sbuild (Debian sbuild) 0.62.6 (07 Dec 2011) on build04.raspbian.lan ╔══════════════════════════════════════════════════════════════════════════════╗ ║ tree-puzzle 5.2-7 (armhf) 22 May 2012 17:33 ║ ╚══════════════════════════════════════════════════════════════════════════════╝ Package: tree-puzzle Version: 5.2-7 Source Version: 5.2-7 Distribution: testing Architecture: armhf I: NOTICE: Log filtering will replace 'build/tree-puzzle-tYJlnw/tree-puzzle-5.2' with '«PKGBUILDDIR»' I: NOTICE: Log filtering will replace 'build/tree-puzzle-tYJlnw' with '«BUILDDIR»' I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/testing-armhf-sbuild-d448289b-7fc0-4138-8514-ae5b14589b35' with '«CHROOT»' ┌──────────────────────────────────────────────────────────────────────────────┐ │ Update chroot │ └──────────────────────────────────────────────────────────────────────────────┘ Hit http://repo.raspbian.lan testing InRelease Hit http://repo.raspbian.lan testing/main Sources Hit http://repo.raspbian.lan testing/main armhf Packages Ign http://repo.raspbian.lan testing/main TranslationIndex Ign http://repo.raspbian.lan testing/main Translation-en Reading package lists... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Fetch source files │ └──────────────────────────────────────────────────────────────────────────────┘ Check APT ───────── Checking available source versions... Download source files with APT ────────────────────────────── Reading package lists... Building dependency tree... Reading state information... NOTICE: 'tree-puzzle' packaging is maintained in the 'Svn' version control system at: svn://svn.debian.org/debian-med/trunk/packages/tree-puzzle/trunk/ Need to get 966 kB of source archives. Get:1 http://repo.raspbian.lan/raspbian/ testing/main tree-puzzle 5.2-7 (dsc) [1520 B] Get:2 http://repo.raspbian.lan/raspbian/ testing/main tree-puzzle 5.2-7 (tar) [875 kB] Get:3 http://repo.raspbian.lan/raspbian/ testing/main tree-puzzle 5.2-7 (diff) [89.1 kB] Fetched 966 kB in 0s (7311 kB/s) Download complete and in download only mode Check arch ────────── Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/«BUILDDIR»/resolver-xEDZXb/apt_archive/sbuild-build-depends-core-dummy.deb'. OK Reading package lists... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Install core build dependencies (apt-based resolver) │ └──────────────────────────────────────────────────────────────────────────────┘ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following NEW packages will be installed: sbuild-build-depends-core-dummy debconf: delaying package configuration, since apt-utils is not installed 0 upgraded, 1 newly installed, 0 to remove and 10 not upgraded. Need to get 0 B/706 B of archives. After this operation, 0 B of additional disk space will be used. Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 10675 files and directories currently installed.) Unpacking sbuild-build-depends-core-dummy (from .../sbuild-build-depends-core-dummy.deb) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... Merged Build-Depends: libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), autotools-dev, debhelper (>= 8), libopenmpi-dev, libsprng2-dev Filtered Build-Depends: libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), autotools-dev, debhelper (>= 8), libopenmpi-dev, libsprng2-dev dpkg-deb: building package `sbuild-build-depends-tree-puzzle-dummy' in `/«BUILDDIR»/resolver-k6uZ38/apt_archive/sbuild-build-depends-tree-puzzle-dummy.deb'. OK Reading package lists... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Install tree-puzzle build dependencies (apt-based resolver) │ └──────────────────────────────────────────────────────────────────────────────┘ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: adduser autotools-dev bsdmainutils debhelper file gettext gettext-base groff-base html2text intltool-debian libcroco3 libffi5 libgfortran3 libglib2.0-0 libgmp-dev libgmpxx4ldbl libibverbs-dev libibverbs1 libmagic1 libopenmpi-dev libopenmpi1.3 libpcre3 libpipeline1 libsprng2 libsprng2-dev libtorque2 libunistring0 libxml2 man-db openmpi-common po-debconf Suggested packages: wamerican wordlist whois vacation dh-make gettext-doc groff libgmp10-doc libmpfr-dev libsprng2-doc less www-browser libmail-box-perl Recommended packages: curl wget lynx-cur autopoint libglib2.0-data shared-mime-info xml-core libmail-sendmail-perl The following NEW packages will be installed: adduser autotools-dev bsdmainutils debhelper file gettext gettext-base groff-base html2text intltool-debian libcroco3 libffi5 libgfortran3 libglib2.0-0 libgmp-dev libgmpxx4ldbl libibverbs-dev libibverbs1 libmagic1 libopenmpi-dev libopenmpi1.3 libpcre3 libpipeline1 libsprng2 libsprng2-dev libtorque2 libunistring0 libxml2 man-db openmpi-common po-debconf sbuild-build-depends-tree-puzzle-dummy debconf: delaying package configuration, since apt-utils is not installed 0 upgraded, 32 newly installed, 0 to remove and 10 not upgraded. Need to get 0 B/14.6 MB of archives. After this operation, 41.7 MB of additional disk space will be used. Selecting previously unselected package libpcre3:armhf. (Reading database ... 10675 files and directories currently installed.) Unpacking libpcre3:armhf (from .../libpcre3_1%3a8.30-5_armhf.deb) ... Selecting previously unselected package libpipeline1:armhf. Unpacking libpipeline1:armhf (from .../libpipeline1_1.2.1-1_armhf.deb) ... Selecting previously unselected package libmagic1:armhf. Unpacking libmagic1:armhf (from .../libmagic1_5.11-1_armhf.deb) ... Selecting previously unselected package libxml2:armhf. Unpacking libxml2:armhf (from .../libxml2_2.7.8.dfsg-9_armhf.deb) ... Selecting previously unselected package libffi5:armhf. Unpacking libffi5:armhf (from .../libffi5_3.0.10-3+b3_armhf.deb) ... Selecting previously unselected package libglib2.0-0:armhf. Unpacking libglib2.0-0:armhf (from .../libglib2.0-0_2.32.2-1_armhf.deb) ... Selecting previously unselected package libcroco3:armhf. Unpacking libcroco3:armhf (from .../libcroco3_0.6.5-1_armhf.deb) ... Selecting previously unselected package libgfortran3:armhf. Unpacking libgfortran3:armhf (from .../libgfortran3_4.7.0-1.1+rpi_armhf.deb) ... Selecting previously unselected package libgmpxx4ldbl:armhf. Unpacking libgmpxx4ldbl:armhf (from .../libgmpxx4ldbl_2%3a5.0.5+dfsg-1.1_armhf.deb) ... Selecting previously unselected package libunistring0:armhf. Unpacking libunistring0:armhf (from .../libunistring0_0.9.3-5_armhf.deb) ... Selecting previously unselected package adduser. Unpacking adduser (from .../adduser_3.113+nmu1_all.deb) ... Selecting previously unselected package bsdmainutils. Unpacking bsdmainutils (from .../bsdmainutils_9.0.1_armhf.deb) ... Selecting previously unselected package groff-base. Unpacking groff-base (from .../groff-base_1.21-7_armhf.deb) ... Selecting previously unselected package man-db. Unpacking man-db (from .../man-db_2.6.1-2_armhf.deb) ... Selecting previously unselected package file. Unpacking file (from .../archives/file_5.11-1_armhf.deb) ... Selecting previously unselected package gettext-base. Unpacking gettext-base (from .../gettext-base_0.18.1.1-5+rpi1_armhf.deb) ... Selecting previously unselected package autotools-dev. Unpacking autotools-dev (from .../autotools-dev_20120210.1_all.deb) ... Selecting previously unselected package html2text. Unpacking html2text (from .../html2text_1.3.2a-15_armhf.deb) ... Selecting previously unselected package gettext. Unpacking gettext (from .../gettext_0.18.1.1-5+rpi1_armhf.deb) ... Selecting previously unselected package intltool-debian. Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ... Selecting previously unselected package po-debconf. Unpacking po-debconf (from .../po-debconf_1.0.16+nmu2_all.deb) ... Selecting previously unselected package debhelper. Unpacking debhelper (from .../debhelper_9.20120419_all.deb) ... Selecting previously unselected package libgmp-dev. Unpacking libgmp-dev (from .../libgmp-dev_2%3a5.0.5+dfsg-1.1_armhf.deb) ... Selecting previously unselected package libsprng2. Unpacking libsprng2 (from .../libsprng2_2.0a-8_armhf.deb) ... Selecting previously unselected package libsprng2-dev. Unpacking libsprng2-dev (from .../libsprng2-dev_2.0a-8_armhf.deb) ... Selecting previously unselected package libtorque2. Unpacking libtorque2 (from .../libtorque2_2.4.16+dfsg-1_armhf.deb) ... Selecting previously unselected package libibverbs1. Unpacking libibverbs1 (from .../libibverbs1_1.1.6-1_armhf.deb) ... Selecting previously unselected package libibverbs-dev. Unpacking libibverbs-dev (from .../libibverbs-dev_1.1.6-1_armhf.deb) ... Selecting previously unselected package libopenmpi1.3. Unpacking libopenmpi1.3 (from .../libopenmpi1.3_1.4.3-2.2_armhf.deb) ... Selecting previously unselected package openmpi-common. Unpacking openmpi-common (from .../openmpi-common_1.4.3-2.2_all.deb) ... Selecting previously unselected package libopenmpi-dev. Unpacking libopenmpi-dev (from .../libopenmpi-dev_1.4.3-2.2_armhf.deb) ... Selecting previously unselected package sbuild-build-depends-tree-puzzle-dummy. Unpacking sbuild-build-depends-tree-puzzle-dummy (from .../sbuild-build-depends-tree-puzzle-dummy.deb) ... Setting up libpcre3:armhf (1:8.30-5) ... Setting up libpipeline1:armhf (1.2.1-1) ... Setting up libmagic1:armhf (5.11-1) ... Setting up libxml2:armhf (2.7.8.dfsg-9) ... Setting up libffi5:armhf (3.0.10-3+b3) ... Setting up libglib2.0-0:armhf (2.32.2-1) ... No schema files found: doing nothing. Setting up libcroco3:armhf (0.6.5-1) ... Setting up libgfortran3:armhf (4.7.0-1.1+rpi) ... Setting up libgmpxx4ldbl:armhf (2:5.0.5+dfsg-1.1) ... Setting up libunistring0:armhf (0.9.3-5) ... Setting up adduser (3.113+nmu1) ... Setting up bsdmainutils (9.0.1) ... 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 groff-base (1.21-7) ... Setting up man-db (2.6.1-2) ... Building database of manual pages ... Setting up file (5.11-1) ... Setting up gettext-base (0.18.1.1-5+rpi1) ... Setting up autotools-dev (20120210.1) ... Setting up html2text (1.3.2a-15) ... Setting up gettext (0.18.1.1-5+rpi1) ... Setting up intltool-debian (0.35.0+20060710.1) ... Setting up po-debconf (1.0.16+nmu2) ... Setting up debhelper (9.20120419) ... Setting up libgmp-dev (2:5.0.5+dfsg-1.1) ... Setting up libsprng2 (2.0a-8) ... Setting up libsprng2-dev (2.0a-8) ... Setting up libtorque2 (2.4.16+dfsg-1) ... Setting up libibverbs1 (1.1.6-1) ... Setting up libibverbs-dev (1.1.6-1) ... Setting up libopenmpi1.3 (1.4.3-2.2) ... Setting up openmpi-common (1.4.3-2.2) ... Setting up libopenmpi-dev (1.4.3-2.2) ... update-alternatives: using /usr/lib/openmpi/include to provide /usr/include/mpi (mpi) in auto mode. Setting up sbuild-build-depends-tree-puzzle-dummy (0.invalid.0) ... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build environment │ └──────────────────────────────────────────────────────────────────────────────┘ Kernel: Linux 3.2.0-2-mx5 armhf (armv7l) Toolchain package versions: binutils_2.22-6 dpkg-dev_1.16.3 g++-4.6_4.6.3-1.1+rpi2 gcc-4.6_4.6.3-1.1+rpi2 libc6-dev_2.13-32 libstdc++6_4.7.0-1.1+rpi libstdc++6-4.6-dev_4.6.3-1.1+rpi2 linux-libc-dev_3.2.12-1 Package versions: adduser_3.113+nmu1 apt_0.8.15.10 autotools-dev_20120210.1 base-files_6.7 base-passwd_3.5.24 bash_4.2-2 binutils_2.22-6 bsdmainutils_9.0.1 bsdutils_1:2.20.1-4 build-essential_11.5+b1 bzip2_1.0.6-1 coreutils_8.13-3.1 cpp_4:4.6.2-4 cpp-4.6_4.6.3-1.1+rpi2 dash_0.5.7-3 debconf_1.5.42 debfoster_2.7-1.1 debhelper_9.20120419 debian-archive-keyring_2010.08.28 debianutils_4.3 diffutils_1:3.2-6 dpkg_1.16.3 dpkg-dev_1.16.3 e2fslibs_1.42.2-2 e2fsprogs_1.42.2-2 fakeroot_1.18.3-1 file_5.11-1 findutils_4.4.2-4 g++_4:4.6.2-4 g++-4.6_4.6.3-1.1+rpi2 gcc_4:4.6.2-4 gcc-4.4-base_4.4.7-1.1+rpi1 gcc-4.5-base_4.5.3-12+rpi1 gcc-4.6_4.6.3-1.1+rpi2 gcc-4.6-base_4.6.3-1.1+rpi2 gcc-4.7-base_4.7.0-1.1+rpi gettext_0.18.1.1-5+rpi1 gettext-base_0.18.1.1-5+rpi1 gnupg_1.4.12-4 gpgv_1.4.12-4 grep_2.11-3 groff-base_1.21-7 gzip_1.4-5 hostname_3.11 html2text_1.3.2a-15 initscripts_2.88dsf-22.1 insserv_1.14.0-3 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-5 libattr1_1:2.4.46-5 libblkid1_2.20.1-4 libbz2-1.0_1.0.6-1 libc-bin_2.13-32 libc-dev-bin_2.13-32 libc6_2.13-32 libc6-dev_2.13-32 libclass-isa-perl_0.36-3 libcomerr2_1.42.2-2 libcroco3_0.6.5-1 libdb5.1_5.1.29-1 libdpkg-perl_1.16.3 libffi5_3.0.10-3+b3 libfile-fcntllock-perl_0.14-1 libgc1c2_1:7.1-8 libgcc1_1:4.7.0-1.1+rpi libgdbm3_1.8.3-10 libgfortran3_4.7.0-1.1+rpi libglib2.0-0_2.32.2-1 libgmp-dev_2:5.0.5+dfsg-1.1 libgmp10_2:5.0.5+dfsg-1.1 libgmpxx4ldbl_2:5.0.5+dfsg-1.1 libgomp1_4.7.0-1.1+rpi libibverbs-dev_1.1.6-1 libibverbs1_1.1.6-1 liblocale-gettext-perl_1.05-7 liblzma5_5.1.1alpha+20110809-3 libmagic1_5.11-1 libmount1_2.20.1-4 libmpc2_0.9-4 libmpfr4_3.1.0-4 libncurses5_5.9-7 libncursesw5_5.9-7 libopenmpi-dev_1.4.3-2.2 libopenmpi1.3_1.4.3-2.2 libpam-modules_1.1.3-7 libpam-modules-bin_1.1.3-7 libpam-runtime_1.1.3-7 libpam0g_1.1.3-7.1 libpcre3_1:8.30-5 libpipeline1_1.2.1-1 libreadline6_6.2-8 libselinux1_2.1.9-2 libsemanage-common_2.1.6-2 libsemanage1_2.1.6-2 libsepol1_2.1.4-3 libslang2_2.2.4-10 libsprng2_2.0a-8 libsprng2-dev_2.0a-8 libss2_1.42.2-2 libstdc++6_4.7.0-1.1+rpi libstdc++6-4.6-dev_4.6.3-1.1+rpi2 libswitch-perl_2.16-2 libtext-charwidth-perl_0.04-7 libtext-iconv-perl_1.7-5 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libtinfo5_5.9-7 libtorque2_2.4.16+dfsg-1 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-20 libustr-1.0-1_1.0.4-2 libuuid1_2.20.1-4 libxml2_2.7.8.dfsg-9 linux-libc-dev_3.2.12-1 login_1:4.1.5-1 lsb-base_4.1+Debian2 make_3.81-8.2 man-db_2.6.1-2 mawk_1.3.3-17 mount_2.20.1-4 multiarch-support_2.13-32 ncurses-base_5.9-6 ncurses-bin_5.9-7 openmpi-common_1.4.3-2.2 passwd_1:4.1.5-1 patch_2.6.1-3 perl_5.14.2-9 perl-base_5.14.2-9 perl-modules_5.14.2-9 po-debconf_1.0.16+nmu2 readline-common_6.2-8 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-tree-puzzle-dummy_0.invalid.0 sed_4.2.1-9 sensible-utils_0.0.6 sysv-rc_2.88dsf-22.1 sysvinit_2.88dsf-22.1 sysvinit-utils_2.88dsf-22.1 tar_1.26-4 tzdata_2012c-1 ucf_3.0025+nmu3 util-linux_2.20.1-4 xz-utils_5.1.1alpha+20110809-3 zlib1g_1:1.2.7.dfsg-1 ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build │ └──────────────────────────────────────────────────────────────────────────────┘ Unpack source ───────────── gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error gpgv: Signature made Tue Dec 6 08:58:35 2011 UTC using DSA key ID C09FD35A gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./tree-puzzle_5.2-7.dsc dpkg-source: info: extracting tree-puzzle in tree-puzzle-5.2 dpkg-source: info: unpacking tree-puzzle_5.2.orig.tar.gz dpkg-source: info: unpacking tree-puzzle_5.2-7.debian.tar.gz dpkg-source: info: applying 20_no_copy_of_sprng.patch Check disc space ──────────────── Sufficient free space for build User Environment ──────────────── HOME=/sbuild-nonexistent LOGNAME=buildd PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/X11R6/bin:/usr/games SCHROOT_CHROOT_NAME=testing-armhf-sbuild SCHROOT_COMMAND=env SCHROOT_GID=108 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=testing-armhf-sbuild-d448289b-7fc0-4138-8514-ae5b14589b35 SCHROOT_UID=106 SCHROOT_USER=buildd SHELL=/bin/sh TERM=xterm USER=buildd dpkg-buildpackage ───────────────── dpkg-buildpackage: source package tree-puzzle dpkg-buildpackage: source version 5.2-7 dpkg-source --before-build tree-puzzle-5.2 dpkg-buildpackage: host architecture armhf fakeroot debian/rules clean dh clean dh_testdir dh_auto_clean dh_clean debian/rules build-arch dh build-arch dh_testdir -a dh_auto_configure -a configure: WARNING: unrecognized options: --disable-maintainer-mode checking build system type... arm-unknown-linux-gnueabihf checking host system type... arm-unknown-linux-gnueabihf checking target system type... arm-unknown-linux-gnueabihf checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking for gcc... gcc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... 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 for style of include used by make... GNU checking dependency style of gcc... none checking whether gcc and cc understand -c and -o together... yes checking for a BSD-compatible install... /usr/bin/install -c checking whether make sets $(MAKE)... (cached) yes checking for mpcc... no checking for hcc... no checking for mpicc... /usr/bin/mpicc checking for mpicc_lam... no checking for mpicc_mpich... no checking for cc... /usr/bin/cc checking whether /usr/bin/mpicc works as MPI compiler... yes checking whether /usr/bin/mpicc handles quotes correctly... yes checking whether gcc handles quotes correctly... yes checking for main in -lm... yes checking for main in -lsprng... yes checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking limits.h usability... yes checking limits.h presence... yes checking for limits.h... yes checking for an ANSI C-conforming const... yes checking for size_t... yes configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating doc/Makefile config.status: creating data/Makefile config.status: creating tests/Makefile config.status: creating src/config.h config.status: executing depfiles commands configure: WARNING: unrecognized options: --disable-maintainer-mode dh_auto_build -a make[1]: Entering directory `/«PKGBUILDDIR»' Making all in src make[2]: Entering directory `/«PKGBUILDDIR»/src' make all-am make[3]: Entering directory `/«PKGBUILDDIR»/src' gcc -DHAVE_CONFIG_H -I. -I.. -I. -g -O2 -c ./gamma.c && mv gamma.o sgamma.o gcc -DHAVE_CONFIG_H -I. -I.. -I. -g -O2 -c ./ml1.c && mv ml1.o sml1.o gcc -DHAVE_CONFIG_H -I. -I.. -I. -g -O2 -c ./ml2.c && mv ml2.o sml2.o gcc -DHAVE_CONFIG_H -I. -I.. -I. -g -O2 -c ./mlparam.c && mv mlparam.o smlparam.o gcc -DHAVE_CONFIG_H -I. -I.. -I. -g -O2 -c ./model1.c && mv model1.o smodel1.o gcc -DHAVE_CONFIG_H -I. -I.. -I. -g -O2 -c ./model2.c && mv model2.o smodel2.o gcc -DHAVE_CONFIG_H -I. -I.. -I. -g -O2 -c ./puzzle1.c && mv puzzle1.o spuzzle1.o gcc -DHAVE_CONFIG_H -I. -I.. -I. -g -O2 -c ./puzzle2.c && mv puzzle2.o spuzzle2.o gcc -DHAVE_CONFIG_H -I. -I.. -I. -g -O2 -c ./pstep.c && mv pstep.o spstep.o gcc -DHAVE_CONFIG_H -I. -I.. -I. -g -O2 -c ./util.c && mv util.o sutil.o gcc -DHAVE_CONFIG_H -I. -I.. -I. -g -O2 -c ./consensus.c && mv consensus.o sconsensus.o gcc -DHAVE_CONFIG_H -I. -I.. -I. -g -O2 -c ./treesort.c && mv treesort.o streesort.o gcc -DHAVE_CONFIG_H -I. -I.. -I. -g -O2 -c ./treetest.c && mv treetest.o streetest.o gcc -g -O2 sgamma.o sml1.o sml2.o smlparam.o smodel1.o smodel2.o spuzzle1.o spuzzle2.o spstep.o sutil.o sconsensus.o streesort.o streetest.o -lsprng -lm -o puzzle /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -g -O2 -c ./gamma.c && mv gamma.o pgamma.o /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -g -O2 -c ./ml1.c && mv ml1.o pml1.o /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -g -O2 -c ./ml2.c && mv ml2.o pml2.o /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -g -O2 -c ./mlparam.c && mv mlparam.o pmlparam.o /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -g -O2 -c ./model1.c && mv model1.o pmodel1.o /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -g -O2 -c ./model2.c && mv model2.o pmodel2.o /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -g -O2 -c ./puzzle1.c && mv puzzle1.o ppuzzle1.o /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -g -O2 -c ./puzzle2.c && mv puzzle2.o ppuzzle2.o /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -g -O2 -c ./pstep.c && mv pstep.o ppstep.o /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -g -O2 -c ./sched.c && mv sched.o psched.o /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -g -O2 -c ./util.c && mv util.o putil.o /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -g -O2 -c ./consensus.c && mv consensus.o pconsensus.o /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -g -O2 -c ./treesort.c && mv treesort.o ptreesort.o /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -g -O2 -c ./treetest.c && mv treetest.o ptreetest.o /usr/bin/mpicc -DPARALLEL -DHAVE_CONFIG_H -I. -I.. -I. -g -O2 -c ./ppuzzle.c /usr/bin/mpicc -g -O2 pgamma.o pml1.o pml2.o pmlparam.o pmodel1.o pmodel2.o ppuzzle1.o ppuzzle2.o ppstep.o psched.o putil.o pconsensus.o ptreesort.o ptreetest.o ppuzzle.o -lsprng -lm -o ppuzzle make[3]: Leaving directory `/«PKGBUILDDIR»/src' make[2]: Leaving directory `/«PKGBUILDDIR»/src' Making all in doc make[2]: Entering directory `/«PKGBUILDDIR»/doc' make[3]: Entering directory `/«PKGBUILDDIR»/doc' make[3]: Nothing to be done for `all-am'. make[3]: Leaving directory `/«PKGBUILDDIR»/doc' make[2]: Leaving directory `/«PKGBUILDDIR»/doc' Making all in data make[2]: Entering directory `/«PKGBUILDDIR»/data' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/«PKGBUILDDIR»/data' Making all in tests make[2]: Entering directory `/«PKGBUILDDIR»/tests' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/«PKGBUILDDIR»/tests' make[2]: Entering directory `/«PKGBUILDDIR»' make[2]: Nothing to be done for `all-am'. make[2]: Leaving directory `/«PKGBUILDDIR»' make[1]: Leaving directory `/«PKGBUILDDIR»' debian/rules override_dh_auto_test make[1]: Entering directory `/«PKGBUILDDIR»' # do not run check make[1]: Leaving directory `/«PKGBUILDDIR»' fakeroot debian/rules binary-arch dh binary-arch dh_testroot -a dh_prep -a dh_installdirs -a dh_auto_install -a make[1]: Entering directory `/«PKGBUILDDIR»' Making install in src make[2]: Entering directory `/«PKGBUILDDIR»/src' make[3]: Entering directory `/«PKGBUILDDIR»/src' test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/tmp/usr/bin" /usr/bin/install -c 'puzzle' '/«PKGBUILDDIR»/debian/tmp/usr/bin/puzzle' /usr/bin/install -c 'ppuzzle' '/«PKGBUILDDIR»/debian/tmp/usr/bin/ppuzzle' make[3]: Nothing to be done for `install-data-am'. make[3]: Leaving directory `/«PKGBUILDDIR»/src' make[2]: Leaving directory `/«PKGBUILDDIR»/src' Making install in doc make[2]: Entering directory `/«PKGBUILDDIR»/doc' make[3]: Entering directory `/«PKGBUILDDIR»/doc' make[4]: Entering directory `/«PKGBUILDDIR»/doc' make[4]: Nothing to be done for `install-exec-am'. make[4]: Nothing to be done for `install-data-am'. make[4]: Leaving directory `/«PKGBUILDDIR»/doc' make[3]: Leaving directory `/«PKGBUILDDIR»/doc' make[2]: Leaving directory `/«PKGBUILDDIR»/doc' Making install in data make[2]: Entering directory `/«PKGBUILDDIR»/data' make[3]: Entering directory `/«PKGBUILDDIR»/data' make[3]: Nothing to be done for `install-exec-am'. make[3]: Nothing to be done for `install-data-am'. make[3]: Leaving directory `/«PKGBUILDDIR»/data' make[2]: Leaving directory `/«PKGBUILDDIR»/data' Making install in tests make[2]: Entering directory `/«PKGBUILDDIR»/tests' make[3]: Entering directory `/«PKGBUILDDIR»/tests' make[3]: Nothing to be done for `install-exec-am'. make[3]: Nothing to be done for `install-data-am'. make[3]: Leaving directory `/«PKGBUILDDIR»/tests' make[2]: Leaving directory `/«PKGBUILDDIR»/tests' make[2]: Entering directory `/«PKGBUILDDIR»' make[3]: Entering directory `/«PKGBUILDDIR»' make[3]: Nothing to be done for `install-exec-am'. make[3]: Nothing to be done for `install-data-am'. make[3]: Leaving directory `/«PKGBUILDDIR»' make[2]: Leaving directory `/«PKGBUILDDIR»' make[1]: Leaving directory `/«PKGBUILDDIR»' debian/rules override_dh_install make[1]: Entering directory `/«PKGBUILDDIR»' dh_install # The binary has to be renamed because of the generic name mv `pwd`/debian/tmp/usr/bin/puzzle `pwd`/debian/tree-puzzle/usr/bin/tree-puzzle mv `pwd`/debian/tmp/usr/bin/ppuzzle `pwd`/debian/tree-ppuzzle/usr/bin/tree-ppuzzle make[1]: Leaving directory `/«PKGBUILDDIR»' dh_installdocs -a dh_installchangelogs -a dh_installexamples -a dh_installman -a dh_installcatalogs -a dh_installcron -a dh_installdebconf -a dh_installemacsen -a dh_installifupdown -a dh_installinfo -a dh_installinit -a dh_installmenu -a dh_installmime -a dh_installmodules -a dh_installlogcheck -a dh_installlogrotate -a dh_installpam -a dh_installppp -a dh_installudev -a dh_installwm -a dh_installxfonts -a dh_installgsettings -a dh_bugfiles -a dh_ucf -a dh_lintian -a dh_gconf -a dh_icons -a dh_perl -a dh_usrlocal -a dh_link -a debian/rules override_dh_compress make[1]: Entering directory `/«PKGBUILDDIR»' dh_compress --exclude=.pdf --exclude .phy --exclude trees --exclude .b make[1]: Leaving directory `/«PKGBUILDDIR»' dh_fixperms -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/tree-ppuzzle/usr/bin/tree-ppuzzle was not linked against libdl.so.2 (it uses none of the library's symbols). dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/tree-ppuzzle/usr/bin/tree-ppuzzle was not linked against libopen-pal.so.0 (it uses none of the library's symbols). dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/tree-ppuzzle/usr/bin/tree-ppuzzle was not linked against libutil.so.1 (it uses none of the library's symbols). dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/tree-ppuzzle/usr/bin/tree-ppuzzle was not linked against libnsl.so.1 (it uses none of the library's symbols). dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/tree-ppuzzle/usr/bin/tree-ppuzzle was not linked against libopen-rte.so.0 (it uses none of the library's symbols). dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a dpkg-deb: building package `tree-puzzle' in `../tree-puzzle_5.2-7_armhf.deb'. dpkg-deb: building package `tree-ppuzzle' in `../tree-ppuzzle_5.2-7_armhf.deb'. dpkg-genchanges -B -mbuildd >../tree-puzzle_5.2-7_armhf.changes dpkg-genchanges: arch-specific upload - not including arch-independent packages dpkg-genchanges: binary-only upload - not including any source code dpkg-source --after-build tree-puzzle-5.2 dpkg-buildpackage: binary only upload (no source included) ──────────────────────────────────────────────────────────────────────────────── Build finished at 20120522-1739 Finished ──────── I: Built successfully ┌──────────────────────────────────────────────────────────────────────────────┐ │ Changes │ └──────────────────────────────────────────────────────────────────────────────┘ tree-puzzle_5.2-7_armhf.changes: ──────────────────────────────── Format: 1.8 Date: Tue, 06 Dec 2011 08:40:41 +0100 Source: tree-puzzle Binary: tree-puzzle tree-ppuzzle tree-puzzle-doc Architecture: armhf Version: 5.2-7 Distribution: testing Urgency: low Maintainer: buildd Changed-By: Andreas Tille Description: tree-ppuzzle - Parallelized reconstruction of phylogenetic trees by maximum like tree-puzzle - Reconstruction of phylogenetic trees by maximum likelihood tree-puzzle-doc - Reconstruction of phylogenetic trees by maximum likelihood Closes: 640003 Changes: tree-puzzle (5.2-7) unstable; urgency=low . * debian/control: - Standards-Version: 3.9.2 (no changes needed) - Fixed Vcs fields - Do not Build-Depend cdbs, quilt any more * Debhelper 8 (control + compat) * debian/source/format: 3.0 (quilt) * debian/rules: short dh * removed debian/README.source which becomes superfluous by using source format 3.0 (quilt) * debian/*.docs: Leave AUTHOR+README in the binary packages * Use Debian menu instead of desktop files to not confuse Gnome users Closes: #640003 Checksums-Sha1: bee2fa16f3b435e0716e1e7b50ba78deb5fc8c1b 142696 tree-puzzle_5.2-7_armhf.deb dd2b50c580896abbb6108a2d5e21e64deb9f0a96 173618 tree-ppuzzle_5.2-7_armhf.deb Checksums-Sha256: c85e43d1b2aac7eaad7982687ba10d5c418ad05a737dd4a6b9397a4ae7b7e52b 142696 tree-puzzle_5.2-7_armhf.deb b7d5a7ee81c9dbce4e8d5ce4c1df290a1d2c514452ca6d39b1dc705192870f01 173618 tree-ppuzzle_5.2-7_armhf.deb Files: 00515fccf1db414c019601c9ffbe8be1 142696 science optional tree-puzzle_5.2-7_armhf.deb 6e9802c9e2fec22b16f6826e89be937d 173618 science optional tree-ppuzzle_5.2-7_armhf.deb ┌──────────────────────────────────────────────────────────────────────────────┐ │ Package contents │ └──────────────────────────────────────────────────────────────────────────────┘ tree-puzzle_5.2-7_armhf.deb ─────────────────────────── new debian package, version 2.0. size 142696 bytes: control archive= 1310 bytes. 1071 bytes, 22 lines control 685 bytes, 10 lines md5sums 185 bytes, 7 lines * postinst #!/bin/sh 160 bytes, 5 lines * postrm #!/bin/sh Package: tree-puzzle Version: 5.2-7 Architecture: armhf Maintainer: Debian Med Packaging Team Installed-Size: 292 Depends: libc6 (>= 2.13-28), libsprng2 Recommends: tree-puzzle-doc Suggests: phylip, treetool Section: science Priority: optional Homepage: http://www.tree-puzzle.de Description: Reconstruction of phylogenetic trees by maximum likelihood TREE-PUZZLE (the new name for PUZZLE) is an interactive console program that implements a fast tree search algorithm, quartet puzzling, that allows analysis of large data sets and automatically assigns estimations of support to each internal branch. TREE-PUZZLE also computes pairwise maximum likelihood distances as well as branch lengths for user specified trees. Branch lengths can also be calculated under the clock-assumption. In addition, TREE-PUZZLE offers a novel method, likelihood mapping, to investigate the support of a hypothesized internal branch without computing an overall tree and to visualize the phylogenetic content of a sequence alignment. drwxr-xr-x root/root 0 2012-05-22 17:39 ./ drwxr-xr-x root/root 0 2012-05-22 17:38 ./usr/ drwxr-xr-x root/root 0 2012-05-22 17:39 ./usr/bin/ -rwxr-xr-x root/root 232436 2012-05-22 17:39 ./usr/bin/tree-puzzle drwxr-xr-x root/root 0 2012-05-22 17:39 ./usr/share/ drwxr-xr-x root/root 0 2012-05-22 17:39 ./usr/share/menu/ -rw-r--r-- root/root 245 2011-12-06 00:57 ./usr/share/menu/tree-puzzle drwxr-xr-x root/root 0 2012-05-22 17:38 ./usr/share/doc/ drwxr-xr-x root/root 0 2012-05-22 17:39 ./usr/share/doc/tree-puzzle/ -rw-r--r-- root/root 1558 2004-06-30 19:39 ./usr/share/doc/tree-puzzle/README -rw-r--r-- root/root 411 2008-11-16 22:35 ./usr/share/doc/tree-puzzle/README.Debian -rw-r--r-- root/root 1742 2011-12-06 00:35 ./usr/share/doc/tree-puzzle/changelog.Debian.gz -rw-r--r-- root/root 11323 2004-07-14 12:33 ./usr/share/doc/tree-puzzle/changelog.gz -rw-r--r-- root/root 1987 2008-11-16 22:35 ./usr/share/doc/tree-puzzle/copyright -rw-r--r-- root/root 1063 2002-08-04 17:45 ./usr/share/doc/tree-puzzle/AUTHORS drwxr-xr-x root/root 0 2012-05-22 17:38 ./usr/share/pixmaps/ -rw-r--r-- root/root 1286 2008-11-16 22:35 ./usr/share/pixmaps/tree-puzzle.xpm drwxr-xr-x root/root 0 2012-05-22 17:39 ./usr/share/man/ drwxr-xr-x root/root 0 2012-05-22 17:39 ./usr/share/man/man1/ -rw-r--r-- root/root 798 2012-05-22 17:39 ./usr/share/man/man1/tree-puzzle.1.gz tree-ppuzzle_5.2-7_armhf.deb ──────────────────────────── new debian package, version 2.0. size 173618 bytes: control archive= 1358 bytes. 1186 bytes, 25 lines control 695 bytes, 10 lines md5sums 185 bytes, 7 lines * postinst #!/bin/sh 160 bytes, 5 lines * postrm #!/bin/sh Package: tree-ppuzzle Source: tree-puzzle Version: 5.2-7 Architecture: armhf Maintainer: Debian Med Packaging Team Installed-Size: 351 Depends: libc6 (>= 2.13-28), libopenmpi1.3, libsprng2, openmpi-bin Recommends: tree-puzzle-doc Suggests: phylip, treetool Section: science Priority: optional Homepage: http://www.tree-puzzle.de Description: Parallelized reconstruction of phylogenetic trees by maximum likelihood TREE-PUZZLE (the new name for PUZZLE) is an interactive console program that implements a fast tree search algorithm, quartet puzzling, that allows analysis of large data sets and automatically assigns estimations of support to each internal branch. TREE-PUZZLE also computes pairwise maximum likelihood distances as well as branch lengths for user specified trees. Branch lengths can also be calculated under the clock-assumption. In addition, TREE-PUZZLE offers a novel method, likelihood mapping, to investigate the support of a hypothesized internal branch without computing an overall tree and to visualize the phylogenetic content of a sequence alignment. . This is the parallelized version of tree-puzzle. drwxr-xr-x root/root 0 2012-05-22 17:39 ./ drwxr-xr-x root/root 0 2012-05-22 17:38 ./usr/ drwxr-xr-x root/root 0 2012-05-22 17:39 ./usr/bin/ -rwxr-xr-x root/root 293468 2012-05-22 17:39 ./usr/bin/tree-ppuzzle drwxr-xr-x root/root 0 2012-05-22 17:39 ./usr/share/ drwxr-xr-x root/root 0 2012-05-22 17:39 ./usr/share/menu/ -rw-r--r-- root/root 276 2011-12-06 00:54 ./usr/share/menu/tree-ppuzzle drwxr-xr-x root/root 0 2012-05-22 17:38 ./usr/share/doc/ drwxr-xr-x root/root 0 2012-05-22 17:39 ./usr/share/doc/tree-ppuzzle/ -rw-r--r-- root/root 1558 2004-06-30 19:39 ./usr/share/doc/tree-ppuzzle/README -rw-r--r-- root/root 411 2008-11-16 22:35 ./usr/share/doc/tree-ppuzzle/README.Debian -rw-r--r-- root/root 1742 2011-12-06 00:35 ./usr/share/doc/tree-ppuzzle/changelog.Debian.gz -rw-r--r-- root/root 11323 2004-07-14 12:33 ./usr/share/doc/tree-ppuzzle/changelog.gz -rw-r--r-- root/root 1987 2008-11-16 22:35 ./usr/share/doc/tree-ppuzzle/copyright -rw-r--r-- root/root 1063 2002-08-04 17:45 ./usr/share/doc/tree-ppuzzle/AUTHORS drwxr-xr-x root/root 0 2012-05-22 17:38 ./usr/share/pixmaps/ -rw-r--r-- root/root 1292 2008-11-16 22:35 ./usr/share/pixmaps/tree-ppuzzle.xpm drwxr-xr-x root/root 0 2012-05-22 17:39 ./usr/share/man/ drwxr-xr-x root/root 0 2012-05-22 17:39 ./usr/share/man/man1/ -rw-r--r-- root/root 804 2012-05-22 17:39 ./usr/share/man/man1/tree-ppuzzle.1.gz ┌──────────────────────────────────────────────────────────────────────────────┐ │ Post Build │ └──────────────────────────────────────────────────────────────────────────────┘ ┌──────────────────────────────────────────────────────────────────────────────┐ │ Cleanup │ └──────────────────────────────────────────────────────────────────────────────┘ Purging /«BUILDDIR» Reading package lists... Building dependency tree... Reading state information... 0 upgraded, 0 newly installed, 0 to remove and 10 not upgraded. Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: adduser* autotools-dev* bsdmainutils* debhelper* file* gettext* gettext-base* groff-base* html2text* intltool-debian* libcroco3* libffi5* libgfortran3* libglib2.0-0* libgmp-dev* libgmpxx4ldbl* libibverbs-dev* libibverbs1* libmagic1* libopenmpi-dev* libopenmpi1.3* libpcre3* libpipeline1* libsprng2* libsprng2-dev* libtorque2* libunistring0* libxml2* man-db* openmpi-common* po-debconf* sbuild-build-depends-core-dummy* sbuild-build-depends-tree-puzzle-dummy* 0 upgraded, 0 newly installed, 33 to remove and 10 not upgraded. After this operation, 41.7 MB disk space will be freed. (Reading database ... 13032 files and directories currently installed.) Removing sbuild-build-depends-tree-puzzle-dummy ... Removing libopenmpi-dev ... Removing libopenmpi1.3 ... Purging configuration files for libopenmpi1.3 ... Removing libibverbs-dev ... Removing libibverbs1 ... Purging configuration files for libibverbs1 ... Removing adduser ... Purging configuration files for adduser ... Removing autotools-dev ... Removing debhelper ... Removing man-db ... Purging configuration files for man-db ... Removing bsdmainutils ... Purging configuration files for bsdmainutils ... Removing file ... Removing po-debconf ... Removing intltool-debian ... Removing gettext ... Removing gettext-base ... Removing groff-base ... Purging configuration files for groff-base ... Removing html2text ... Purging configuration files for html2text ... Removing libcroco3:armhf ... Purging configuration files for libcroco3:armhf ... Removing libglib2.0-0:armhf ... Purging configuration files for libglib2.0-0:armhf ... Removing libffi5:armhf ... Purging configuration files for libffi5:armhf ... Removing libgfortran3:armhf ... Purging configuration files for libgfortran3:armhf ... Removing libsprng2-dev ... Removing libgmp-dev ... Removing libgmpxx4ldbl:armhf ... Purging configuration files for libgmpxx4ldbl:armhf ... Removing libmagic1:armhf ... Purging configuration files for libmagic1:armhf ... Removing libpcre3:armhf ... Purging configuration files for libpcre3:armhf ... Removing libpipeline1:armhf ... Purging configuration files for libpipeline1:armhf ... Removing libsprng2 ... Purging configuration files for libsprng2 ... Removing libtorque2 ... Purging configuration files for libtorque2 ... Removing libunistring0:armhf ... Purging configuration files for libunistring0:armhf ... Removing libxml2:armhf ... Purging configuration files for libxml2:armhf ... Removing openmpi-common ... Removing sbuild-build-depends-core-dummy ... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Summary │ └──────────────────────────────────────────────────────────────────────────────┘ Architecture: armhf Build-Space: 7732 Build-Time: 254 Distribution: testing Install-Time: 78 Job: tree-puzzle_5.2-7 Package: tree-puzzle Package-Time: 353 Source-Version: 5.2-7 Space: 7732 Status: successful Version: 5.2-7 ──────────────────────────────────────────────────────────────────────────────── Finished at 20120522-1739 Build needed 00:05:53, 7732k disc space