/smartpca.c: In function 'main':
eigensrc/smartpca.c:664:7: warning: implicit declaration of function 'setid2pops' [-Wimplicit-function-declaration]
setid2pops (id2pops, indivmarkers, numindivs);
^
eigensrc/smartpca.c:825:7: warning: implicit declaration of function 'kjg_fpca' [-Wimplicit-function-declaration]
kjg_fpca (numeigs, fastdim, fastiter, evals, evecs);
^
eigensrc/smartpca.c:624:7: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result]
system (buff);
^
cc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I../include -Wdate-time -D_FORTIFY_SOURCE=2 -c -o gval.o gval.c
gval.c: In function 'setgval':
gval.c:69:7: warning: implicit declaration of function 'getcolxz' [-Wimplicit-function-declaration]
getcolxz (cc, cupt, xindex, xtypes, nrows, i, xmean, xfancy, &n0, &n1);
^
cc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I../include -Wdate-time -D_FORTIFY_SOURCE=2 -c -o ksrc/kjg_fpca.o ksrc/kjg_fpca.c
cc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I../include -Wdate-time -D_FORTIFY_SOURCE=2 -c -o ksrc/kjg_gsl.o ksrc/kjg_gsl.c
ksrc/kjg_gsl.c: In function 'kjg_gsl_matrix_fscanf':
ksrc/kjg_gsl.c:38:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
fscanf (stream, "%lg", &x);
^
cc -Wl,-z,relro -Wl,-z,now eigensrc/smartpca.o eigensrc/eigsubs.o eigensrc/exclude.o eigensrc/smartsubs.o eigensrc/eigx.o twsubs.o mcio.o qpsubs.o admutils.o egsubs.o regsubs.o gval.o nicksrc/libnick.a ksrc/kjg_fpca.o ksrc/kjg_gsl.o -lgsl -lblas -lgfortran -lrt -lm -llapacke -llapack -pthread -o eigensrc/smartpca
make[2]: Leaving directory '/<<BUILDDIR>>/eigensoft-6.1.2+dfsg/src'
cd src && make install
make[2]: Entering directory '/<<BUILDDIR>>/eigensoft-6.1.2+dfsg/src'
mv baseprog convertf mergeit pca eigensrc/pcatoy eigensrc/smartrel eigensrc/smarteigenstrat eigensrc/twstats eigensrc/eigenstrat eigensrc/eigenstratQTL eigensrc/smartpca ../bin
make[2]: Leaving directory '/<<BUILDDIR>>/eigensoft-6.1.2+dfsg/src'
make[1]: Leaving directory '/<<BUILDDIR>>/eigensoft-6.1.2+dfsg'
dh_auto_test -a
fakeroot debian/rules binary-arch
dh binary-arch
dh_testroot -a
dh_prep -a
dh_auto_install -a
debian/rules override_dh_install
make[1]: Entering directory '/<<BUILDDIR>>/eigensoft-6.1.2+dfsg'
dh_install
find debian/eigensoft/usr/share/ -type f -empty -delete
# file consists only from single line with wrong interpreter
find debian/eigensoft/usr/share/ -type f -name HGDP.X.perl -delete
# Fix wrappers and drop *.pl extension in /usr/bin while keeping
# the original name in /usr/lib/debian-med/bin
mkdir -p debian/eigensoft/usr/lib/debian-med/bin
for pl in evec2pca-ped evec2pca smarteigenstrat smartpca ; do \
rm debian/eigensoft/usr/bin/${pl} ; \
sed -i \
-e "s?\(command[[:space:]]*=[[:space:]]*\"\)\(${pl}\)?\1/usr/lib/eigensoft/\2?" \
-e "s?\(cmd[[:space:]]*=[[:space:]]*\"\)\(${pl}\)?\1/usr/lib/eigensoft/\2?" \
-e "s?\(cmd[[:space:]]*=[[:space:]]*\"\)\(evec2pca.*\)\.perl?\1?" \
-e "s?\(${pl}\)\.perl?\1?" \
debian/eigensoft/usr/bin/${pl}.pl ; \
cp -a debian/eigensoft/usr/bin/${pl}.pl debian/eigensoft/usr/bin/${pl} ; \
mv debian/eigensoft/usr/bin/${pl}.pl debian/eigensoft/usr/lib/debian-med/bin ; \
done
rm: cannot remove 'debian/eigensoft/usr/bin/evec2pca-ped': No such file or directory
rm: cannot remove 'debian/eigensoft/usr/bin/evec2pca': No such file or directory
rm debian/eigensoft/usr/bin/gc.pl
make[1]: Leaving directory '/<<BUILDDIR>>/eigensoft-6.1.2+dfsg'
dh_installdocs -a
dh_installchangelogs -a
dh_installexamples -a
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 '/<<BUILDDIR>>/eigensoft-6.1.2+dfsg'
dh_fixperms
find debian/*/usr/share/eigensoft -type f -name "*.perl" -exec chmod +x \{\} \;
make[1]: Leaving directory '/<<BUILDDIR>>/eigensoft-6.1.2+dfsg'
dh_strip -a
dh_makeshlibs -a
dh_shlibdeps -a
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/eigensoft/usr/bin/pcatoy debian/eigensoft/usr/bin/convertf debian/eigensoft/usr/bin/pca debian/eigensoft/usr/bin/smartrel debian/eigensoft/usr/lib/eigensoft/smartpca debian/eigensoft/usr/bin/eigenstratQTL debian/eigensoft/usr/lib/eigensoft/smarteigenstrat debian/eigensoft/usr/bin/eigenstrat debian/eigensoft/usr/bin/baseprog debian/eigensoft/usr/bin/twstats debian/eigensoft/usr/bin/mergeit were not linked against ld-linux-armhf.so.3 (they use none of the library's symbols)
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/eigensoft/usr/bin/pcatoy debian/eigensoft/usr/bin/convertf debian/eigensoft/usr/bin/pca debian/eigensoft/usr/bin/smartrel debian/eigensoft/usr/lib/eigensoft/smartpca debian/eigensoft/usr/bin/eigenstratQTL debian/eigensoft/usr/lib/eigensoft/smarteigenstrat debian/eigensoft/usr/bin/eigenstrat debian/eigensoft/usr/bin/baseprog debian/eigensoft/usr/bin/twstats debian/eigensoft/usr/bin/mergeit were not linked against librt.so.1 (they use none of the library's symbols)
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/eigensoft/usr/bin/pcatoy debian/eigensoft/usr/bin/convertf debian/eigensoft/usr/bin/pca debian/eigensoft/usr/bin/smartrel debian/eigensoft/usr/lib/eigensoft/smartpca debian/eigensoft/usr/bin/eigenstratQTL debian/eigensoft/usr/lib/eigensoft/smarteigenstrat debian/eigensoft/usr/bin/eigenstrat debian/eigensoft/usr/bin/baseprog debian/eigensoft/usr/bin/twstats debian/eigensoft/usr/bin/mergeit were not linked against libgfortran.so.3 (they use none of the library's symbols)
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/eigensoft/usr/bin/pcatoy debian/eigensoft/usr/bin/convertf debian/eigensoft/usr/bin/pca debian/eigensoft/usr/bin/smartrel debian/eigensoft/usr/lib/eigensoft/smartpca debian/eigensoft/usr/bin/eigenstratQTL debian/eigensoft/usr/lib/eigensoft/smarteigenstrat debian/eigensoft/usr/bin/eigenstrat debian/eigensoft/usr/bin/baseprog debian/eigensoft/usr/bin/twstats debian/eigensoft/usr/bin/mergeit were not linked against libblas.so.3 (they use 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
dh_md5sums -a
dh_builddeb -a
dpkg-deb: building package 'eigensoft-dbgsym' in '../eigensoft-dbgsym_6.1.2+dfsg-1_armhf.deb'.
dpkg-deb: building package 'eigensoft' in '../eigensoft_6.1.2+dfsg-1_armhf.deb'.
dpkg-genchanges --build=any -mRaspbian wandboard test autobuilder <root@raspbian.org> >../eigensoft_6.1.2+dfsg-1_armhf.changes
dpkg-genchanges: warning: package eigensoft-dbgsym listed in files list but not in control info
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build eigensoft-6.1.2+dfsg
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 20160726-1219
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
eigensoft_6.1.2+dfsg-1_armhf.changes:
-------------------------------------
Format: 1.8
Date: Tue, 19 Jul 2016 11:23:59 +0200
Source: eigensoft
Binary: eigensoft
Architecture: armhf
Version: 6.1.2+dfsg-1
Distribution: stretch-staging
Urgency: medium
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
eigensoft - reduction of population bias for genetic analyses
Changes:
eigensoft (6.1.2+dfsg-1) unstable; urgency=medium
.
[ Andreas Tille ]
* New upstream version
* Adapt watch file to match new version string
* relicense Debian packaging as BSD-3-clause
* cme fix dpkg-control
* hardening=+bindnow
* Leave only wrapper scripts in /usr/bin, executables go to /usr/lib/eigensoft
* add at least one manpage
* add examples
.
[ Tatiana Malygina ]
* Fix headers
Checksums-Sha1:
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d35391aef731b5b93a4ad1da1119e21e1bad097d 235950 eigensoft_6.1.2+dfsg-1_armhf.deb
Checksums-Sha256:
b2b533132081dfafd1b4d0ec70c809044ce3841f43a4aef16da1afe585ca52e1 817876 eigensoft-dbgsym_6.1.2+dfsg-1_armhf.deb
e4e85f4b82f98979deb4d089bee22393d5944aec64f04b09138fd4c78511a8fb 235950 eigensoft_6.1.2+dfsg-1_armhf.deb
Files:
92f266e8165a54acd9f0760e517bcd53 817876 debug extra eigensoft-dbgsym_6.1.2+dfsg-1_armhf.deb
a9162429d47cf733004eae3b8264bd2d 235950 science optional eigensoft_6.1.2+dfsg-1_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
eigensoft-dbgsym_6.1.2+dfsg-1_armhf.deb
---------------------------------------
new debian package, version 2.0.
size 817876 bytes: control archive=1060 bytes.
864 bytes, 13 lines control
1166 bytes, 11 lines md5sums
Package: eigensoft-dbgsym
Source: eigensoft
Version: 6.1.2+dfsg-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 1088
Depends: eigensoft (= 6.1.2+dfsg-1)
Section: debug
Priority: extra
Homepage: http://www.hsph.harvard.edu/faculty/alkes-price/software/
Description: Debug symbols for eigensoft
Auto-Built-Package: debug-symbols
Build-Ids: 0590e5d1e0d4208eed2a1d652f836db96946be65 05dd9dbb3fa51a7d48ac76e0ba865d4bc95b701a 073811e2d1cad092ca1dee909897130d458b77ee 4b38fa2bf8f8b2c8e50fa5e28326d0a43059e670 5265cb6da26c4a1fef9762a5075131e518ceeb8b 7eaccbca0ef6cfabaf83cbc230d523539546de4d 98374ec982c0afefb76710ecedf50ed2b0731627 9cbfb20508646c98f9ea2f83b183e79d06fa5734 a5e974573e3f0586b8dee3d721fef3fb1e735371 c867030134c52305f0ce405937f5bd4f2ca75754 e3605e7f1a97e33fb1835e6da84fbb3ef76213e1
drwxr-xr-x root/root 0 2016-07-26 12:19 ./
drwxr-xr-x root/root 0 2016-07-26 12:18 ./usr/
drwxr-xr-x root/root 0 2016-07-26 12:18 ./usr/lib/
drwxr-xr-x root/root 0 2016-07-26 12:18 ./usr/lib/debug/
drwxr-xr-x root/root 0 2016-07-26 12:18 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2016-07-26 12:18 ./usr/lib/debug/.build-id/05/
-rw-r--r-- root/root 137844 2016-07-26 12:18 ./usr/lib/debug/.build-id/05/90e5d1e0d4208eed2a1d652f836db96946be65.debug
-rw-r--r-- root/root 29028 2016-07-26 12:18 ./usr/lib/debug/.build-id/05/dd9dbb3fa51a7d48ac76e0ba865d4bc95b701a.debug
drwxr-xr-x root/root 0 2016-07-26 12:18 ./usr/lib/debug/.build-id/07/
-rw-r--r-- root/root 122248 2016-07-26 12:18 ./usr/lib/debug/.build-id/07/3811e2d1cad092ca1dee909897130d458b77ee.debug
drwxr-xr-x root/root 0 2016-07-26 12:18 ./usr/lib/debug/.build-id/4b/
-rw-r--r-- root/root 259796 2016-07-26 12:18 ./usr/lib/debug/.build-id/4b/38fa2bf8f8b2c8e50fa5e28326d0a43059e670.debug
drwxr-xr-x root/root 0 2016-07-26 12:18 ./usr/lib/debug/.build-id/52/
-rw-r--r-- root/root 123636 2016-07-26 12:18 ./usr/lib/debug/.build-id/52/65cb6da26c4a1fef9762a5075131e518ceeb8b.debug
drwxr-xr-x root/root 0 2016-07-26 12:18 ./usr/lib/debug/.build-id/7e/
-rw-r--r-- root/root 12232 2016-07-26 12:18 ./usr/lib/debug/.build-id/7e/accbca0ef6cfabaf83cbc230d523539546de4d.debug
drwxr-xr-x root/root 0 2016-07-26 12:18 ./usr/lib/debug/.build-id/98/
-rw-r--r-- root/root 12040 2016-07-26 12:18 ./usr/lib/debug/.build-id/98/374ec982c0afefb76710ecedf50ed2b0731627.debug
drwxr-xr-x root/root 0 2016-07-26 12:18 ./usr/lib/debug/.build-id/9c/
-rw-r--r-- root/root 128684 2016-07-26 12:18 ./usr/lib/debug/.build-id/9c/bfb20508646c98f9ea2f83b183e79d06fa5734.debug
drwxr-xr-x root/root 0 2016-07-26 12:18 ./usr/lib/debug/.build-id/a5/
-rw-r--r-- root/root 213712 2016-07-26 12:18 ./usr/lib/debug/.build-id/a5/e974573e3f0586b8dee3d721fef3fb1e735371.debug
drwxr-xr-x root/root 0 2016-07-26 12:18 ./usr/lib/debug/.build-id/c8/
-rw-r--r-- root/root 26448 2016-07-26 12:18 ./usr/lib/debug/.build-id/c8/67030134c52305f0ce405937f5bd4f2ca75754.debug
drwxr-xr-x root/root 0 2016-07-26 12:18 ./usr/lib/debug/.build-id/e3/
-rw-r--r-- root/root 25032 2016-07-26 12:18 ./usr/lib/debug/.build-id/e3/605e7f1a97e33fb1835e6da84fbb3ef76213e1.debug
drwxr-xr-x root/root 0 2016-07-26 12:18 ./usr/share/
drwxr-xr-x root/root 0 2016-07-26 12:18 ./usr/share/doc/
lrwxrwxrwx root/root 0 2016-07-26 12:18 ./usr/share/doc/eigensoft-dbgsym -> eigensoft
eigensoft_6.1.2+dfsg-1_armhf.deb
--------------------------------
new debian package, version 2.0.
size 235950 bytes: control archive=3682 bytes.
1151 bytes, 20 lines control
13490 bytes, 164 lines md5sums
Package: eigensoft
Version: 6.1.2+dfsg-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 1781
Depends: libblas3 | libblas.so.3, libc6 (>= 2.23), libgfortran3 (>= 4.3), libgsl2, liblapack3 | liblapack.so.3, liblapacke, perl:any
Recommends: gnuplot
Section: science
Priority: optional
Homepage: http://www.hsph.harvard.edu/faculty/alkes-price/software/
Description: reduction of population bias for genetic analyses
The EIGENSOFT package combines functionality from the group's population
genetics methods (Patterson et al. 2006) and their EIGENSTRAT stratification
method (Price et al. 2006). The EIGENSTRAT method uses principal components
analysis to explicitly model ancestry differences between cases and
controls along continuous axes of variation; the resulting correction is
specific to a candidate marker's variation in frequency across ancestral
populations, minimizing spurious associations while maximizing power to
detect true associations. The EIGENSOFT package has a built-in plotting
script and supports multiple file formats and quantitative phenotypes.
drwxr-xr-x root/root 0 2016-07-26 12:18 ./
drwxr-xr-x root/root 0 2016-07-26 12:18 ./usr/
drwxr-xr-x root/root 0 2016-07-26 12:18 ./usr/bin/
-rwxr-xr-x root/root 177944 2016-07-26 12:18 ./usr/bin/baseprog
-rwxr-xr-x root/root 182168 2016-07-26 12:18 ./usr/bin/convertf
-rwxr-xr-x root/root 9676 2016-07-26 12:18 ./usr/bin/eigenstrat
-rwxr-xr-x root/root 9676 2016-07-26 12:18 ./usr/bin/eigenstratQTL
-rwxr-xr-x root/root 1462 2016-07-26 12:18 ./usr/bin/evec2pca
-rwxr-xr-x root/root 2311 2016-07-26 12:18 ./usr/bin/evec2pca-ped
lrwxrwxrwx root/root 0 2016-07-26 12:18 ./usr/bin/gc-eigensoft -> ../lib/debian-med/bin/gc.pl
-rwxr-xr-x root/root 173880 2016-07-26 12:18 ./usr/bin/mergeit
-rwxr-xr-x root/root 62924 2016-07-26 12:18 ./usr/bin/pca
-rwxr-xr-x root/root 58828 2016-07-26 12:18 ./usr/bin/pcatoy
-rwxr-xr-x root/root 2112 2016-07-26 12:18 ./usr/bin/smarteigenstrat
-rwxr-xr-x root/root 4738 2016-07-26 12:18 ./usr/bin/smartpca
-rwxr-xr-x root/root 239568 2016-07-26 12:18 ./usr/bin/smartrel
-rwxr-xr-x root/root 99828 2016-07-26 12:18 ./usr/bin/twstats
drwxr-xr-x root/root 0 2016-07-26 12:18 ./usr/lib/
drwxr-xr-x root/root 0 2016-07-26 12:18 ./usr/lib/debian-med/
drwxr-xr-x root/root 0 2016-07-26 12:18 ./usr/lib/debian-med/bin/
-rwxr-xr-x root/root 2311 2016-07-26 12:18 ./usr/lib/debian-med/bin/evec2pca-ped.pl
-rwxr-xr-x root/root 1462 2016-07-26 12:18 ./usr/lib/debian-med/bin/evec2pca.pl
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Build Architecture: armhf
Build-Space: 11464
Build-Time: 150
Distribution: stretch-staging
Host Architecture: armhf
Install-Time: 256
Job: eigensoft_6.1.2+dfsg-1
Machine Architecture: armhf
Package: eigensoft
Package-Time: 447
Source-Version: 6.1.2+dfsg-1
Space: 11464
Status: successful
Version: 6.1.2+dfsg-1
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Finished at 20160726-1219
Build needed 00:07:27, 11464k disc space