mrbayes →
3.2.6+dfsg-1+b2 →
armhf → 2016-10-02 02:59:27
sbuild (Debian sbuild) 0.70.0 (03 Aug 2016) on bm-wb-04
+==============================================================================+
| mrbayes 3.2.6+dfsg-1+b2 (armhf) Sun, 02 Oct 2016 02:24:35 +0000 |
+==============================================================================+
Package: mrbayes
Version: 3.2.6+dfsg-1+b2
Source Version: 3.2.6+dfsg-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-c32dfcfc-9532-40d5-b87f-682decdcaf82' 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 [9318 kB]
Get:3 http://172.17.0.1/private stretch-staging/main armhf Packages [11.3 MB]
Fetched 20.6 MB in 22s (924 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: 'mrbayes' packaging is maintained in the 'Git' version control system at:
git://anonscm.debian.org/debian-med/mrbayes.git
Please use:
git clone git://anonscm.debian.org/debian-med/mrbayes.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 2653 kB of source archives.
Get:1 http://172.17.0.1/private stretch-staging/main mrbayes 3.2.6+dfsg-1 (dsc) [2317 B]
Get:2 http://172.17.0.1/private stretch-staging/main mrbayes 3.2.6+dfsg-1 (tar) [2644 kB]
Get:3 http://172.17.0.1/private stretch-staging/main mrbayes 3.2.6+dfsg-1 (diff) [6192 B]
Fetched 2653 kB in 0s (7519 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/mrbayes-SnpFmY/mrbayes-3.2.6+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/mrbayes-SnpFmY' 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-DT2Fv3/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-DT2Fv3/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-DT2Fv3/gpg/trustdb.gpg: trustdb created
gpg: key 5B825F7B5086BFC4: 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 5B825F7B5086BFC4: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 5B825F7B5086BFC4: 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-DT2Fv3/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-DT2Fv3/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-DT2Fv3/apt_archive ./ Release.gpg [342 B]
Get:4 copy:/<<BUILDDIR>>/resolver-DT2Fv3/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-DT2Fv3/apt_archive ./ Packages [432 B]
Fetched 2080 B in 0s (3602 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 libffi6 libfuse2 libgnutls30 libhogweed4
libldap-2.4-2 libnettle6 libp11-kit0 libsasl2-2 libsasl2-modules
libsasl2-modules-db libssl1.0.2 libtasn1-6 manpages
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 0 not upgraded.
Need to get 766 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-DT2Fv3/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [766 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 766 B in 0s (0 B/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 14070 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 all)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper (>= 9), libreadline-dev, mpi-default-dev, libhmsbeagle-dev (<< 2.1-1) | libhmsbeagle-dev (>= 2.1-2), autoconf, automake
Filtered Build-Depends: debhelper (>= 9), libreadline-dev, mpi-default-dev, libhmsbeagle-dev (<< 2.1-1) | libhmsbeagle-dev (>= 2.1-2), autoconf, automake
dpkg-deb: building package 'sbuild-build-depends-mrbayes-dummy' in '/<<BUILDDIR>>/resolver-DJWMoy/apt_archive/sbuild-build-depends-mrbayes-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-mrbayes-dummy
dpkg-scanpackages: info: Wrote 1 entries to output Packages file.
gpg: keybox '/<<BUILDDIR>>/resolver-DJWMoy/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-DJWMoy/gpg/trustdb.gpg: trustdb created
gpg: key 5B825F7B5086BFC4: 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 5B825F7B5086BFC4: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 5B825F7B5086BFC4: 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-DJWMoy/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-DJWMoy/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-DJWMoy/apt_archive ./ Release.gpg [342 B]
Get:4 copy:/<<BUILDDIR>>/resolver-DJWMoy/apt_archive ./ Sources [402 B]
Get:5 copy:/<<BUILDDIR>>/resolver-DJWMoy/apt_archive ./ Packages [493 B]
Fetched 2194 B in 0s (3648 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install mrbayes 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 libfuse2 libgnutls30 libhogweed4 libldap-2.4-2
libnettle6 libp11-kit0 libsasl2-2 libsasl2-modules libsasl2-modules-db
libssl1.0.2 libtasn1-6 manpages
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 groff-base
intltool-debian libarchive-zip-perl libbsd0 libcroco3
libfile-stripnondeterminism-perl libgfortran3 libglib2.0-0 libhmsbeagle-dev
libhmsbeagle1v5 libhwloc-dev libhwloc-plugins libhwloc5 libibverbs-dev
libibverbs1 libicu57 libltdl-dev libltdl7 libmagic-mgc libmagic1 libnl-3-200
libnl-route-3-200 libopenmpi-dev libopenmpi2 libpciaccess0 libpipeline1
libreadline-dev libreadline6-dev libsigsegv2 libtinfo-dev libtool
libunistring0 libxml2 m4 man-db mpi-default-dev ocl-icd-libopencl1
openmpi-common po-debconf
Suggested packages:
autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev groff
libhwloc-contrib-plugins libtool-doc openmpi-doc pciutils readline-doc
gfortran | fortran95-compiler gcj-jdk less www-browser opencl-icd
libmail-box-perl
Recommended packages:
curl | wget | lynx-cur libglib2.0-data shared-mime-info xdg-user-dirs
openmpi-bin 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 groff-base
intltool-debian libarchive-zip-perl libbsd0 libcroco3
libfile-stripnondeterminism-perl libgfortran3 libglib2.0-0 libhmsbeagle-dev
libhmsbeagle1v5 libhwloc-dev libhwloc-plugins libhwloc5 libibverbs-dev
libibverbs1 libicu57 libltdl-dev libltdl7 libmagic-mgc libmagic1 libnl-3-200
libnl-route-3-200 libopenmpi-dev libopenmpi2 libpciaccess0 libpipeline1
libreadline-dev libreadline6-dev libsigsegv2 libtinfo-dev libtool
libunistring0 libxml2 m4 man-db mpi-default-dev ocl-icd-libopencl1
openmpi-common po-debconf sbuild-build-depends-mrbayes-dummy
0 upgraded, 51 newly installed, 0 to remove and 0 not upgraded.
Need to get 23.5 MB of archives.
After this operation, 81.5 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-DJWMoy/apt_archive ./ sbuild-build-depends-mrbayes-dummy 0.invalid.0 [828 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 libmagic-mgc armhf 1:5.28-4 [210 kB]
Get:8 http://172.17.0.1/private stretch-staging/main armhf libmagic1 armhf 1:5.28-4 [104 kB]
Get:9 http://172.17.0.1/private stretch-staging/main armhf file armhf 1:5.28-4 [62.7 kB]
Get:10 http://172.17.0.1/private stretch-staging/main armhf gettext-base armhf 0.19.8.1-1 [117 kB]
Get:11 http://172.17.0.1/private stretch-staging/main armhf libicu57 armhf 57.1-4 [7407 kB]
Get:12 http://172.17.0.1/private stretch-staging/main armhf libxml2 armhf 2.9.4+dfsg1-2 [805 kB]
Get:13 http://172.17.0.1/private stretch-staging/main armhf libsigsegv2 armhf 2.10-5 [28.4 kB]
Get:14 http://172.17.0.1/private stretch-staging/main armhf m4 armhf 1.4.17-5 [239 kB]
Get:15 http://172.17.0.1/private stretch-staging/main armhf autoconf all 2.69-10 [338 kB]
Get:16 http://172.17.0.1/private stretch-staging/main armhf autotools-dev all 20160430.1 [72.6 kB]
Get:17 http://172.17.0.1/private stretch-staging/main armhf automake all 1:1.15-4 [735 kB]
Get:18 http://172.17.0.1/private stretch-staging/main armhf autopoint all 0.19.8.1-1 [433 kB]
Get:19 http://172.17.0.1/private stretch-staging/main armhf libtool all 2.4.6-2 [545 kB]
Get:20 http://172.17.0.1/private stretch-staging/main armhf dh-autoreconf all 12 [15.8 kB]
Get:21 http://172.17.0.1/private stretch-staging/main armhf libarchive-zip-perl all 1.59-1 [95.5 kB]
Get:22 http://172.17.0.1/private stretch-staging/main armhf libfile-stripnondeterminism-perl all 0.028-1 [14.6 kB]
Get:23 http://172.17.0.1/private stretch-staging/main armhf dh-strip-nondeterminism all 0.028-1 [9020 B]
Get:24 http://172.17.0.1/private stretch-staging/main armhf libglib2.0-0 armhf 2.50.0-1 [2520 kB]
Get:25 http://172.17.0.1/private stretch-staging/main armhf libcroco3 armhf 0.6.11-2 [131 kB]
Get:26 http://172.17.0.1/private stretch-staging/main armhf libunistring0 armhf 0.9.6+really0.9.3-0.1 [252 kB]
Get:27 http://172.17.0.1/private stretch-staging/main armhf gettext armhf 0.19.8.1-1 [1433 kB]
Get:28 http://172.17.0.1/private stretch-staging/main armhf intltool-debian all 0.35.0+20060710.4 [26.3 kB]
Get:29 http://172.17.0.1/private stretch-staging/main armhf po-debconf all 1.0.19 [249 kB]
Get:30 http://172.17.0.1/private stretch-staging/main armhf debhelper all 10 [823 kB]
Get:31 http://172.17.0.1/private stretch-staging/main armhf libgfortran3 armhf 6.1.1-11+rpi1 [166 kB]
Get:32 http://172.17.0.1/private stretch-staging/main armhf libhmsbeagle1v5 armhf 2.1.2+20150609-1.1 [48.0 kB]
Get:33 http://172.17.0.1/private stretch-staging/main armhf libhmsbeagle-dev armhf 2.1.2+20150609-1.1 [149 kB]
Get:34 http://172.17.0.1/private stretch-staging/main armhf libltdl7 armhf 2.4.6-2 [386 kB]
Get:35 http://172.17.0.1/private stretch-staging/main armhf libltdl-dev armhf 2.4.6-2 [159 kB]
Get:36 http://172.17.0.1/private stretch-staging/main armhf libnl-3-200 armhf 3.2.27-1 [53.4 kB]
Get:37 http://172.17.0.1/private stretch-staging/main armhf libnl-route-3-200 armhf 3.2.27-1 [111 kB]
Get:38 http://172.17.0.1/private stretch-staging/main armhf libpciaccess0 armhf 0.13.4-1 [47.4 kB]
Get:39 http://172.17.0.1/private stretch-staging/main armhf libtinfo-dev armhf 6.0+20160917-1 [65.4 kB]
Get:40 http://172.17.0.1/private stretch-staging/main armhf libreadline6-dev armhf 6.3-8+b3 [105 kB]
Get:41 http://172.17.0.1/private stretch-staging/main armhf libreadline-dev armhf 6.3-8+b3 [958 B]
Get:42 http://172.17.0.1/private stretch-staging/main armhf libhwloc5 armhf 1.11.4-1+rpi1 [82.8 kB]
Get:43 http://172.17.0.1/private stretch-staging/main armhf libhwloc-dev armhf 1.11.4-1+rpi1 [136 kB]
Get:44 http://172.17.0.1/private stretch-staging/main armhf ocl-icd-libopencl1 armhf 2.2.9-2 [34.7 kB]
Get:45 http://172.17.0.1/private stretch-staging/main armhf libhwloc-plugins armhf 1.11.4-1+rpi1 [14.9 kB]
Get:46 http://172.17.0.1/private stretch-staging/main armhf libibverbs1 armhf 1.2.1-2 [35.4 kB]
Get:47 http://172.17.0.1/private stretch-staging/main armhf libibverbs-dev armhf 1.2.1-2 [104 kB]
Get:48 http://172.17.0.1/private stretch-staging/main armhf libopenmpi2 armhf 2.0.1-5 [1621 kB]
Get:49 http://172.17.0.1/private stretch-staging/main armhf openmpi-common all 2.0.1-5 [146 kB]
Get:50 http://172.17.0.1/private stretch-staging/main armhf libopenmpi-dev armhf 2.0.1-5 [997 kB]
Get:51 http://172.17.0.1/private stretch-staging/main armhf mpi-default-dev armhf 1.7 [4804 B]
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Unpacking sbuild-build-depends-mrbayes-dummy (0.invalid.0) ...
Setting up libarchive-zip-perl (1.59-1) ...
Setting up libsigsegv2:armhf (2.10-5) ...
Setting up libgfortran3:armhf (6.1.1-11+rpi1) ...
Setting up groff-base (1.22.3-8) ...
Setting up libglib2.0-0:armhf (2.50.0-1) ...
No schema files found: doing nothing.
Setting up libtinfo-dev:armhf (6.0+20160917-1) ...
Setting up libreadline6-dev:armhf (6.3-8+b3) ...
Setting up gettext-base (0.19.8.1-1) ...
Setting up libpipeline1:armhf (1.4.1-2) ...
Setting up libhmsbeagle1v5 (2.1.2+20150609-1.1) ...
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 libhmsbeagle-dev (2.1.2+20150609-1.1) ...
Setting up libcroco3:armhf (0.6.11-2) ...
Setting up openmpi-common (2.0.1-5) ...
Processing triggers for libc-bin (2.24-3) ...
Setting up autotools-dev (20160430.1) ...
Setting up libunistring0:armhf (0.9.6+really0.9.3-0.1) ...
Setting up libltdl7:armhf (2.4.6-2) ...
Setting up libreadline-dev:armhf (6.3-8+b3) ...
Setting up libpciaccess0:armhf (0.13.4-1) ...
Setting up ocl-icd-libopencl1:armhf (2.2.9-2) ...
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 libnl-3-200:armhf (3.2.27-1) ...
Setting up autopoint (0.19.8.1-1) ...
Setting up libfile-stripnondeterminism-perl (0.028-1) ...
Setting up libltdl-dev:armhf (2.4.6-2) ...
Setting up gettext (0.19.8.1-1) ...
Setting up libnl-route-3-200:armhf (3.2.27-1) ...
Setting up autoconf (2.69-10) ...
Setting up file (1:5.28-4) ...
Setting up libhwloc5:armhf (1.11.4-1+rpi1) ...
Setting up libhwloc-plugins (1.11.4-1+rpi1) ...
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 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 libibverbs1 (1.2.1-2) ...
Setting up po-debconf (1.0.19) ...
Setting up libhwloc-dev:armhf (1.11.4-1+rpi1) ...
Setting up libopenmpi2 (2.0.1-5) ...
Setting up libibverbs-dev (1.2.1-2) ...
Setting up libopenmpi-dev (2.0.1-5) ...
update-alternatives: using /usr/lib/openmpi/include to provide /usr/include/mpi (mpi) in auto mode
Setting up mpi-default-dev (1.7) ...
Setting up dh-autoreconf (12) ...
Setting up dh-strip-nondeterminism (0.028-1) ...
Setting up debhelper (10) ...
Setting up sbuild-build-depends-mrbayes-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.24-3) ...
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_1.18.10 g++-6_6.1.1-11+rpi1 gcc-6_6.1.1-11+rpi1 libc6-dev_2.24-3 libstdc++-4.9-dev_4.9.3-14 libstdc++-6-dev_6.1.1-11+rpi1 libstdc++6_6.1.1-11+rpi1 linux-libc-dev_3.18.5-1~exp1+rpi19+stretch
Package versions: acl_2.2.52-3 adduser_3.115 apt_1.3 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_2.26.1-1 bsdmainutils_9.0.10 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_6.1.1-11+rpi1 dash_0.5.8-2.3 debconf_1.5.59 debfoster_2.7-2.1 debhelper_10 debianutils_4.8 dh-autoreconf_12 dh-strip-nondeterminism_0.028-1 diffutils_1:3.5-1 dirmngr_2.1.15-3 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_6.1.1-11+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_6.1.1-11+rpi1 gcc-6-base_6.1.1-11+rpi1 gettext_0.19.8.1-1 gettext-base_0.19.8.1-1 gnupg_2.1.15-3 gnupg-agent_2.1.15-3 gnupg-l10n_2.1.15-3 gpgv_2.1.15-3 grep_2.25-6 groff-base_1.22.3-8 gzip_1.6-5 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 klibc-utils_2.0.4-9+rpi1 kmod_22-1.1 libacl1_2.2.52-3 libapparmor1_2.10.95-4 libapt-pkg4.12_1.0.9.10 libapt-pkg5.0_1.3 libarchive-zip-perl_1.59-1 libasan1_4.9.3-14 libasan3_6.1.1-11+rpi1 libassuan0_2.4.3-1 libatomic1_6.1.1-11+rpi1 libattr1_1:2.4.47-2 libaudit-common_1:2.6.6-1 libaudit1_1:2.6.6-1 libblkid1_2.28.2-1 libbsd0_0.8.3-1 libbz2-1.0_1.0.6-8 libc-bin_2.24-3 libc-dev-bin_2.24-3 libc6_2.24-3 libc6-dev_2.24-3 libcap-ng0_0.7.7-3 libcap2_1:2.25-1 libcap2-bin_1:2.25-1 libcc1-0_6.1.1-11+rpi1 libcomerr2_1.43.3-1 libcroco3_0.6.11-2 libcryptsetup4_2:1.7.0-2 libdb5.3_5.3.28-12 libdbus-1-3_1.10.10-1 libdebconfclient0_0.217 libdevmapper1.02.1_2:1.02.133-1 libdpkg-perl_1.18.10 libdrm2_2.4.70-1 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-4.9-dev_4.9.3-14 libgcc-6-dev_6.1.1-11+rpi1 libgcc1_1:6.1.1-11+rpi1 libgcrypt20_1.7.3-1 libgdbm3_1.8.3-14 libgfortran3_6.1.1-11+rpi1 libglib2.0-0_2.50.0-1 libgmp10_2:6.1.1+dfsg-1 libgnutls30_3.5.4-2 libgomp1_6.1.1-11+rpi1 libgpg-error0_1.24-1 libhmsbeagle-dev_2.1.2+20150609-1.1 libhmsbeagle1v5_2.1.2+20150609-1.1 libhogweed4_3.2-1 libhwloc-dev_1.11.4-1+rpi1 libhwloc-plugins_1.11.4-1+rpi1 libhwloc5_1.11.4-1+rpi1 libibverbs-dev_1.2.1-2 libibverbs1_1.2.1-2 libicu57_57.1-4 libidn11_1.33-1 libisl15_0.17.1-1 libklibc_2.0.4-9+rpi1 libkmod2_22-1.1 libksba8_1.3.5-2 libldap-2.4-2_2.4.42+dfsg-2+rpi1+b2 libltdl-dev_2.4.6-2 libltdl7_2.4.6-2 liblz4-1_0.0~r131-2 liblzma5_5.1.1alpha+20120614-2.1 libmagic-mgc_1:5.28-4 libmagic1_1:5.28-4 libmount1_2.28.2-1 libmpc3_1.0.3-1 libmpfr4_3.1.4-2 libncurses5_6.0+20160917-1 libncursesw5_6.0+20160917-1 libnettle6_3.2-1 libnl-3-200_3.2.27-1 libnl-route-3-200_3.2.27-1 libnpth0_1.2-3 libopenmpi-dev_2.0.1-5 libopenmpi2_2.0.1-5 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 libpciaccess0_0.13.4-1 libpcre3_2:8.39-2 libperl5.24_5.24.1~rc3-3 libpipeline1_1.4.1-2 libpng12-0_1.2.54-6 libprocps3_2:3.3.9-9 libprocps6_2:3.3.12-2 libreadline-dev_6.3-8+b3 libreadline6_6.3-8+b3 libreadline6-dev_6.3-8+b3 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 libslang2_2.3.0-3+b1 libsmartcols1_2.28.2-1 libsqlite3-0_3.14.2-1 libss2_1.43.3-1 libssl1.0.2_1.0.2j-1 libstdc++-4.9-dev_4.9.3-14 libstdc++-6-dev_6.1.1-11+rpi1 libstdc++6_6.1.1-11+rpi1 libsystemd0_231-4 libtasn1-6_4.9-4 libtimedate-perl_2.3000-2 libtinfo-dev_6.0+20160917-1 libtinfo5_6.0+20160917-1 libtool_2.4.6-2 libubsan0_6.1.1-11+rpi1 libudev1_231-4 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_4.07-1 mawk_1.3.3-17 mount_2.28.2-1 mpi-default-dev_1.7 multiarch-support_2.24-3 nano_2.7.0-1 ncurses-base_6.0+20160917-1 ncurses-bin_6.0+20160917-1 ocl-icd-libopencl1_2.2.9-2 openmpi-common_2.0.1-5 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_0.9.7-5 po-debconf_1.0.19 procps_2:3.3.12-2 raspbian-archive-keyring_20120528.2 readline-common_6.3-8 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-mrbayes-dummy_0.invalid.0 sed_4.2.2-8 sensible-utils_0.0.9 startpar_0.59-3.1 systemd_231-4 systemd-sysv_231-4 sysv-rc_2.88dsf-59.8 sysvinit-utils_2.88dsf-59.8 tar_1.29b-1 tzdata_2016g-1 udev_231-4 util-linux_2.28.2-1 xz-utils_5.1.1alpha+20120614-2.1 zlib1g_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 Wed Dec 30 21:43:36 2015 UTC
gpgv: using RSA key 578A0494D1C646D1
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./mrbayes_3.2.6+dfsg-1.dsc
dpkg-source: info: extracting mrbayes in /<<BUILDDIR>>/mrbayes-3.2.6+dfsg
dpkg-source: info: unpacking mrbayes_3.2.6+dfsg.orig.tar.xz
dpkg-source: info: unpacking mrbayes_3.2.6+dfsg-1.debian.tar.xz
dpkg-source: info: applying as-needed.patch
dpkg-source: info: applying ldlibs.patch
Check disc space
----------------
Sufficient free space for build
Hack binNMU version
-------------------
Created changelog entry for binNMU version 3.2.6+dfsg-1+b2
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-c32dfcfc-9532-40d5-b87f-682decdcaf82
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=xterm
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package mrbayes
dpkg-buildpackage: info: source version 3.2.6+dfsg-1+b2
dpkg-buildpackage: info: source distribution stretch-staging
dpkg-source --before-build mrbayes-3.2.6+dfsg
dpkg-buildpackage: info: host architecture armhf
fakeroot debian/rules clean
dh clean --sourcedirectory=src
dh_testdir -O--sourcedirectory=src
debian/rules override_dh_auto_clean
make[1]: Entering directory '/<<BUILDDIR>>/mrbayes-3.2.6+dfsg'
( cd src ; /usr/bin/make -f Makefile.in distclean )
make[2]: Entering directory '/<<BUILDDIR>>/mrbayes-3.2.6+dfsg/src'
rm -f *.o *~ mb
rm -rf Makefile config.log config.status config.h *.cache
make[2]: Leaving directory '/<<BUILDDIR>>/mrbayes-3.2.6+dfsg/src'
rm -f src/configure
rm -f mb mb-mpi src/mb
make[1]: Leaving directory '/<<BUILDDIR>>/mrbayes-3.2.6+dfsg'
dh_clean -O--sourcedirectory=src
debian/rules build-arch
dh build-arch --sourcedirectory=src
dh_testdir -a -O--sourcedirectory=src
dh_update_autotools_config -a -O--sourcedirectory=src
debian/rules override_dh_auto_configure
make[1]: Entering directory '/<<BUILDDIR>>/mrbayes-3.2.6+dfsg'
#Configure for MPI at first
( cd src ; autoconf )
dh_auto_configure -- --with-beagle=/usr --enable-mpi=yes --enable-debug=yes
./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 --with-beagle=/usr --enable-mpi=yes --enable-debug=yes
configure: WARNING: unrecognized options: --disable-silent-rules, --disable-maintainer-mode, --disable-dependency-tracking
configure: NOTICE: Because the variable $CFLAGS is defined in your shell, the
default MrBayes flags will be overridden. To ensure optimal performance, please check
that your $CFLAGS variable is set correctly. Alternatively, unset the $CFLAGS
variable in your shell in order to use the default MrBayes compiler options.
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 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 exp in -lm... yes
checking for a BSD-compatible install... /usr/bin/install -c
checking for mpicc... yes
checking for SSE support... no
checking for /usr/include/libhmsbeagle/libhmsbeagle/beagle.h... no
checking for /usr/include/libhmsbeagle-1/libhmsbeagle/beagle.h... yes
checking for /usr/include/libhmsbeagle/libhmsbeagle/platform.h... no
checking for /usr/include/libhmsbeagle-1/libhmsbeagle/platform.h... yes
checking for /usr/lib... yes
checking for readline in -lreadline... yes
checking for rl_completion_matches function... yes
checking for 32 or 64 bits cpu... 32
configure: creating ./config.status
config.status: creating Makefile
config.status: creating config.h
configure: WARNING: unrecognized options: --disable-silent-rules, --disable-maintainer-mode, --disable-dependency-tracking
make[1]: Leaving directory '/<<BUILDDIR>>/mrbayes-3.2.6+dfsg'
debian/rules override_dh_auto_build
make[1]: Entering directory '/<<BUILDDIR>>/mrbayes-3.2.6+dfsg'
# build mb-mpi (from initial config)
LIBS="-Wl,--as-needed" dh_auto_build
make -j1
make[2]: Entering directory '/<<BUILDDIR>>/mrbayes-3.2.6+dfsg/src'
mpicc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/mrbayes-3.2.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libhmsbeagle-1 -DUSECONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -c -o bayes.o bayes.c
mpicc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/mrbayes-3.2.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libhmsbeagle-1 -DUSECONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -c -o command.o command.c
mpicc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/mrbayes-3.2.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libhmsbeagle-1 -DUSECONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -c -o model.o model.c
mpicc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/mrbayes-3.2.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libhmsbeagle-1 -DUSECONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -c -o mcmc.o mcmc.c
mpicc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/mrbayes-3.2.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libhmsbeagle-1 -DUSECONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -c -o likelihood.o likelihood.c
mpicc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/mrbayes-3.2.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libhmsbeagle-1 -DUSECONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -c -o proposal.o proposal.c
mpicc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/mrbayes-3.2.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libhmsbeagle-1 -DUSECONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -c -o sumpt.o sumpt.c
mpicc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/mrbayes-3.2.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libhmsbeagle-1 -DUSECONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -c -o utils.o utils.c
mpicc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/mrbayes-3.2.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libhmsbeagle-1 -DUSECONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -c -o mbbeagle.o mbbeagle.c
mpicc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/mrbayes-3.2.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libhmsbeagle-1 -DUSECONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -c -o best.o best.c
mpicc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/mrbayes-3.2.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libhmsbeagle-1 -DUSECONFIG_H -o mb bayes.o command.o model.o mcmc.o likelihood.o proposal.o sumpt.o utils.o mbbeagle.o best.o -Wl,-z,relro -L/usr/lib -lhmsbeagle -lreadline -lm
make[2]: Leaving directory '/<<BUILDDIR>>/mrbayes-3.2.6+dfsg/src'
mv src/mb ./mb-mpi
# Now - build mb
( cd src ; make clean )
make[2]: Entering directory '/<<BUILDDIR>>/mrbayes-3.2.6+dfsg/src'
rm -f *.o *~ mb
make[2]: Leaving directory '/<<BUILDDIR>>/mrbayes-3.2.6+dfsg/src'
dh_auto_configure -- --with-beagle=/usr --enable-mpi=no --enable-debug=yes
./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 --with-beagle=/usr --enable-mpi=no --enable-debug=yes
configure: WARNING: unrecognized options: --disable-silent-rules, --disable-maintainer-mode, --disable-dependency-tracking
configure: NOTICE: Because the variable $CFLAGS is defined in your shell, the
default MrBayes flags will be overridden. To ensure optimal performance, please check
that your $CFLAGS variable is set correctly. Alternatively, unset the $CFLAGS
variable in your shell in order to use the default MrBayes compiler options.
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 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 exp in -lm... yes
checking for a BSD-compatible install... /usr/bin/install -c
checking for SSE support... no
checking for /usr/include/libhmsbeagle/libhmsbeagle/beagle.h... no
checking for /usr/include/libhmsbeagle-1/libhmsbeagle/beagle.h... yes
checking for /usr/include/libhmsbeagle/libhmsbeagle/platform.h... no
checking for /usr/include/libhmsbeagle-1/libhmsbeagle/platform.h... yes
checking for /usr/lib... yes
checking for readline in -lreadline... yes
checking for rl_completion_matches function... yes
checking for 32 or 64 bits cpu... 32
configure: creating ./config.status
config.status: creating Makefile
config.status: creating config.h
configure: WARNING: unrecognized options: --disable-silent-rules, --disable-maintainer-mode, --disable-dependency-tracking
LIBS="-Wl,--as-needed" dh_auto_build
make -j1
make[2]: Entering directory '/<<BUILDDIR>>/mrbayes-3.2.6+dfsg/src'
gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/mrbayes-3.2.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libhmsbeagle-1 -DUSECONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -c -o bayes.o bayes.c
gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/mrbayes-3.2.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libhmsbeagle-1 -DUSECONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -c -o command.o command.c
gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/mrbayes-3.2.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libhmsbeagle-1 -DUSECONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -c -o model.o model.c
gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/mrbayes-3.2.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libhmsbeagle-1 -DUSECONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -c -o mcmc.o mcmc.c
gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/mrbayes-3.2.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libhmsbeagle-1 -DUSECONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -c -o likelihood.o likelihood.c
gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/mrbayes-3.2.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libhmsbeagle-1 -DUSECONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -c -o proposal.o proposal.c
gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/mrbayes-3.2.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libhmsbeagle-1 -DUSECONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -c -o sumpt.o sumpt.c
gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/mrbayes-3.2.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libhmsbeagle-1 -DUSECONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -c -o utils.o utils.c
gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/mrbayes-3.2.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libhmsbeagle-1 -DUSECONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -c -o mbbeagle.o mbbeagle.c
gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/mrbayes-3.2.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libhmsbeagle-1 -DUSECONFIG_H -Wdate-time -D_FORTIFY_SOURCE=2 -c -o best.o best.c
gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/mrbayes-3.2.6+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libhmsbeagle-1 -DUSECONFIG_H -o mb bayes.o command.o model.o mcmc.o likelihood.o proposal.o sumpt.o utils.o mbbeagle.o best.o -Wl,-z,relro -L/usr/lib -lhmsbeagle -lreadline -lm
make[2]: Leaving directory '/<<BUILDDIR>>/mrbayes-3.2.6+dfsg/src'
mv src/mb .
make[1]: Leaving directory '/<<BUILDDIR>>/mrbayes-3.2.6+dfsg'
dh_auto_test -a -O--sourcedirectory=src
fakeroot debian/rules binary-arch
dh binary-arch --sourcedirectory=src
dh_testroot -a -O--sourcedirectory=src
dh_prep -a -O--sourcedirectory=src
debian/rules override_dh_auto_install
make[1]: Entering directory '/<<BUILDDIR>>/mrbayes-3.2.6+dfsg'
echo "Do not try to install to /usr/local/bin"
Do not try to install to /usr/local/bin
make[1]: Leaving directory '/<<BUILDDIR>>/mrbayes-3.2.6+dfsg'
dh_install -a -O--sourcedirectory=src
dh_installdocs -a -O--sourcedirectory=src
dh_installchangelogs -a -O--sourcedirectory=src
dh_installman -a -O--sourcedirectory=src
dh_perl -a -O--sourcedirectory=src
dh_link -a -O--sourcedirectory=src
dh_strip_nondeterminism -a -O--sourcedirectory=src
debian/rules override_dh_compress
make[1]: Entering directory '/<<BUILDDIR>>/mrbayes-3.2.6+dfsg'
dh_compress --exclude=.pdf
make[1]: Leaving directory '/<<BUILDDIR>>/mrbayes-3.2.6+dfsg'
dh_fixperms -a -O--sourcedirectory=src
dh_strip -a -O--sourcedirectory=src
dh_makeshlibs -a -O--sourcedirectory=src
dh_shlibdeps -a -O--sourcedirectory=src
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/mrbayes/usr/bin/mb 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/mrbayes-mpi/usr/lib/mrbayes-mpi/mb-mpi was not linked against ld-linux-armhf.so.3 (it uses none of the library's symbols)
dh_installdeb -a -O--sourcedirectory=src
dh_gencontrol -a -O--sourcedirectory=src
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
dh_md5sums -a -O--sourcedirectory=src
dh_builddeb -a -O--sourcedirectory=src
dpkg-deb: building package 'mrbayes-mpi-dbgsym' in '../mrbayes-mpi-dbgsym_3.2.6+dfsg-1+b2_armhf.deb'.
dpkg-deb: building package 'mrbayes-dbgsym' in '../mrbayes-dbgsym_3.2.6+dfsg-1+b2_armhf.deb'.
dpkg-deb: building package 'mrbayes' in '../mrbayes_3.2.6+dfsg-1+b2_armhf.deb'.
dpkg-deb: building package 'mrbayes-mpi' in '../mrbayes-mpi_3.2.6+dfsg-1+b2_armhf.deb'.
dpkg-genchanges --build=any -mRaspbian wandboard test autobuilder <root@raspbian.org> >../mrbayes_3.2.6+dfsg-1+b2_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build mrbayes-3.2.6+dfsg
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 2016-10-02T02:54:14Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
mrbayes_3.2.6+dfsg-1+b2_armhf.changes:
--------------------------------------
Format: 1.8
Date: Wed, 30 Dec 2015 22:35:51 +0100
Source: mrbayes (3.2.6+dfsg-1)
Binary: mrbayes mrbayes-mpi mrbayes-doc
Binary-Only: yes
Architecture: armhf
Version: 3.2.6+dfsg-1+b2
Distribution: stretch-staging
Urgency: low
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Raspbian wandboard test autobuilder <root@raspbian.org>
Description:
mrbayes - Bayesian Inference of Phylogeny
mrbayes-doc - Bayesian Inference of Phylogeny - manual
mrbayes-mpi - Bayesian Inference of Phylogeny - mpi version
Changes:
mrbayes (3.2.6+dfsg-1+b2) stretch-staging; urgency=low, binary-only=yes
.
* Binary-only non-maintainer upload for armhf; no source changes.
* rebuild due to debcheck failure
Checksums-Sha1:
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66f87baf4ca43bf36f33e762e26610bb6eed59b6 853968 mrbayes-mpi-dbgsym_3.2.6+dfsg-1+b2_armhf.deb
bb79cb2bd13682f95f13d258f1c3a0b3c6227814 488548 mrbayes-mpi_3.2.6+dfsg-1+b2_armhf.deb
6c99d9e8dda9d5a1849d62823d5ab9ead3b8e216 480926 mrbayes_3.2.6+dfsg-1+b2_armhf.deb
Checksums-Sha256:
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32a59fb828ee962c192d35a7e7ae3b89e7b2bb7b3f1f6b1148d617dd145d1b7e 853968 mrbayes-mpi-dbgsym_3.2.6+dfsg-1+b2_armhf.deb
a538ea2d8c5680ee0bdc09b7af9e92b058bac6f3e08302e26a1ab1a99039715a 488548 mrbayes-mpi_3.2.6+dfsg-1+b2_armhf.deb
a6e1875869465b34b02f62d589e5f609d825bfa1f1e80271be699b2c78fa81af 480926 mrbayes_3.2.6+dfsg-1+b2_armhf.deb
Files:
e41fb8946bf5e78d3f69101edda0e8cb 832954 debug extra mrbayes-dbgsym_3.2.6+dfsg-1+b2_armhf.deb
e039b1124491bfe50bea35a248558445 853968 debug extra mrbayes-mpi-dbgsym_3.2.6+dfsg-1+b2_armhf.deb
2bde6c110f422055d1fd94804b953460 488548 science optional mrbayes-mpi_3.2.6+dfsg-1+b2_armhf.deb
8ae21af0988d192a596e0d2d17ae658c 480926 science optional mrbayes_3.2.6+dfsg-1+b2_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
mrbayes-dbgsym_3.2.6+dfsg-1+b2_armhf.deb
----------------------------------------
new debian package, version 2.0.
size 832954 bytes: control archive=493 bytes.
437 bytes, 13 lines control
106 bytes, 1 lines md5sums
Package: mrbayes-dbgsym
Source: mrbayes (3.2.6+dfsg-1)
Version: 3.2.6+dfsg-1+b2
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 889
Depends: mrbayes (= 3.2.6+dfsg-1+b2)
Section: debug
Priority: extra
Homepage: http://mrbayes.csit.fsu.edu/
Description: Debug symbols for mrbayes
Auto-Built-Package: debug-symbols
Build-Ids: 0d0734ffd1fc0bddfc8827b7b7485e09aeb23010
drwxr-xr-x root/root 0 2015-12-30 21:35 ./
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/lib/
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/lib/debug/
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/lib/debug/.build-id/0d/
-rw-r--r-- root/root 899204 2015-12-30 21:35 ./usr/lib/debug/.build-id/0d/0734ffd1fc0bddfc8827b7b7485e09aeb23010.debug
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/share/
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/share/doc/
lrwxrwxrwx root/root 0 2015-12-30 21:35 ./usr/share/doc/mrbayes-dbgsym -> mrbayes
mrbayes-mpi-dbgsym_3.2.6+dfsg-1+b2_armhf.deb
--------------------------------------------
new debian package, version 2.0.
size 853968 bytes: control archive=496 bytes.
449 bytes, 13 lines control
106 bytes, 1 lines md5sums
Package: mrbayes-mpi-dbgsym
Source: mrbayes (3.2.6+dfsg-1)
Version: 3.2.6+dfsg-1+b2
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 910
Depends: mrbayes-mpi (= 3.2.6+dfsg-1+b2)
Section: debug
Priority: extra
Homepage: http://mrbayes.csit.fsu.edu/
Description: Debug symbols for mrbayes-mpi
Auto-Built-Package: debug-symbols
Build-Ids: 567a67794bebbf7a97fa3c71d2a991b2faa19675
drwxr-xr-x root/root 0 2015-12-30 21:35 ./
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/lib/
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/lib/debug/
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/lib/debug/.build-id/56/
-rw-r--r-- root/root 921428 2015-12-30 21:35 ./usr/lib/debug/.build-id/56/7a67794bebbf7a97fa3c71d2a991b2faa19675.debug
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/share/
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/share/doc/
lrwxrwxrwx root/root 0 2015-12-30 21:35 ./usr/share/doc/mrbayes-mpi-dbgsym -> mrbayes-mpi
mrbayes-mpi_3.2.6+dfsg-1+b2_armhf.deb
-------------------------------------
new debian package, version 2.0.
size 488548 bytes: control archive=988 bytes.
1016 bytes, 21 lines control
485 bytes, 7 lines md5sums
Package: mrbayes-mpi
Source: mrbayes (3.2.6+dfsg-1)
Version: 3.2.6+dfsg-1+b2
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 1398
Depends: libc6 (>= 2.7), libhmsbeagle1v5, libopenmpi2, libreadline6 (>= 6.0), mpi-default-bin
Suggests: mpi-default, mrbayes-doc
Section: science
Priority: optional
Homepage: http://mrbayes.csit.fsu.edu/
Description: Bayesian Inference of Phylogeny - mpi version
Bayesian inference of phylogeny is based upon a quantity called the posterior
probability distribution of trees, which is the probability of a tree
conditioned on the observations. The conditioning is accomplished using
Bayes's theorem. The posterior probability distribution of trees is
impossible to calculate analytically; instead, MrBayes uses a simulation
technique called Markov chain Monte Carlo (or MCMC) to approximate the
posterior probabilities of trees.
.
This package offers a binary compiled for parallel computation with MPI.
drwxr-xr-x root/root 0 2015-12-30 21:35 ./
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/bin/
-rwxr-xr-x root/root 162 2015-12-30 21:35 ./usr/bin/mb-mpi
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/lib/
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/lib/mrbayes-mpi/
-rwxr-xr-x root/root 1411476 2015-12-30 21:35 ./usr/lib/mrbayes-mpi/mb-mpi
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/share/
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/share/doc/
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/share/doc/mrbayes-mpi/
-rw-r--r-- root/root 348 2015-12-30 21:35 ./usr/share/doc/mrbayes-mpi/README.Debian
-rw-r--r-- root/root 224 2015-12-30 21:35 ./usr/share/doc/mrbayes-mpi/changelog.Debian.armhf.gz
-rw-r--r-- root/root 1890 2015-12-30 21:35 ./usr/share/doc/mrbayes-mpi/changelog.Debian.gz
-rw-r--r-- root/root 1482 2015-12-30 21:35 ./usr/share/doc/mrbayes-mpi/copyright
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/share/man/
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/share/man/man1/
-rw-r--r-- root/root 226 2015-12-30 21:35 ./usr/share/man/man1/mb-mpi.1.gz
mrbayes_3.2.6+dfsg-1+b2_armhf.deb
---------------------------------
new debian package, version 2.0.
size 480926 bytes: control archive=886 bytes.
878 bytes, 19 lines control
400 bytes, 6 lines md5sums
Package: mrbayes
Source: mrbayes (3.2.6+dfsg-1)
Version: 3.2.6+dfsg-1+b2
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 1371
Depends: libc6 (>= 2.7), libhmsbeagle1v5, libreadline6 (>= 6.0)
Suggests: mrbayes-doc
Section: science
Priority: optional
Homepage: http://mrbayes.csit.fsu.edu/
Description: Bayesian Inference of Phylogeny
Bayesian inference of phylogeny is based upon a quantity called the posterior
probability distribution of trees, which is the probability of a tree
conditioned on the observations. The conditioning is accomplished using
Bayes's theorem. The posterior probability distribution of trees is
impossible to calculate analytically; instead, MrBayes uses a simulation
technique called Markov chain Monte Carlo (or MCMC) to approximate the
posterior probabilities of trees.
drwxr-xr-x root/root 0 2015-12-30 21:35 ./
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/bin/
-rwxr-xr-x root/root 1386860 2015-12-30 21:35 ./usr/bin/mb
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/share/
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/share/doc/
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/share/doc/mrbayes/
-rw-r--r-- root/root 311 2015-12-30 21:35 ./usr/share/doc/mrbayes/README.Debian
-rw-r--r-- root/root 224 2015-12-30 21:35 ./usr/share/doc/mrbayes/changelog.Debian.armhf.gz
-rw-r--r-- root/root 1890 2015-12-30 21:35 ./usr/share/doc/mrbayes/changelog.Debian.gz
-rw-r--r-- root/root 1482 2015-12-30 21:35 ./usr/share/doc/mrbayes/copyright
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/share/man/
drwxr-xr-x root/root 0 2015-12-30 21:35 ./usr/share/man/man1/
-rw-r--r-- root/root 206 2015-12-30 21:35 ./usr/share/man/man1/mb.1.gz
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 33824
Build-Time: 1449
Distribution: stretch-staging
Host Architecture: armhf
Install-Time: 280
Job: mrbayes_3.2.6+dfsg-1
Machine Architecture: armhf
Package: mrbayes
Package-Time: 1779
Source-Version: 3.2.6+dfsg-1
Space: 33824
Status: successful
Version: 3.2.6+dfsg-1+b2
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Finished at 2016-10-02T02:54:14Z
Build needed 00:29:39, 33824k disc space