plink1.9 →
1.90~b3.43-161010-1 →
armhf → 2016-10-30 20:40:22
sbuild (Debian sbuild) 0.71.0 (24 Aug 2016) on testwandboard
+==============================================================================+
| plink1.9 1.90~b3.43-161010-1 (armhf) Sun, 30 Oct 2016 20:18:32 +0000 |
+==============================================================================+
Package: plink1.9
Version: 1.90~b3.43-161010-1
Source Version: 1.90~b3.43-161010-1
Distribution: stretch-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/stretch-staging-armhf-sbuild-3e9db318-1c7f-4c8a-8712-ea01f382453a' 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 [9413 kB]
Get:3 http://172.17.0.1/private stretch-staging/main armhf Packages [11.4 MB]
Fetched 20.8 MB in 29s (709 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Check APT
---------
Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'plink1.9' packaging is maintained in the 'Git' version control system at:
https://anonscm.debian.org/git/debian-med/plink1.9.git
Please use:
git clone https://anonscm.debian.org/git/debian-med/plink1.9.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 749 kB of source archives.
Get:1 http://172.17.0.1/private stretch-staging/main plink1.9 1.90~b3.43-161010-1 (dsc) [2149 B]
Get:2 http://172.17.0.1/private stretch-staging/main plink1.9 1.90~b3.43-161010-1 (tar) [729 kB]
Get:3 http://172.17.0.1/private stretch-staging/main plink1.9 1.90~b3.43-161010-1 (diff) [18.5 kB]
Fetched 749 kB in 0s (1757 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/plink1.9-3oGiJI/plink1.9-1.90~b3.43-161010' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/plink1.9-3oGiJI' with '<<BUILDDIR>>'
+------------------------------------------------------------------------------+
| Install build-essential |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<<BUILDDIR>>/resolver-gTZGyq/apt_archive/sbuild-build-depends-core-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy
dpkg-scanpackages: info: Wrote 1 entries to output Packages file.
gpg: keybox '/<<BUILDDIR>>/resolver-gTZGyq/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-gTZGyq/gpg/trustdb.gpg: trustdb created
gpg: key 35506D9A48F77B2E: public key "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" imported
gpg: Total number processed: 1
gpg: imported: 1
gpg: key 35506D9A48F77B2E: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 35506D9A48F77B2E: secret key imported
gpg: Total number processed: 1
gpg: unchanged: 1
gpg: secret keys read: 1
gpg: secret keys imported: 1
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-gTZGyq/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-gTZGyq/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-gTZGyq/apt_archive ./ Release.gpg [342 B]
Get:4 copy:/<<BUILDDIR>>/resolver-gTZGyq/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-gTZGyq/apt_archive ./ Packages [432 B]
Fetched 2080 B in 0s (3053 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install core build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
dirmngr fuse2fs gnupg-l10n kbd libffi6 libfuse2 libgnutls30 libhogweed4
libldap-2.4-2 libnettle6 libp11-kit0 libsasl2-2 libsasl2-modules
libsasl2-modules-db libssl1.0.2 libtasn1-6 manpages netbase psmisc
Use 'apt autoremove' to remove them.
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 1 not upgraded.
Need to get 768 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-gTZGyq/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [768 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 768 B in 0s (18.7 kB/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 13408 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any-amd64 any-i386 armel armhf mipsel)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper (>= 9), help2man, libatlas-base-dev, liblapack-dev, zlib1g-dev
Filtered Build-Depends: debhelper (>= 9), help2man, libatlas-base-dev, liblapack-dev, zlib1g-dev
dpkg-deb: building package 'sbuild-build-depends-plink1.9-dummy' in '/<<BUILDDIR>>/resolver-gTZGyq/apt_archive/sbuild-build-depends-plink1.9-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-plink1.9-dummy
dpkg-scanpackages: info: Wrote 2 entries to output Packages file.
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-gTZGyq/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-gTZGyq/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-gTZGyq/apt_archive ./ Release.gpg [342 B]
Get:4 copy:/<<BUILDDIR>>/resolver-gTZGyq/apt_archive ./ Sources [519 B]
Get:5 copy:/<<BUILDDIR>>/resolver-gTZGyq/apt_archive ./ Packages [598 B]
Fetched 2422 B in 0s (3679 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install plink1.9 build dependencies (apt-based resolver)
--------------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
dirmngr fuse2fs gnupg-l10n kbd libfuse2 libgnutls30 libhogweed4
libldap-2.4-2 libnettle6 libp11-kit0 libsasl2-2 libsasl2-modules
libsasl2-modules-db libssl1.0.2 libtasn1-6 manpages netbase psmisc
Use 'apt autoremove' to remove them.
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-6 groff-base help2man intltool-debian libarchive-zip-perl
libatlas-base-dev libatlas-dev libatlas3-base libblas-common libblas-dev
libblas3 libbsd0 libcroco3 libfile-stripnondeterminism-perl
libgfortran-6-dev libgfortran3 libglib2.0-0 libicu57 liblapack-dev
liblapack3 liblocale-gettext-perl libmagic-mgc libmagic1 libpipeline1
libsigsegv2 libtimedate-perl libtool libunistring0 libxml2 m4 man-db
po-debconf zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev gfortran-doc
gfortran-6-doc libgfortran3-dbg libcoarrays-dev groff libblas-doc
liblapack-doc liblapack-doc-man 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-6 groff-base help2man intltool-debian libarchive-zip-perl
libatlas-base-dev libatlas-dev libatlas3-base libblas-common libblas-dev
libblas3 libbsd0 libcroco3 libfile-stripnondeterminism-perl
libgfortran-6-dev libgfortran3 libglib2.0-0 libicu57 liblapack-dev
liblapack3 liblocale-gettext-perl libmagic-mgc libmagic1 libpipeline1
libsigsegv2 libtimedate-perl libtool libunistring0 libxml2 m4 man-db
po-debconf sbuild-build-depends-plink1.9-dummy zlib1g-dev
0 upgraded, 46 newly installed, 0 to remove and 1 not upgraded.
Need to get 32.6 MB of archives.
After this operation, 126 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-gTZGyq/apt_archive ./ sbuild-build-depends-plink1.9-dummy 0.invalid.0 [798 B]
Get:2 http://172.17.0.1/private stretch-staging/main armhf liblocale-gettext-perl armhf 1.07-3+b1 [18.3 kB]
Get:3 http://172.17.0.1/private stretch-staging/main armhf groff-base armhf 1.22.3-8 [1087 kB]
Get:4 http://172.17.0.1/private stretch-staging/main armhf libbsd0 armhf 0.8.3-1 [89.0 kB]
Get:5 http://172.17.0.1/private stretch-staging/main armhf bsdmainutils armhf 9.0.11 [177 kB]
Get:6 http://172.17.0.1/private stretch-staging/main armhf libpipeline1 armhf 1.4.1-2 [23.7 kB]
Get:7 http://172.17.0.1/private stretch-staging/main armhf man-db armhf 2.7.5-1 [975 kB]
Get:8 http://172.17.0.1/private stretch-staging/main armhf libmagic-mgc armhf 1:5.28-4 [210 kB]
Get:9 http://172.17.0.1/private stretch-staging/main armhf libmagic1 armhf 1:5.28-4 [104 kB]
Get:10 http://172.17.0.1/private stretch-staging/main armhf file armhf 1:5.28-4 [62.7 kB]
Get:11 http://172.17.0.1/private stretch-staging/main armhf gettext-base armhf 0.19.8.1-1 [117 kB]
Get:12 http://172.17.0.1/private stretch-staging/main armhf libicu57 armhf 57.1-4 [7407 kB]
Get:13 http://172.17.0.1/private stretch-staging/main armhf libxml2 armhf 2.9.4+dfsg1-2 [805 kB]
Get:14 http://172.17.0.1/private stretch-staging/main armhf libsigsegv2 armhf 2.10-5 [28.4 kB]
Get:15 http://172.17.0.1/private stretch-staging/main armhf m4 armhf 1.4.17-5 [239 kB]
Get:16 http://172.17.0.1/private stretch-staging/main armhf autoconf all 2.69-10 [338 kB]
Get:17 http://172.17.0.1/private stretch-staging/main armhf autotools-dev all 20160430.1 [72.6 kB]
Get:18 http://172.17.0.1/private stretch-staging/main armhf automake all 1:1.15-4 [735 kB]
Get:19 http://172.17.0.1/private stretch-staging/main armhf autopoint all 0.19.8.1-1 [433 kB]
Get:20 http://172.17.0.1/private stretch-staging/main armhf libtool all 2.4.6-2 [545 kB]
Get:21 http://172.17.0.1/private stretch-staging/main armhf dh-autoreconf all 12 [15.8 kB]
Get:22 http://172.17.0.1/private stretch-staging/main armhf libarchive-zip-perl all 1.59-1 [95.5 kB]
Get:23 http://172.17.0.1/private stretch-staging/main armhf libfile-stripnondeterminism-perl all 0.028-1 [14.6 kB]
Get:24 http://172.17.0.1/private stretch-staging/main armhf libtimedate-perl all 2.3000-2 [42.2 kB]
Get:25 http://172.17.0.1/private stretch-staging/main armhf dh-strip-nondeterminism all 0.028-1 [9020 B]
Get:26 http://172.17.0.1/private stretch-staging/main armhf libglib2.0-0 armhf 2.50.0-2+rpi1 [2523 kB]
Get:27 http://172.17.0.1/private stretch-staging/main armhf libcroco3 armhf 0.6.11-2 [131 kB]
Get:28 http://172.17.0.1/private stretch-staging/main armhf libunistring0 armhf 0.9.6+really0.9.3-0.1 [252 kB]
Get:29 http://172.17.0.1/private stretch-staging/main armhf gettext armhf 0.19.8.1-1 [1433 kB]
Get:30 http://172.17.0.1/private stretch-staging/main armhf intltool-debian all 0.35.0+20060710.4 [26.3 kB]
Get:31 http://172.17.0.1/private stretch-staging/main armhf po-debconf all 1.0.20 [247 kB]
Get:32 http://172.17.0.1/private stretch-staging/main armhf debhelper all 10.2.2 [826 kB]
Get:33 http://172.17.0.1/private stretch-staging/main armhf libgfortran3 armhf 6.2.0-6+rpi1 [165 kB]
Get:34 http://172.17.0.1/private stretch-staging/main armhf libgfortran-6-dev armhf 6.2.0-6+rpi1 [199 kB]
Get:35 http://172.17.0.1/private stretch-staging/main armhf gfortran-6 armhf 6.2.0-6+rpi1 [5405 kB]
Get:36 http://172.17.0.1/private stretch-staging/main armhf gfortran armhf 4:6.1.1-1 [1370 B]
Get:37 http://172.17.0.1/private stretch-staging/main armhf help2man armhf 1.47.4 [162 kB]
Get:38 http://172.17.0.1/private stretch-staging/main armhf libblas-common armhf 3.6.1-2 [13.9 kB]
Get:39 http://172.17.0.1/private stretch-staging/main armhf libatlas3-base armhf 3.10.3-1+rpi1 [1920 kB]
Get:40 http://172.17.0.1/private stretch-staging/main armhf libblas3 armhf 3.6.1-2 [112 kB]
Get:41 http://172.17.0.1/private stretch-staging/main armhf libblas-dev armhf 3.6.1-2 [18.9 kB]
Get:42 http://172.17.0.1/private stretch-staging/main armhf libatlas-dev armhf 3.10.3-1+rpi1 [65.9 kB]
Get:43 http://172.17.0.1/private stretch-staging/main armhf libatlas-base-dev armhf 3.10.3-1+rpi1 [2528 kB]
Get:44 http://172.17.0.1/private stretch-staging/main armhf liblapack3 armhf 3.6.1-2 [1392 kB]
Get:45 http://172.17.0.1/private stretch-staging/main armhf liblapack-dev armhf 3.6.1-2 [1379 kB]
Get:46 http://172.17.0.1/private stretch-staging/main armhf zlib1g-dev armhf 1:1.2.8.dfsg-2+b1 [197 kB]
debconf: delaying package configuration, since apt-utils is not installed
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(Reading database ... 13408 files and directories currently installed.)
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Unpacking liblapack3 (3.6.1-2) ...
Selecting previously unselected package liblapack-dev.
Preparing to unpack .../43-liblapack-dev_3.6.1-2_armhf.deb ...
Unpacking liblapack-dev (3.6.1-2) ...
Selecting previously unselected package zlib1g-dev:armhf.
Preparing to unpack .../44-zlib1g-dev_1%3a1.2.8.dfsg-2+b1_armhf.deb ...
Unpacking zlib1g-dev:armhf (1:1.2.8.dfsg-2+b1) ...
Selecting previously unselected package sbuild-build-depends-plink1.9-dummy.
Preparing to unpack .../45-sbuild-build-depends-plink1.9-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-plink1.9-dummy (0.invalid.0) ...
Setting up libarchive-zip-perl (1.59-1) ...
Setting up libtimedate-perl (2.3000-2) ...
Setting up libsigsegv2:armhf (2.10-5) ...
Setting up libblas-common (3.6.1-2) ...
Setting up libgfortran3:armhf (6.2.0-6+rpi1) ...
Setting up groff-base (1.22.3-8) ...
Setting up libglib2.0-0:armhf (2.50.0-2+rpi1) ...
No schema files found: doing nothing.
Setting up libgfortran-6-dev:armhf (6.2.0-6+rpi1) ...
Setting up gettext-base (0.19.8.1-1) ...
Setting up libpipeline1:armhf (1.4.1-2) ...
Setting up m4 (1.4.17-5) ...
Setting up libicu57:armhf (57.1-4) ...
Setting up libbsd0:armhf (0.8.3-1) ...
Setting up libxml2:armhf (2.9.4+dfsg1-2) ...
Setting up libmagic-mgc (1:5.28-4) ...
Setting up libmagic1:armhf (1:5.28-4) ...
Setting up libcroco3:armhf (0.6.11-2) ...
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
Processing triggers for libc-bin (2.24-5+rpi1) ...
Setting up autotools-dev (20160430.1) ...
Setting up libunistring0:armhf (0.9.6+really0.9.3-0.1) ...
Setting up liblocale-gettext-perl (1.07-3+b1) ...
Setting up bsdmainutils (9.0.11) ...
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 zlib1g-dev:armhf (1:1.2.8.dfsg-2+b1) ...
Setting up libfile-stripnondeterminism-perl (0.028-1) ...
Setting up libatlas3-base (3.10.3-1+rpi1) ...
update-alternatives: using /usr/lib/atlas-base/atlas/libblas.so.3 to provide /usr/lib/libblas.so.3 (libblas.so.3) in auto mode
update-alternatives: using /usr/lib/atlas-base/atlas/liblapack.so.3 to provide /usr/lib/liblapack.so.3 (liblapack.so.3) in auto mode
Setting up gfortran-6 (6.2.0-6+rpi1) ...
Setting up gettext (0.19.8.1-1) ...
Setting up liblapack3 (3.6.1-2) ...
Setting up autoconf (2.69-10) ...
Setting up file (1:5.28-4) ...
Setting up intltool-debian (0.35.0+20060710.4) ...
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 help2man (1.47.4) ...
Setting up man-db (2.7.5-1) ...
Not building database; man-db/auto-update is not 'true'.
Setting up libtool (2.4.6-2) ...
Setting up gfortran (4:6.1.1-1) ...
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 po-debconf (1.0.20) ...
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 libatlas-dev (3.10.3-1+rpi1) ...
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 libatlas-base-dev (3.10.3-1+rpi1) ...
update-alternatives: using /usr/lib/atlas-base/atlas/libblas.so to provide /usr/lib/libblas.so (libblas.so) in auto mode
update-alternatives: using /usr/lib/atlas-base/atlas/liblapack.so to provide /usr/lib/liblapack.so (liblapack.so) in auto mode
Setting up dh-autoreconf (12) ...
Setting up debhelper (10.2.2) ...
Setting up sbuild-build-depends-plink1.9-dummy (0.invalid.0) ...
Setting up dh-strip-nondeterminism (0.028-1) ...
Processing triggers for libc-bin (2.24-5+rpi1) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.5.0-1-armmp armhf (armv7l)
Toolchain package versions: binutils_2.27-9 dpkg-dev_1.18.10 g++-6_6.2.0-6+rpi1 gcc-6_6.2.0-6+rpi1 libc6-dev_2.24-5+rpi1 libstdc++-6-dev_6.2.0-6+rpi1 libstdc++6_6.2.0-6+rpi1 linux-libc-dev_3.18.5-1~exp1+rpi19+stretch
Package versions: adduser_3.115 apt_1.3.1 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_3.5.40 bash_4.4-1 binutils_2.27-9 bsdmainutils_9.0.11 bsdutils_1:2.28.2-1 build-essential_12.2 bzip2_1.0.6-8 coreutils_8.25-2 cpio_2.11+dfsg-5 cpp_4:6.1.1-1 cpp-6_6.2.0-6+rpi1 dash_0.5.8-2.3 debconf_1.5.59 debfoster_2.7-2.1 debhelper_10.2.2 debianutils_4.8 dh-autoreconf_12 dh-strip-nondeterminism_0.028-1 diffutils_1:3.5-1 dirmngr_2.1.15-4 dmsetup_2:1.02.133-1 dpkg_1.18.10 dpkg-dev_1.18.10 e2fslibs_1.43.3-1 e2fsprogs_1.43.3-1 fakeroot_1.21-2 file_1:5.28-4 findutils_4.6.0+git+20160703-2 fuse2fs_1.43.3-1 g++_4:6.1.1-1 g++-6_6.2.0-6+rpi1 gcc_4:6.1.1-1 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-6_6.2.0-6+rpi1 gcc-6-base_6.2.0-6+rpi1 gettext_0.19.8.1-1 gettext-base_0.19.8.1-1 gfortran_4:6.1.1-1 gfortran-6_6.2.0-6+rpi1 gnupg_2.1.15-4 gnupg-agent_2.1.15-4 gnupg-l10n_2.1.15-4 gpgv_2.1.15-4 grep_2.26-1 groff-base_1.22.3-8 gzip_1.6-5 help2man_1.47.4 hostname_3.18 init_1.45 init-system-helpers_1.45 initscripts_2.88dsf-59.8 insserv_1.14.0-5.4 intltool-debian_0.35.0+20060710.4 kbd_2.0.3-2 klibc-utils_2.0.4-9+rpi1 kmod_22-1.1 libacl1_2.2.52-3 libapparmor1_2.10.95-5 libapt-pkg5.0_1.3.1 libarchive-zip-perl_1.59-1 libasan3_6.2.0-6+rpi1 libassuan0_2.4.3-1 libatlas-base-dev_3.10.3-1+rpi1 libatlas-dev_3.10.3-1+rpi1 libatlas3-base_3.10.3-1+rpi1 libatomic1_6.2.0-6+rpi1 libattr1_1:2.4.47-2 libaudit-common_1:2.6.7-1 libaudit1_1:2.6.7-1 libblas-common_3.6.1-2 libblas-dev_3.6.1-2 libblas3_3.6.1-2 libblkid1_2.28.2-1 libbsd0_0.8.3-1 libbz2-1.0_1.0.6-8 libc-bin_2.24-5+rpi1 libc-dev-bin_2.24-5+rpi1 libc6_2.24-5+rpi1 libc6-dev_2.24-5+rpi1 libcap-ng0_0.7.7-3 libcap2_1:2.25-1 libcap2-bin_1:2.25-1 libcc1-0_6.2.0-6+rpi1 libcomerr2_1.43.3-1 libcroco3_0.6.11-2 libcryptsetup4_2:1.7.2-5 libdb5.3_5.3.28-12 libdbus-1-3_1.10.12-1 libdebconfclient0_0.218 libdevmapper1.02.1_2:1.02.133-1 libdpkg-perl_1.18.10 libdrm2_2.4.71-1 libfakeroot_1.21-2 libfdisk1_2.28.2-1 libffi6_3.2.1-6 libfile-stripnondeterminism-perl_0.028-1 libfuse2_2.9.7-1 libgc1c2_1:7.4.2-8 libgcc-6-dev_6.2.0-6+rpi1 libgcc1_1:6.2.0-6+rpi1 libgcrypt20_1.7.3-2 libgdbm3_1.8.3-14 libgfortran-6-dev_6.2.0-6+rpi1 libgfortran3_6.2.0-6+rpi1 libglib2.0-0_2.50.0-2+rpi1 libgmp10_2:6.1.1+dfsg-1 libgnutls30_3.5.5-2 libgomp1_6.2.0-6+rpi1 libgpg-error0_1.24-1 libhogweed4_3.3-1 libicu57_57.1-4 libidn11_1.33-1 libip4tc0_1.6.0-4 libisl15_0.17.1-1 libklibc_2.0.4-9+rpi1 libkmod2_22-1.1 libksba8_1.3.5-2 liblapack-dev_3.6.1-2 liblapack3_3.6.1-2 libldap-2.4-2_2.4.42+dfsg-2+rpi1+b3 liblocale-gettext-perl_1.07-3+b1 liblz4-1_0.0~r131-2 liblzma5_5.2.2-1.2 libmagic-mgc_1:5.28-4 libmagic1_1:5.28-4 libmount1_2.28.2-1 libmpc3_1.0.3-1 libmpfr4_3.1.5-1 libncurses5_6.0+20160917-1 libncursesw5_6.0+20160917-1 libnettle6_3.3-1 libnpth0_1.2-3 libp11-kit0_0.23.2-5 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_2:8.39-2 libperl5.24_5.24.1~rc3-3 libpipeline1_1.4.1-2 libplymouth4_0.9.2-3 libpng12-0_1.2.54-6 libprocps6_2:3.3.12-2 libreadline7_7.0-1 libsasl2-2_2.1.26.dfsg1-15 libsasl2-modules_2.1.26.dfsg1-15 libsasl2-modules-db_2.1.26.dfsg1-15 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_2.28.2-1 libsqlite3-0_3.14.2-1 libss2_1.43.3-1 libssl1.0.2_1.0.2j-1 libstdc++-6-dev_6.2.0-6+rpi1 libstdc++6_6.2.0-6+rpi1 libsystemd0_231-9 libtasn1-6_4.9-4 libtimedate-perl_2.3000-2 libtinfo5_6.0+20160917-1 libtool_2.4.6-2 libubsan0_6.2.0-6+rpi1 libudev1_231-9 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_2.28.2-1 libxml2_2.9.4+dfsg1-2 linux-libc-dev_3.18.5-1~exp1+rpi19+stretch login_1:4.2-3.2 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_4.08-1 mawk_1.3.3-17 mount_2.28.2-1 multiarch-support_2.24-5+rpi1 ncurses-base_6.0+20160917-1 ncurses-bin_6.0+20160917-1 netbase_5.3 passwd_1:4.2-3.2 patch_2.7.5-1 perl_5.24.1~rc3-3 perl-base_5.24.1~rc3-3 perl-modules-5.24_5.24.1~rc3-3 pinentry-curses_0.9.7-6 po-debconf_1.0.20 procps_2:3.3.12-2 psmisc_22.21-2.1 raspbian-archive-keyring_20120528.2 readline-common_7.0-1 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-plink1.9-dummy_0.invalid.0 sed_4.2.2-8 sensible-utils_0.0.9 startpar_0.59-3.1 systemd_231-9 systemd-sysv_231-9 sysv-rc_2.88dsf-59.8 sysvinit-utils_2.88dsf-59.8 tar_1.29b-1 tzdata_2016h-1 udev_231-9 util-linux_2.28.2-1 xz-utils_5.2.2-1.2 zlib1g_1:1.2.8.dfsg-2+b1 zlib1g-dev_1:1.2.8.dfsg-2+b1
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error
gpgv: Signature made Mon Oct 24 21:09:49 2016 UTC
gpgv: using RSA key 612EF1613E050F54
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./plink1.9_1.90~b3.43-161010-1.dsc
dpkg-source: info: extracting plink1.9 in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking plink1.9_1.90~b3.43-161010.orig.tar.xz
dpkg-source: info: unpacking plink1.9_1.90~b3.43-161010-1.debian.tar.xz
dpkg-source: info: applying 01_Fix_use_dynamic_linking.patch
dpkg-source: info: applying 02_Activate_Stable_Build.patch
Check disc space
----------------
Sufficient free space for build
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LC_ALL=POSIX
LOGNAME=root
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-3e9db318-1c7f-4c8a-8712-ea01f382453a
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=xterm
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package plink1.9
dpkg-buildpackage: info: source version 1.90~b3.43-161010-1
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build plink1.9-1.90~b3.43-161010
dpkg-buildpackage: info: host architecture armhf
fakeroot debian/rules clean
dh clean
dh_testdir
debian/rules override_dh_auto_clean
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_auto_clean
rm -f plink1.9
rm -f plink1.9.1
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_clean
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 '/<<PKGBUILDDIR>>'
/usr/bin/make CFLAGS='-Wall -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -pie -Wl,-z,relro -Wl,-z,now'
make[2]: Entering directory '/<<PKGBUILDDIR>>'
g++ -Wall -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -pie -Wl,-z,relro -Wl,-z,now plink.c plink_assoc.c plink_calc.c plink_cluster.c plink_cnv.c plink_common.c plink_data.c plink_dosage.c plink_family.c plink_filter.c plink_glm.c plink_help.c plink_homozyg.c plink_lasso.c plink_ld.c plink_matrix.c plink_misc.c plink_perm.c plink_rserve.c plink_set.c plink_stats.c SFMT.c dcdflib.c pigz.c yarn.c Rconnection.cc hfile.c bgzf.c -o plink -llapack -lcblas -latlas -lm -lpthread -ldl -lz -DDYNAMIC_ZLIB
plink_ld.c: In function 'void fepi_counts_to_joint_effects_stats(uint32_t, uint32_t*, double*, double*, double*)':
plink_ld.c:3294:24: warning: 'ivv[3]' may be used uninitialized in this function [-Wmaybe-uninitialized]
use_reg_stat = (ivv[3] > 0.5) && ((group_ct == 1) || (ivv[7] > 0.5));
~~~~~^
make[2]: Leaving directory '/<<PKGBUILDDIR>>'
mv plink plink1.9
help2man --no-discard-stderr --name="whole genome SNP analysis" ./plink1.9 > plink1.9.1
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_auto_test -a
fakeroot debian/rules binary-arch
dh binary-arch
dh_testroot -a
dh_prep -a
dh_auto_install -a
dh_install -a
dh_installdocs -a
debian/rules override_dh_installchangelogs
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_installchangelogs debian/upstream.changelog
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_installexamples -a
debian/rules override_dh_installman
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_installman plink1.9.1
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/plink1.9/usr/lib/debian-med/bin/plink1.9 was not linked against libatlas.so.3 (it uses none of the library's symbols)
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/plink1.9/usr/lib/debian-med/bin/plink1.9 was not linked against libdl.so.2 (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
dh_md5sums -a
dh_builddeb -a
dpkg-deb: building package 'plink1.9-dbgsym' in '../plink1.9-dbgsym_1.90~b3.43-161010-1_armhf.deb'.
dpkg-deb: building package 'plink1.9' in '../plink1.9_1.90~b3.43-161010-1_armhf.deb'.
dpkg-genchanges --build=any -mRaspbian wandboard test autobuilder <root@raspbian.org> >../plink1.9_1.90~b3.43-161010-1_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build plink1.9-1.90~b3.43-161010
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 2016-10-30T20:40:11Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
plink1.9_1.90~b3.43-161010-1_armhf.changes:
-------------------------------------------
Format: 1.8
Date: Mon, 24 Oct 2016 22:47:36 +0200
Source: plink1.9
Binary: plink1.9
Architecture: armhf
Version: 1.90~b3.43-161010-1
Distribution: stretch-staging
Urgency: medium
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Dylan Aïssi <bob.dybian@gmail.com>
Description:
plink1.9 - whole-genome association analysis toolset
Changes:
plink1.9 (1.90~b3.43-161010-1) unstable; urgency=medium
.
* New upstream release.
* Update license of plink1.9 from GPL-3 to GPL-3+.
* Install an upstream changelog.
* Remove 03_Fix_FTBFS_GCC6.patch, fixed upstream.
* Remove d/NEWS.Debian, redundant with d/README.Debian.
Checksums-Sha1:
2c2427f1be84ceeba46c3a74ef52b6860ef276e0 2095156 plink1.9-dbgsym_1.90~b3.43-161010-1_armhf.deb
9907ba43023a7bb3bc6c1926071bf63cdf69a84d 757926 plink1.9_1.90~b3.43-161010-1_armhf.deb
Checksums-Sha256:
10c486b1c2cf86a465bb0f39f5680f26e0e85337af3a2290295f875cf4aaa018 2095156 plink1.9-dbgsym_1.90~b3.43-161010-1_armhf.deb
2caeb426b23b9a3a3d4d19b1fb4bb91289016e1f08c8c58d0961fad740e68a31 757926 plink1.9_1.90~b3.43-161010-1_armhf.deb
Files:
ac6bed621cb95317b1d8306576ce8dca 2095156 debug extra plink1.9-dbgsym_1.90~b3.43-161010-1_armhf.deb
98b4697618d0c55e86f83d2b01df5bf2 757926 science optional plink1.9_1.90~b3.43-161010-1_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
plink1.9-dbgsym_1.90~b3.43-161010-1_armhf.deb
---------------------------------------------
new debian package, version 2.0.
size 2095156 bytes: control archive=499 bytes.
443 bytes, 13 lines control
106 bytes, 1 lines md5sums
Package: plink1.9-dbgsym
Source: plink1.9
Version: 1.90~b3.43-161010-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 2184
Depends: plink1.9 (= 1.90~b3.43-161010-1)
Section: debug
Priority: extra
Homepage: https://www.cog-genomics.org/plink2/
Description: Debug symbols for plink1.9
Auto-Built-Package: debug-symbols
Build-Ids: da99c77d3e72103504b7ff41bb001d70a7fae419
drwxr-xr-x root/root 0 2016-10-24 20:47 ./
drwxr-xr-x root/root 0 2016-10-24 20:47 ./usr/
drwxr-xr-x root/root 0 2016-10-24 20:47 ./usr/lib/
drwxr-xr-x root/root 0 2016-10-24 20:47 ./usr/lib/debug/
drwxr-xr-x root/root 0 2016-10-24 20:47 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2016-10-24 20:47 ./usr/lib/debug/.build-id/da/
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drwxr-xr-x root/root 0 2016-10-24 20:47 ./usr/share/doc/
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plink1.9_1.90~b3.43-161010-1_armhf.deb
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new debian package, version 2.0.
size 757926 bytes: control archive=1273 bytes.
1237 bytes, 25 lines control
897 bytes, 12 lines md5sums
Package: plink1.9
Version: 1.90~b3.43-161010-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 1866
Depends: libatlas3-base, libc6 (>= 2.4), libgcc1 (>= 1:3.5), liblapack3 | liblapack.so.3, libstdc++6 (>= 5), zlib1g (>= 1:1.2.6)
Section: science
Priority: optional
Homepage: https://www.cog-genomics.org/plink2/
Description: whole-genome association analysis toolset
plink expects as input the data from SNP (single nucleotide polymorphism)
chips of many individuals and their phenotypical description of a disease.
It finds associations of single or pairs of DNA variations with a phenotype
and can retrieve SNP annotation from an online source.
.
SNPs can evaluated individually or as pairs for their association with the
disease phenotypes. The joint investigation of copy number variations is
supported. A variety of statistical tests have been implemented.
.
plink1.9 is a comprehensive update of plink with new algorithms and new
methods, faster and less memory consumer than the first plink.
.
Please note: The executable was renamed to plink1.9
because of a name clash. Please read more about this
in /usr/share/doc/plink1.9/README.Debian.
drwxr-xr-x root/root 0 2016-10-24 20:47 ./
drwxr-xr-x root/root 0 2016-10-24 20:47 ./usr/
drwxr-xr-x root/root 0 2016-10-24 20:47 ./usr/bin/
lrwxrwxrwx root/root 0 2016-10-24 20:47 ./usr/bin/plink1.9 -> ../lib/debian-med/bin/plink1.9
drwxr-xr-x root/root 0 2016-10-24 20:47 ./usr/lib/
drwxr-xr-x root/root 0 2016-10-24 20:47 ./usr/lib/debian-med/
drwxr-xr-x root/root 0 2016-10-24 20:47 ./usr/lib/debian-med/bin/
-rwxr-xr-x root/root 1833464 2016-10-24 20:47 ./usr/lib/debian-med/bin/plink1.9
drwxr-xr-x root/root 0 2016-10-24 20:47 ./usr/lib/debian-med/share/
drwxr-xr-x root/root 0 2016-10-24 20:47 ./usr/lib/debian-med/share/man/
drwxr-xr-x root/root 0 2016-10-24 20:47 ./usr/lib/debian-med/share/man/man1/
lrwxrwxrwx root/root 0 2016-10-24 20:47 ./usr/lib/debian-med/share/man/man1/plink1.9.1.gz -> ../../../../../share/man/man1/plink1.9.1.gz
drwxr-xr-x root/root 0 2016-10-24 20:47 ./usr/share/
drwxr-xr-x root/root 0 2016-10-24 20:47 ./usr/share/doc/
drwxr-xr-x root/root 0 2016-10-24 20:47 ./usr/share/doc/plink1.9/
-rw-r--r-- root/root 680 2016-10-24 20:47 ./usr/share/doc/plink1.9/README.Debian
-rw-r--r-- root/root 1972 2016-10-24 20:47 ./usr/share/doc/plink1.9/changelog.Debian.gz
-rw-r--r-- root/root 11777 2016-10-24 20:47 ./usr/share/doc/plink1.9/changelog.gz
-rw-r--r-- root/root 7735 2016-10-24 20:47 ./usr/share/doc/plink1.9/copyright
drwxr-xr-x root/root 0 2016-10-24 20:47 ./usr/share/doc/plink1.9/examples/
-rw-r--r-- root/root 325 2016-10-24 20:47 ./usr/share/doc/plink1.9/examples/README
-rw-r--r-- root/root 267 2016-10-24 20:47 ./usr/share/doc/plink1.9/examples/expected.plink.assoc
-rw-r--r-- root/root 126 2016-10-24 20:47 ./usr/share/doc/plink1.9/examples/expected.plink.frq
-rw-r--r-- root/root 550 2016-10-24 20:47 ./usr/share/doc/plink1.9/examples/run-sample-analysis
-rw-r--r-- root/root 27 2016-06-17 18:37 ./usr/share/doc/plink1.9/examples/toy.map
-rw-r--r-- root/root 58 2016-06-17 18:37 ./usr/share/doc/plink1.9/examples/toy.ped
drwxr-xr-x root/root 0 2016-10-24 20:47 ./usr/share/man/
drwxr-xr-x root/root 0 2016-10-24 20:47 ./usr/share/man/man1/
-rw-r--r-- root/root 27841 2016-10-24 20:47 ./usr/share/man/man1/plink1.9.1.gz
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 19812
Build-Time: 1014
Distribution: stretch-staging
Host Architecture: armhf
Install-Time: 232
Job: plink1.9_1.90~b3.43-161010-1
Machine Architecture: armhf
Package: plink1.9
Package-Time: 1299
Source-Version: 1.90~b3.43-161010-1
Space: 19812
Status: successful
Version: 1.90~b3.43-161010-1
--------------------------------------------------------------------------------
Finished at 2016-10-30T20:40:11Z
Build needed 00:21:39, 19812k disc space