RUN: /bin/echo ['echo', 'Forking build subprocess...'] Forking build subprocess... RUN: /usr/share/launchpad-buildd/slavebin/unpack-chroot ['unpack-chroot', 'be866bcf8bc1180d1ce3bd3ffcd443b556a03fa5', '/home/buildd/filecache-default/b8283596f215708ae5d0660bb04f60fe8295b2fd'] Synching the system clock with the buildd NTP service... 12 Dec 04:57:57 ntpdate[17348]: adjust time server 10.211.37.1 offset 0.000078 sec Unpacking chroot for build be866bcf8bc1180d1ce3bd3ffcd443b556a03fa5 RUN: /usr/share/launchpad-buildd/slavebin/mount-chroot ['mount-chroot', 'be866bcf8bc1180d1ce3bd3ffcd443b556a03fa5'] Mounting chroot for build be866bcf8bc1180d1ce3bd3ffcd443b556a03fa5 RUN: /usr/share/launchpad-buildd/slavebin/override-sources-list ['override-sources-list', 'be866bcf8bc1180d1ce3bd3ffcd443b556a03fa5', 'deb http://ftpmaster.internal/ubuntu precise main universe'] Overriding sources.list in build-be866bcf8bc1180d1ce3bd3ffcd443b556a03fa5 RUN: /usr/share/launchpad-buildd/slavebin/update-debian-chroot ['update-debian-chroot', 'be866bcf8bc1180d1ce3bd3ffcd443b556a03fa5', 'armhf'] Updating debian chroot for build be866bcf8bc1180d1ce3bd3ffcd443b556a03fa5 Ign http://ftpmaster.internal precise InRelease Get:1 http://ftpmaster.internal precise Release.gpg [198 B] Ign http://archive-team.internal precise InRelease Ign http://archive-team.internal precise Release.gpg Get:2 http://ftpmaster.internal precise Release [49.6 kB] Get:3 http://archive-team.internal precise Release [752 B] Ign http://archive-team.internal precise/main TranslationIndex Get:4 http://archive-team.internal precise/main armhf Packages [1465 kB] Get:5 http://ftpmaster.internal precise/main armhf Packages [1231 kB] Get:6 http://ftpmaster.internal precise/universe armhf Packages [4080 kB] Ign http://archive-team.internal precise/main Translation-en Get:7 http://ftpmaster.internal precise/main TranslationIndex [3502 B] Get:8 http://ftpmaster.internal precise/universe TranslationIndex [2712 B] Get:9 http://ftpmaster.internal precise/main Translation-en [712 kB] Get:10 http://ftpmaster.internal precise/universe Translation-en [3291 kB] Fetched 10.8 MB in 26s (411 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... The following packages will be upgraded: binutils cpp-4.6 g++-4.6 gcc-4.6 gcc-4.6-base initscripts libgcc1 libgomp1 libstdc++6 libstdc++6-4.6-dev linux-libc-dev sysv-rc sysvinit-utils 13 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 18.8 MB of archives. After this operation, 15.4 kB of additional disk space will be used. WARNING: The following packages cannot be authenticated! libgomp1 gcc-4.6-base libstdc++6 cpp-4.6 libstdc++6-4.6-dev g++-4.6 gcc-4.6 libgcc1 binutils sysvinit-utils sysv-rc initscripts linux-libc-dev Authentication warning overridden. Get:1 http://ftpmaster.internal/ubuntu/ precise/main libgomp1 armhf 4.6.2-7ubuntu1 [23.6 kB] Get:2 http://ftpmaster.internal/ubuntu/ precise/main gcc-4.6-base armhf 4.6.2-7ubuntu1 [15.9 kB] Get:3 http://ftpmaster.internal/ubuntu/ precise/main libstdc++6 armhf 4.6.2-7ubuntu1 [268 kB] Get:4 http://ftpmaster.internal/ubuntu/ precise/main cpp-4.6 armhf 4.6.2-7ubuntu1 [4100 kB] Get:5 http://ftpmaster.internal/ubuntu/ precise/main libstdc++6-4.6-dev armhf 4.6.2-7ubuntu1 [1686 kB] Get:6 http://ftpmaster.internal/ubuntu/ precise/main g++-4.6 armhf 4.6.2-7ubuntu1 [4977 kB] Get:7 http://ftpmaster.internal/ubuntu/ precise/main gcc-4.6 armhf 4.6.2-7ubuntu1 [4532 kB] Get:8 http://ftpmaster.internal/ubuntu/ precise/main libgcc1 armhf 1:4.6.2-7ubuntu1 [22.0 kB] Get:9 http://ftpmaster.internal/ubuntu/ precise/main binutils armhf 2.22-2ubuntu1 [2257 kB] Get:10 http://ftpmaster.internal/ubuntu/ precise/main sysvinit-utils armhf 2.88dsf-13.10ubuntu6 [56.3 kB] Get:11 http://ftpmaster.internal/ubuntu/ precise/main sysv-rc all 2.88dsf-13.10ubuntu6 [44.0 kB] Get:12 http://ftpmaster.internal/ubuntu/ precise/main initscripts armhf 2.88dsf-13.10ubuntu6 [26.8 kB] Get:13 http://ftpmaster.internal/ubuntu/ precise/main linux-libc-dev armhf 3.2.0-4.10 [817 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 18.8 MB in 4s (4097 kB/s) (Reading database ... 11533 files and directories currently installed.) Preparing to replace libgomp1 4.6.2-6ubuntu1 (using .../libgomp1_4.6.2-7ubuntu1_armhf.deb) ... Unpacking replacement libgomp1 ... Preparing to replace gcc-4.6-base 4.6.2-6ubuntu1 (using .../gcc-4.6-base_4.6.2-7ubuntu1_armhf.deb) ... Unpacking replacement gcc-4.6-base ... Setting up gcc-4.6-base (4.6.2-7ubuntu1) ... (Reading database ... 11533 files and directories currently installed.) Preparing to replace libstdc++6 4.6.2-6ubuntu1 (using .../libstdc++6_4.6.2-7ubuntu1_armhf.deb) ... Unpacking replacement libstdc++6 ... Setting up libstdc++6 (4.6.2-7ubuntu1) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 11533 files and directories currently installed.) Preparing to replace cpp-4.6 4.6.2-6ubuntu1 (using .../cpp-4.6_4.6.2-7ubuntu1_armhf.deb) ... Unpacking replacement cpp-4.6 ... Preparing to replace libstdc++6-4.6-dev 4.6.2-6ubuntu1 (using .../libstdc++6-4.6-dev_4.6.2-7ubuntu1_armhf.deb) ... Unpacking replacement libstdc++6-4.6-dev ... Preparing to replace g++-4.6 4.6.2-6ubuntu1 (using .../g++-4.6_4.6.2-7ubuntu1_armhf.deb) ... Unpacking replacement g++-4.6 ... Preparing to replace gcc-4.6 4.6.2-6ubuntu1 (using .../gcc-4.6_4.6.2-7ubuntu1_armhf.deb) ... Unpacking replacement gcc-4.6 ... Preparing to replace libgcc1 1:4.6.2-6ubuntu1 (using .../libgcc1_1%3a4.6.2-7ubuntu1_armhf.deb) ... Unpacking replacement libgcc1 ... Setting up libgcc1 (1:4.6.2-7ubuntu1) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 11533 files and directories currently installed.) Preparing to replace binutils 2.22-1ubuntu1 (using .../binutils_2.22-2ubuntu1_armhf.deb) ... Unpacking replacement binutils ... Preparing to replace sysvinit-utils 2.88dsf-13.10ubuntu5 (using .../sysvinit-utils_2.88dsf-13.10ubuntu6_armhf.deb) ... Unpacking replacement sysvinit-utils ... Preparing to replace sysv-rc 2.88dsf-13.10ubuntu5 (using .../sysv-rc_2.88dsf-13.10ubuntu6_all.deb) ... Unpacking replacement sysv-rc ... Preparing to replace initscripts 2.88dsf-13.10ubuntu5 (using .../initscripts_2.88dsf-13.10ubuntu6_armhf.deb) ... Unpacking replacement initscripts ... Preparing to replace linux-libc-dev 3.2.0-3.9 (using .../linux-libc-dev_3.2.0-4.10_armhf.deb) ... Unpacking replacement linux-libc-dev ... Setting up libgomp1 (4.6.2-7ubuntu1) ... Setting up cpp-4.6 (4.6.2-7ubuntu1) ... Setting up binutils (2.22-2ubuntu1) ... Setting up gcc-4.6 (4.6.2-7ubuntu1) ... Setting up sysvinit-utils (2.88dsf-13.10ubuntu6) ... Setting up sysv-rc (2.88dsf-13.10ubuntu6) ... Setting up initscripts (2.88dsf-13.10ubuntu6) ... guest environment detected: Linking /run/shm to /dev/shm Setting up linux-libc-dev (3.2.0-4.10) ... Setting up g++-4.6 (4.6.2-7ubuntu1) ... Setting up libstdc++6-4.6-dev (4.6.2-7ubuntu1) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package ['sbuild-package', 'be866bcf8bc1180d1ce3bd3ffcd443b556a03fa5', 'armhf', 'precise', '--nolog', '--batch', '--archive=ubuntu', '--dist=precise', '--purpose=PRIMARY', '--architecture=armhf', '--comp=universe', 'rnahybrid_2.1-2.dsc'] Initiating build be866bcf8bc1180d1ce3bd3ffcd443b556a03fa5 with 2 processor cores. Automatic build of rnahybrid_2.1-2 on caph by sbuild/armhf 1.170.5 Build started at 20111212-0500 ****************************************************************************** rnahybrid_2.1-2.dsc exists in cwd ** Using build dependencies supplied by package: Build-Depends: debhelper (>= 5), autotools-dev, libg2-dev Checking for already installed source dependencies... debhelper: missing autotools-dev: missing libg2-dev: missing Checking for source dependency conflicts... /usr/bin/sudo /usr/bin/apt-get --purge $CHROOT_OPTIONS -q -y install debhelper autotools-dev libg2-dev Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: bsdmainutils file gettext gettext-base groff-base html2text intltool-debian libcroco3 libfreetype6 libg20 libgd2-noxpm libgettextpo0 libjpeg8 libmagic1 libpipeline1 libunistring0 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxml2 man-db po-debconf Suggested packages: wamerican wordlist whois vacation dh-make gettext-doc groff libgd-tools less www-browser libmail-box-perl Recommended packages: curl wget lynx-cur xml-core libmail-sendmail-perl The following NEW packages will be installed: autotools-dev bsdmainutils debhelper file gettext gettext-base groff-base html2text intltool-debian libcroco3 libfreetype6 libg2-dev libg20 libgd2-noxpm libgettextpo0 libjpeg8 libmagic1 libpipeline1 libunistring0 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxml2 man-db po-debconf 0 upgraded, 27 newly installed, 0 to remove and 0 not upgraded. Need to get 6828 kB of archives. After this operation, 20.2 MB of additional disk space will be used. WARNING: The following packages cannot be authenticated! libpipeline1 libxau6 libxdmcp6 libxcb1 libx11-data libx11-6 libxml2 libcroco3 libfreetype6 libunistring0 libgettextpo0 libjpeg8 libmagic1 file bsdmainutils gettext-base groff-base man-db autotools-dev html2text gettext intltool-debian po-debconf debhelper libgd2-noxpm libg20 libg2-dev Authentication warning overridden. Get:1 http://ftpmaster.internal/ubuntu/ precise/main libpipeline1 armhf 1.2.0-5 [20.7 kB] Get:2 http://ftpmaster.internal/ubuntu/ precise/main libxau6 armhf 1:1.0.6-4 [7150 B] Get:3 http://ftpmaster.internal/ubuntu/ precise/main libxdmcp6 armhf 1:1.1.0-4 [11.0 kB] Get:4 http://ftpmaster.internal/ubuntu/ precise/main libxcb1 armhf 1.7-4 [33.2 kB] Get:5 http://ftpmaster.internal/ubuntu/ precise/main libx11-data armhf 2:1.4.4-4 [172 kB] Get:6 http://ftpmaster.internal/ubuntu/ precise/main libx11-6 armhf 2:1.4.4-4 [685 kB] Get:7 http://ftpmaster.internal/ubuntu/ precise/main libxml2 armhf 2.7.8.dfsg-5ubuntu1 [550 kB] Get:8 http://ftpmaster.internal/ubuntu/ precise/main libcroco3 armhf 0.6.2-2 [80.9 kB] Get:9 http://ftpmaster.internal/ubuntu/ precise/main libfreetype6 armhf 2.4.8-1 [271 kB] Get:10 http://ftpmaster.internal/ubuntu/ precise/main libunistring0 armhf 0.9.3-5 [393 kB] Get:11 http://ftpmaster.internal/ubuntu/ precise/main libgettextpo0 armhf 0.18.1.1-5ubuntu3 [99.4 kB] Get:12 http://ftpmaster.internal/ubuntu/ precise/main libjpeg8 armhf 8c-2ubuntu4 [112 kB] Get:13 http://ftpmaster.internal/ubuntu/ precise/main libmagic1 armhf 5.09-2 [213 kB] Get:14 http://ftpmaster.internal/ubuntu/ precise/main file armhf 5.09-2 [19.0 kB] Get:15 http://ftpmaster.internal/ubuntu/ precise/main bsdmainutils armhf 8.2.3 [193 kB] Get:16 http://ftpmaster.internal/ubuntu/ precise/main gettext-base armhf 0.18.1.1-5ubuntu3 [54.7 kB] Get:17 http://ftpmaster.internal/ubuntu/ precise/main groff-base armhf 1.21-6 [926 kB] Get:18 http://ftpmaster.internal/ubuntu/ precise/main man-db armhf 2.6.0.2-3 [673 kB] Get:19 http://ftpmaster.internal/ubuntu/ precise/main autotools-dev all 20110511.1 [44.7 kB] Get:20 http://ftpmaster.internal/ubuntu/ precise/main html2text armhf 1.3.2a-15 [85.8 kB] Get:21 http://ftpmaster.internal/ubuntu/ precise/main gettext armhf 0.18.1.1-5ubuntu3 [1050 kB] Get:22 http://ftpmaster.internal/ubuntu/ precise/main intltool-debian all 0.35.0+20060710.1 [31.6 kB] Get:23 http://ftpmaster.internal/ubuntu/ precise/main po-debconf armhf 1.0.16+nmu1ubuntu1 [211 kB] Get:24 http://ftpmaster.internal/ubuntu/ precise/main debhelper armhf 8.9.9ubuntu1 [477 kB] Get:25 http://ftpmaster.internal/ubuntu/ precise/main libgd2-noxpm armhf 2.0.36~rc1~dfsg-6ubuntu1 [185 kB] Get:26 http://ftpmaster.internal/ubuntu/ precise/universe libg20 armhf 0.72-2.1 [36.3 kB] Get:27 http://ftpmaster.internal/ubuntu/ precise/universe libg2-dev armhf 0.72-2.1 [193 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 6828 kB in 1s (3828 kB/s) Selecting previously unselected package libpipeline1. (Reading database ... 11533 files and directories currently installed.) Unpacking libpipeline1 (from .../libpipeline1_1.2.0-5_armhf.deb) ... Selecting previously unselected package libxau6. Unpacking libxau6 (from .../libxau6_1%3a1.0.6-4_armhf.deb) ... Selecting previously unselected package libxdmcp6. Unpacking libxdmcp6 (from .../libxdmcp6_1%3a1.1.0-4_armhf.deb) ... Selecting previously unselected package libxcb1. Unpacking libxcb1 (from .../libxcb1_1.7-4_armhf.deb) ... Selecting previously unselected package libx11-data. Unpacking libx11-data (from .../libx11-data_2%3a1.4.4-4_armhf.deb) ... Selecting previously unselected package libx11-6. Unpacking libx11-6 (from .../libx11-6_2%3a1.4.4-4_armhf.deb) ... Selecting previously unselected package libxml2. Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-5ubuntu1_armhf.deb) ... Selecting previously unselected package libcroco3. Unpacking libcroco3 (from .../libcroco3_0.6.2-2_armhf.deb) ... Selecting previously unselected package libfreetype6. Unpacking libfreetype6 (from .../libfreetype6_2.4.8-1_armhf.deb) ... Selecting previously unselected package libunistring0. Unpacking libunistring0 (from .../libunistring0_0.9.3-5_armhf.deb) ... Selecting previously unselected package libgettextpo0. Unpacking libgettextpo0 (from .../libgettextpo0_0.18.1.1-5ubuntu3_armhf.deb) ... Selecting previously unselected package libjpeg8. Unpacking libjpeg8 (from .../libjpeg8_8c-2ubuntu4_armhf.deb) ... Selecting previously unselected package libmagic1. Unpacking libmagic1 (from .../libmagic1_5.09-2_armhf.deb) ... Selecting previously unselected package file. Unpacking file (from .../archives/file_5.09-2_armhf.deb) ... Selecting previously unselected package bsdmainutils. Unpacking bsdmainutils (from .../bsdmainutils_8.2.3_armhf.deb) ... Selecting previously unselected package gettext-base. Unpacking gettext-base (from .../gettext-base_0.18.1.1-5ubuntu3_armhf.deb) ... Selecting previously unselected package groff-base. Unpacking groff-base (from .../groff-base_1.21-6_armhf.deb) ... Selecting previously unselected package man-db. Unpacking man-db (from .../man-db_2.6.0.2-3_armhf.deb) ... Selecting previously unselected package autotools-dev. Unpacking autotools-dev (from .../autotools-dev_20110511.1_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_0.18.1.1-5ubuntu3_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+nmu1ubuntu1_armhf.deb) ... Selecting previously unselected package debhelper. Unpacking debhelper (from .../debhelper_8.9.9ubuntu1_armhf.deb) ... Selecting previously unselected package libgd2-noxpm. Unpacking libgd2-noxpm (from .../libgd2-noxpm_2.0.36~rc1~dfsg-6ubuntu1_armhf.deb) ... Selecting previously unselected package libg20. Unpacking libg20 (from .../libg20_0.72-2.1_armhf.deb) ... Selecting previously unselected package libg2-dev. Unpacking libg2-dev (from .../libg2-dev_0.72-2.1_armhf.deb) ... Setting up libpipeline1 (1.2.0-5) ... Setting up libxau6 (1:1.0.6-4) ... Setting up libxdmcp6 (1:1.1.0-4) ... Setting up libxcb1 (1.7-4) ... Setting up libx11-data (2:1.4.4-4) ... Setting up libx11-6 (2:1.4.4-4) ... Setting up libxml2 (2.7.8.dfsg-5ubuntu1) ... Setting up libcroco3 (0.6.2-2) ... Setting up libfreetype6 (2.4.8-1) ... Setting up libunistring0 (0.9.3-5) ... Setting up libgettextpo0 (0.18.1.1-5ubuntu3) ... Setting up libjpeg8 (8c-2ubuntu4) ... Setting up libmagic1 (5.09-2) ... Setting up file (5.09-2) ... Setting up bsdmainutils (8.2.3) ... 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 gettext-base (0.18.1.1-5ubuntu3) ... Setting up groff-base (1.21-6) ... Setting up man-db (2.6.0.2-3) ... Building database of manual pages ... Setting up autotools-dev (20110511.1) ... Setting up html2text (1.3.2a-15) ... Setting up gettext (0.18.1.1-5ubuntu3) ... Setting up intltool-debian (0.35.0+20060710.1) ... Setting up po-debconf (1.0.16+nmu1ubuntu1) ... Setting up debhelper (8.9.9ubuntu1) ... Setting up libgd2-noxpm (2.0.36~rc1~dfsg-6ubuntu1) ... Setting up libg20 (0.72-2.1) ... Setting up libg2-dev (0.72-2.1) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place Checking correctness of source dependencies... Toolchain package versions: libc6-dev_2.13-20ubuntu10 make_3.81-8.1ubuntu1 dpkg-dev_1.16.1.2ubuntu3 gcc-4.6_4.6.2-7ubuntu1 g++-4.6_4.6.2-7ubuntu1 binutils_2.22-2ubuntu1 libstdc++6-4.6-dev_4.6.2-7ubuntu1 libstdc++6_4.6.2-7ubuntu1 ------------------------------------------------------------------------------ gpgv: Signature made Mon Jun 1 21:17:09 2009 UTC using DSA key ID C09FD35A gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./rnahybrid_2.1-2.dsc dpkg-source: info: extracting rnahybrid in rnahybrid-2.1 dpkg-source: info: unpacking rnahybrid_2.1.orig.tar.gz dpkg-source: info: applying rnahybrid_2.1-2.diff.gz dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor): -D_FORTIFY_SOURCE=2 dpkg-buildpackage: export CXXFLAGS from dpkg-buildflags (origin: vendor): -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security dpkg-buildpackage: export FFLAGS from dpkg-buildflags (origin: vendor): -g -O2 dpkg-buildpackage: export LDFLAGS from dpkg-buildflags (origin: vendor): -Wl,-Bsymbolic-functions -Wl,-z,relro dpkg-buildpackage: source package rnahybrid dpkg-buildpackage: source version 2.1-2 dpkg-source --before-build rnahybrid-2.1 dpkg-buildpackage: host architecture armhf /usr/bin/fakeroot debian/rules clean dh_testdir cp -f /usr/share/misc/config.sub config.sub cp -f /usr/share/misc/config.guess config.guess ./configure --host=arm-linux-gnueabihf\ --build=arm-linux-gnueabihf\ --prefix=/usr\ --mandir=\${prefix}/share/man\ CFLAGS="-Wall -g -O2"\ LDFLAGS="-Wl,-z,defs" checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking for arm-linux-gnueabihf-gcc... arm-linux-gnueabihf-gcc checking for C compiler default output... 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 arm-linux-gnueabihf-gcc accepts -g... yes checking for arm-linux-gnueabihf-gcc option to accept ANSI C... none needed checking for style of include used by make... GNU checking dependency style of arm-linux-gnueabihf-gcc... gcc3 checking for log in -lm... yes checking for g2_open_vd in -lg2... yes checking for gdImageLine in -lgd... no checking how to run the C preprocessor... arm-linux-gnueabihf-gcc -E checking for egrep... 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 g2.h usability... yes checking g2.h presence... yes checking for g2.h... yes checking g2_PS.h usability... yes checking g2_PS.h presence... yes checking for g2_PS.h... yes checking for an ANSI C-conforming const... yes checking for inline... inline checking for size_t... yes configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating man/Makefile config.status: creating config.h config.status: executing depfiles commands dh_testdir dh_testroot rm -f build-stamp /usr/bin/make distclean make[1]: Entering directory `/build/buildd/rnahybrid-2.1' Making distclean in man make[2]: Entering directory `/build/buildd/rnahybrid-2.1/man' rm -f Makefile make[2]: Leaving directory `/build/buildd/rnahybrid-2.1/man' Making distclean in src make[2]: Entering directory `/build/buildd/rnahybrid-2.1/src' test -z "RNAhybrid RNAcalibrate RNAeffective" || rm -f RNAhybrid RNAcalibrate RNAeffective rm -f *.o core *.core rm -f *.tab.c rm -rf ./.deps rm -f Makefile rm -f TAGS ID GTAGS GRTAGS GSYMS GPATH tags make[2]: Leaving directory `/build/buildd/rnahybrid-2.1/src' Making distclean in . make[2]: Entering directory `/build/buildd/rnahybrid-2.1' rm -f Makefile rm -f config.h stamp-h1 rm -f TAGS ID GTAGS GRTAGS GSYMS GPATH tags make[2]: Leaving directory `/build/buildd/rnahybrid-2.1' rm -f config.status config.cache config.log configure.lineno make[1]: Leaving directory `/build/buildd/rnahybrid-2.1' dh_clean config.sub config.guess debian/rules build dh_testdir cp -f /usr/share/misc/config.sub config.sub cp -f /usr/share/misc/config.guess config.guess ./configure --host=arm-linux-gnueabihf\ --build=arm-linux-gnueabihf\ --prefix=/usr\ --mandir=\${prefix}/share/man\ CFLAGS="-Wall -g -O2"\ LDFLAGS="-Wl,-z,defs" checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking for arm-linux-gnueabihf-gcc... arm-linux-gnueabihf-gcc checking for C compiler default output... 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 arm-linux-gnueabihf-gcc accepts -g... yes checking for arm-linux-gnueabihf-gcc option to accept ANSI C... none needed checking for style of include used by make... GNU checking dependency style of arm-linux-gnueabihf-gcc... gcc3 checking for log in -lm... yes checking for g2_open_vd in -lg2... yes checking for gdImageLine in -lgd... no checking how to run the C preprocessor... arm-linux-gnueabihf-gcc -E checking for egrep... 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 g2.h usability... yes checking g2.h presence... yes checking for g2.h... yes checking g2_PS.h usability... yes checking g2_PS.h presence... yes checking for g2_PS.h... yes checking for an ANSI C-conforming const... yes checking for inline... inline checking for size_t... yes configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating man/Makefile config.status: creating config.h config.status: executing depfiles commands dh_testdir /usr/bin/make make[1]: Entering directory `/build/buildd/rnahybrid-2.1' /usr/bin/make all-recursive make[2]: Entering directory `/build/buildd/rnahybrid-2.1' Making all in src make[3]: Entering directory `/build/buildd/rnahybrid-2.1/src' if arm-linux-gnueabihf-gcc -DHAVE_CONFIG_H -I. -I. -I.. -I/usr/include -D_FORTIFY_SOURCE=2 -Wall -g -O2 -MT rnahybrid.o -MD -MP -MF ".deps/rnahybrid.Tpo" \ -c -o rnahybrid.o `test -f 'rnahybrid.c' || echo './'`rnahybrid.c; \ then mv ".deps/rnahybrid.Tpo" ".deps/rnahybrid.Po"; \ else rm -f ".deps/rnahybrid.Tpo"; exit 1; \ fi rnahybrid.c: In function 'main': rnahybrid.c:90:3: warning: implicit declaration of function 'getopt' [-Wimplicit-function-declaration] rnahybrid.c:185:3: warning: suggest parentheses around '&&' within '||' [-Wparentheses] rnahybrid.c:280:3: warning: implicit declaration of function 'tableAlloc' [-Wimplicit-function-declaration] rnahybrid.c:74:9: warning: unused variable 'plotfileextension' [-Wunused-variable] rnahybrid.c:32:14: warning: unused variable 'optind' [-Wunused-variable] rnahybrid.c: In function 'maximal_duplex_energy': rnahybrid.c:485:5: warning: array subscript has type 'char' [-Wchar-subscripts] rnahybrid.c:485:5: warning: array subscript has type 'char' [-Wchar-subscripts] rnahybrid.c:485:5: warning: array subscript has type 'char' [-Wchar-subscripts] rnahybrid.c:485:5: warning: array subscript has type 'char' [-Wchar-subscripts] rnahybrid.c:455:16: warning: unused variable 'compl_letter' [-Wunused-variable] rnahybrid.c:455:8: warning: unused variable 'letter' [-Wunused-variable] rnahybrid.c: In function 'main': rnahybrid.c:283:31: warning: 'querylength' may be used uninitialized in this function [-Wuninitialized] rnahybrid.c:283:31: warning: 'targetlength' may be used uninitialized in this function [-Wuninitialized] rnahybrid.c:401:43: warning: 'query_sq' may be used uninitialized in this function [-Wuninitialized] rnahybrid.c:439:15: warning: 'target_sq' may be used uninitialized in this function [-Wuninitialized] rnahybrid.c:387:33: warning: 'theta_intercept' may be used uninitialized in this function [-Wuninitialized] rnahybrid.c:387:27: warning: 'theta_slope' may be used uninitialized in this function [-Wuninitialized] rnahybrid.c:386:33: warning: 'xi_intercept' may be used uninitialized in this function [-Wuninitialized] rnahybrid.c:386:27: warning: 'xi_slope' may be used uninitialized in this function [-Wuninitialized] rnahybrid.c:220:14: warning: 'setname' may be used uninitialized in this function [-Wuninitialized] rnahybrid.c:294:25: warning: 'query_fn' may be used uninitialized in this function [-Wuninitialized] rnahybrid.c:406:27: warning: 'target_fn' may be used uninitialized in this function [-Wuninitialized] if arm-linux-gnueabihf-gcc -DHAVE_CONFIG_H -I. -I. -I.. -I/usr/include -D_FORTIFY_SOURCE=2 -Wall -g -O2 -MT hybrid_core.o -MD -MP -MF ".deps/hybrid_core.Tpo" \ -c -o hybrid_core.o `test -f 'hybrid_core.c' || echo './'`hybrid_core.c; \ then mv ".deps/hybrid_core.Tpo" ".deps/hybrid_core.Po"; \ else rm -f ".deps/hybrid_core.Tpo"; exit 1; \ fi hybrid_core.c: In function 'free_str_Hybrid': hybrid_core.c:670:19: warning: unused variable 'l2' [-Wunused-variable] hybrid_core.c: In function 'build_str_Hybrid': hybrid_core.c:738:16: warning: unused variable 'l' [-Wunused-variable] hybrid_core.c: In function 'calc_unpaired_left_bot': hybrid_core.c:886:4: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:886:4: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:898:4: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:898:4: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:910:4: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:910:4: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c: In function 'calc_closed': hybrid_core.c:943:7: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:943:7: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:959:4: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:959:4: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:977:4: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:977:4: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:996:4: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:996:4: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1005:3: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1005:3: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1022:5: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1022:5: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1023:7: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1023:7: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1023:7: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1023:7: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1030:3: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1030:3: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1030:3: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1030:3: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1040:7: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1040:7: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1041:9: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1041:9: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1041:9: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1041:9: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1048:5: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1048:5: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1048:5: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1048:5: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1058:9: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1058:9: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1059:4: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1059:4: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1059:4: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1059:4: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1066:7: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1066:7: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1066:7: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1066:7: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1085:7: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1085:7: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c: In function 'back_unpaired_left_bot': hybrid_core.c:1263:4: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1263:4: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1277:4: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1277:4: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1291:4: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1291:4: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c: In function 'back_closed': hybrid_core.c:1352:7: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1352:7: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1371:4: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1371:4: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1396:4: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1396:4: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1422:4: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1422:4: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1433:3: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1433:3: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1457:5: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1457:5: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1458:7: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1458:7: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1458:7: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1458:7: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1469:3: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1469:3: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1469:3: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1469:3: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1481:7: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1481:7: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1482:9: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1482:9: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1482:9: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1482:9: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1493:5: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1493:5: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1493:5: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1493:5: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1507:7: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1507:7: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1508:9: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1508:9: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1508:9: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1508:9: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1519:5: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1519:5: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1519:5: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1519:5: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1567:7: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c:1567:7: warning: array subscript has type 'char' [-Wchar-subscripts] hybrid_core.c: In function 'tableAlloc': hybrid_core.c:1639:14: warning: unused variable 'k' [-Wunused-variable] hybrid_core.c:1639:11: warning: unused variable 'j' [-Wunused-variable] hybrid_core.c: In function 'calc_closed': hybrid_core.c:1071:18: warning: 'v7d' may be used uninitialized in this function [-Wuninitialized] hybrid_core.c: In function 'back_hybrid': hybrid_core.c:1207:18: warning: 'best_k' may be used uninitialized in this function [-Wuninitialized] if arm-linux-gnueabihf-gcc -DHAVE_CONFIG_H -I. -I. -I.. -I/usr/include -D_FORTIFY_SOURCE=2 -Wall -g -O2 -MT energy.o -MD -MP -MF ".deps/energy.Tpo" \ -c -o energy.o `test -f 'energy.c' || echo './'`energy.c; \ then mv ".deps/energy.Tpo" ".deps/energy.Po"; \ else rm -f ".deps/energy.Tpo"; exit 1; \ fi energy.c: In function 'sr_energy': energy.c:33:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:33:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:33:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:33:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c: In function 'dr_energy': energy.c:38:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:38:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:38:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c: In function 'dli_energy': energy.c:42:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:42:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:42:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c: In function 'dl_energy': energy.c:46:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:46:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:46:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c: In function 'dri_energy': energy.c:50:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:50:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:50:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c: In function 'bl_stacking': energy.c:98:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:98:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:98:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:98:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:99:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:99:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:99:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:99:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c: In function 'int_special': energy.c:108:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:108:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:108:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:108:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:108:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:108:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:109:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:109:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:109:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:109:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:109:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:109:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:109:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:110:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:110:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:110:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:110:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:110:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:110:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:110:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:111:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:111:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:111:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:111:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:111:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:111:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:111:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:111:3: warning: array subscript has type 'char' [-Wchar-subscripts] energy.c:112:1: warning: control reaches end of non-void function [-Wreturn-type] energy.c: In function 'init_canPair': energy.c:12747:17: warning: array subscript is above array bounds [-Warray-bounds] if arm-linux-gnueabihf-gcc -DHAVE_CONFIG_H -I. -I. -I.. -I/usr/include -D_FORTIFY_SOURCE=2 -Wall -g -O2 -MT input.o -MD -MP -MF ".deps/input.Tpo" \ -c -o input.o `test -f 'input.c' || echo './'`input.c; \ then mv ".deps/input.Tpo" ".deps/input.Po"; \ else rm -f ".deps/input.Tpo"; exit 1; \ fi if arm-linux-gnueabihf-gcc -DHAVE_CONFIG_H -I. -I. -I.. -I/usr/include -D_FORTIFY_SOURCE=2 -Wall -g -O2 -MT fasta.o -MD -MP -MF ".deps/fasta.Tpo" \ -c -o fasta.o `test -f 'fasta.c' || echo './'`fasta.c; \ then mv ".deps/fasta.Tpo" ".deps/fasta.Po"; \ else rm -f ".deps/fasta.Tpo"; exit 1; \ fi fasta.c: In function 'nextAC': fasta.c:22:5: warning: implicit declaration of function 'exit' [-Wimplicit-function-declaration] fasta.c:22:5: warning: incompatible implicit declaration of built-in function 'exit' [enabled by default] fasta.c: In function 'nextSQ': fasta.c:63:3: warning: incompatible implicit declaration of built-in function 'exit' [enabled by default] fasta.c:31:8: warning: unused variable 's' [-Wunused-variable] if arm-linux-gnueabihf-gcc -DHAVE_CONFIG_H -I. -I. -I.. -I/usr/include -D_FORTIFY_SOURCE=2 -Wall -g -O2 -MT plot.o -MD -MP -MF ".deps/plot.Tpo" \ -c -o plot.o `test -f 'plot.c' || echo './'`plot.c; \ then mv ".deps/plot.Tpo" ".deps/plot.Po"; \ else rm -f ".deps/plot.Tpo"; exit 1; \ fi plot.c: In function 'hybridPlot': plot.c:63:3: warning: implicit declaration of function 'calloc' [-Wimplicit-function-declaration] plot.c:63:17: warning: incompatible implicit declaration of built-in function 'calloc' [enabled by default] plot.c:63:3: warning: implicit declaration of function 'strlen' [-Wimplicit-function-declaration] plot.c:63:24: warning: incompatible implicit declaration of built-in function 'strlen' [enabled by default] plot.c:67:3: warning: implicit declaration of function 'simple_xy_coordinates' [-Wimplicit-function-declaration] plot.c:248:5: warning: implicit declaration of function 'free' [-Wimplicit-function-declaration] plot.c:248:5: warning: incompatible implicit declaration of built-in function 'free' [enabled by default] plot.c:55:28: warning: unused variable 'basenr_y' [-Wunused-variable] plot.c:55:16: warning: unused variable 'basenr_x' [-Wunused-variable] plot.c: In function 'make_pair_table': plot.c:264:21: warning: incompatible implicit declaration of built-in function 'strlen' [enabled by default] plot.c:292:4: warning: incompatible implicit declaration of built-in function 'free' [enabled by default] plot.c: In function 'space': plot.c:301:28: warning: incompatible implicit declaration of built-in function 'calloc' [enabled by default] plot.c: In function 'nrerror': plot.c:311:3: warning: implicit declaration of function 'exit' [-Wimplicit-function-declaration] plot.c:311:3: warning: incompatible implicit declaration of built-in function 'exit' [enabled by default] plot.c: In function 'simple_xy_coordinates': plot.c:338:5: warning: implicit declaration of function 'cos' [-Wimplicit-function-declaration] plot.c:338:26: warning: incompatible implicit declaration of built-in function 'cos' [enabled by default] plot.c:339:5: warning: implicit declaration of function 'sin' [-Wimplicit-function-declaration] plot.c:339:26: warning: incompatible implicit declaration of built-in function 'sin' [enabled by default] plot.c:342:3: warning: incompatible implicit declaration of built-in function 'free' [enabled by default] plot.c: In function 'loop': plot.c:421:3: warning: incompatible implicit declaration of built-in function 'free' [enabled by default] plot.c: In function 'hybridPlot': plot.c:218:15: warning: 'ps_color_blue' may be used uninitialized in this function [-Wuninitialized] plot.c:216:15: warning: 'ps_color_red' may be used uninitialized in this function [-Wuninitialized] plot.c:239:12: warning: 'ps_color_black' may be used uninitialized in this function [-Wuninitialized] plot.c:168:17: warning: 'id_PS' may be used uninitialized in this function [-Wuninitialized] arm-linux-gnueabihf-gcc -Wall -g -O2 -Wl,-z,defs -o RNAhybrid rnahybrid.o hybrid_core.o energy.o input.o fasta.o plot.o -lg2 -lm if arm-linux-gnueabihf-gcc -DHAVE_CONFIG_H -I. -I. -I.. -I/usr/include -D_FORTIFY_SOURCE=2 -Wall -g -O2 -MT rnacalibrate.o -MD -MP -MF ".deps/rnacalibrate.Tpo" \ -c -o rnacalibrate.o `test -f 'rnacalibrate.c' || echo './'`rnacalibrate.c; \ then mv ".deps/rnacalibrate.Tpo" ".deps/rnacalibrate.Po"; \ else rm -f ".deps/rnacalibrate.Tpo"; exit 1; \ fi rnacalibrate.c: In function 'main': rnacalibrate.c:109:3: warning: implicit declaration of function 'getopt' [-Wimplicit-function-declaration] rnacalibrate.c:162:3: warning: suggest parentheses around '&&' within '||' [-Wparentheses] rnacalibrate.c:199:5: warning: implicit declaration of function 'strlen' [-Wimplicit-function-declaration] rnacalibrate.c:199:33: warning: incompatible implicit declaration of built-in function 'strlen' [enabled by default] rnacalibrate.c:200:5: warning: implicit declaration of function 'strcpy' [-Wimplicit-function-declaration] rnacalibrate.c:200:5: warning: incompatible implicit declaration of built-in function 'strcpy' [enabled by default] rnacalibrate.c:202:5: warning: implicit declaration of function 'remove_whitespace' [-Wimplicit-function-declaration] rnacalibrate.c:212:33: warning: incompatible implicit declaration of built-in function 'strlen' [enabled by default] rnacalibrate.c:213:5: warning: incompatible implicit declaration of built-in function 'strcpy' [enabled by default] rnacalibrate.c:235:7: warning: implicit declaration of function 'end' [-Wimplicit-function-declaration] rnacalibrate.c:237:2: warning: implicit declaration of function 'nextAC' [-Wimplicit-function-declaration] rnacalibrate.c:238:2: warning: implicit declaration of function 'nextSQ' [-Wimplicit-function-declaration] rnacalibrate.c:242:11: warning: incompatible implicit declaration of built-in function 'strlen' [enabled by default] rnacalibrate.c:245:4: warning: implicit declaration of function 'toupper' [-Wimplicit-function-declaration] rnacalibrate.c:253:4: warning: implicit declaration of function 'strchr' [-Wimplicit-function-declaration] rnacalibrate.c:253:22: warning: incompatible implicit declaration of built-in function 'strchr' [enabled by default] rnacalibrate.c:268:16: warning: incompatible implicit declaration of built-in function 'strlen' [enabled by default] rnacalibrate.c:279:20: warning: incompatible implicit declaration of built-in function 'strchr' [enabled by default] rnacalibrate.c:300:3: warning: implicit declaration of function 'init_constants' [-Wimplicit-function-declaration] rnacalibrate.c:301:3: warning: implicit declaration of function 'init_energies' [-Wimplicit-function-declaration] rnacalibrate.c:303:3: warning: implicit declaration of function 'tableAlloc' [-Wimplicit-function-declaration] rnacalibrate.c:315:3: warning: suggest parentheses around '&&' within '||' [-Wparentheses] rnacalibrate.c:329:15: warning: incompatible implicit declaration of built-in function 'strlen' [enabled by default] rnacalibrate.c:393:2: warning: implicit declaration of function 'convert_y' [-Wimplicit-function-declaration] rnacalibrate.c:416:8: warning: incompatible implicit declaration of built-in function 'strcpy' [enabled by default] rnacalibrate.c:417:8: warning: implicit declaration of function 'strcat' [-Wimplicit-function-declaration] rnacalibrate.c:417:8: warning: incompatible implicit declaration of built-in function 'strcat' [enabled by default] rnacalibrate.c:418:8: warning: implicit declaration of function 'convert_x' [-Wimplicit-function-declaration] rnacalibrate.c:443:4: warning: incompatible implicit declaration of built-in function 'strcpy' [enabled by default] rnacalibrate.c:458:6: warning: incompatible implicit declaration of built-in function 'strcpy' [enabled by default] rnacalibrate.c:459:6: warning: incompatible implicit declaration of built-in function 'strcat' [enabled by default] rnacalibrate.c:485:4: warning: incompatible implicit declaration of built-in function 'strcpy' [enabled by default] rnacalibrate.c:500:6: warning: incompatible implicit declaration of built-in function 'strcpy' [enabled by default] rnacalibrate.c:501:6: warning: incompatible implicit declaration of built-in function 'strcat' [enabled by default] rnacalibrate.c:528:4: warning: incompatible implicit declaration of built-in function 'strcpy' [enabled by default] rnacalibrate.c:576:4: warning: incompatible implicit declaration of built-in function 'strcpy' [enabled by default] rnacalibrate.c:577:4: warning: incompatible implicit declaration of built-in function 'strcat' [enabled by default] rnacalibrate.c:601:7: warning: incompatible implicit declaration of built-in function 'strcpy' [enabled by default] rnacalibrate.c:615:2: warning: incompatible implicit declaration of built-in function 'strcpy' [enabled by default] rnacalibrate.c:616:2: warning: incompatible implicit declaration of built-in function 'strcat' [enabled by default] rnacalibrate.c:641:7: warning: incompatible implicit declaration of built-in function 'strcpy' [enabled by default] rnacalibrate.c:653:2: warning: incompatible implicit declaration of built-in function 'strcpy' [enabled by default] rnacalibrate.c:654:2: warning: incompatible implicit declaration of built-in function 'strcat' [enabled by default] rnacalibrate.c:679:7: warning: incompatible implicit declaration of built-in function 'strcpy' [enabled by default] rnacalibrate.c:35:14: warning: unused variable 'optind' [-Wunused-variable] rnacalibrate.c:32:5: warning: 'target_sq' may be used uninitialized in this function [-Wuninitialized] rnacalibrate.c:322:14: warning: 'freq_filename' may be used uninitialized in this function [-Wuninitialized] rnacalibrate.c:556:27: warning: 'target_fn' may be used uninitialized in this function [-Wuninitialized] rnacalibrate.c:361:25: warning: 'query_fn' may be used uninitialized in this function [-Wuninitialized] if arm-linux-gnueabihf-gcc -DHAVE_CONFIG_H -I. -I. -I.. -I/usr/include -D_FORTIFY_SOURCE=2 -Wall -g -O2 -MT numerical.o -MD -MP -MF ".deps/numerical.Tpo" \ -c -o numerical.o `test -f 'numerical.c' || echo './'`numerical.c; \ then mv ".deps/numerical.Tpo" ".deps/numerical.Po"; \ else rm -f ".deps/numerical.Tpo"; exit 1; \ fi numerical.c: In function 'empirical_cumulative_distribution_function': numerical.c:32:3: warning: implicit declaration of function 'qsort' [-Wimplicit-function-declaration] numerical.c:36:3: warning: implicit declaration of function 'calloc' [-Wimplicit-function-declaration] numerical.c:36:21: warning: incompatible implicit declaration of built-in function 'calloc' [enabled by default] numerical.c: In function 'estimate_evd_parameters': numerical.c:156:3: warning: implicit declaration of function 'free' [-Wimplicit-function-declaration] numerical.c:156:3: warning: incompatible implicit declaration of built-in function 'free' [enabled by default] numerical.c: In function 'brent': numerical.c:289:2: warning: implicit declaration of function 'printf' [-Wimplicit-function-declaration] numerical.c:289:2: warning: incompatible implicit declaration of built-in function 'printf' [enabled by default] numerical.c:259:29: warning: 'e' may be used uninitialized in this function [-Wuninitialized] if arm-linux-gnueabihf-gcc -DHAVE_CONFIG_H -I. -I. -I.. -I/usr/include -D_FORTIFY_SOURCE=2 -Wall -g -O2 -MT random.o -MD -MP -MF ".deps/random.Tpo" \ -c -o random.o `test -f 'random.c' || echo './'`random.c; \ then mv ".deps/random.Tpo" ".deps/random.Po"; \ else rm -f ".deps/random.Tpo"; exit 1; \ fi random.c: In function 'read_dinucleotide_frequencies': random.c:29:7: warning: implicit declaration of function 'toupper' [-Wimplicit-function-declaration] random.c:25:9: warning: 'j' may be used uninitialized in this function [-Wuninitialized] random.c:25:7: warning: 'i' may be used uninitialized in this function [-Wuninitialized] if arm-linux-gnueabihf-gcc -DHAVE_CONFIG_H -I. -I. -I.. -I/usr/include -D_FORTIFY_SOURCE=2 -Wall -g -O2 -MT mt19937-1.o -MD -MP -MF ".deps/mt19937-1.Tpo" \ -c -o mt19937-1.o `test -f 'mt19937-1.c' || echo './'`mt19937-1.c; \ then mv ".deps/mt19937-1.Tpo" ".deps/mt19937-1.Po"; \ else rm -f ".deps/mt19937-1.Tpo"; exit 1; \ fi arm-linux-gnueabihf-gcc -Wall -g -O2 -Wl,-z,defs -o RNAcalibrate rnacalibrate.o hybrid_core.o numerical.o energy.o input.o fasta.o random.o mt19937-1.o plot.o -lg2 -lm if arm-linux-gnueabihf-gcc -DHAVE_CONFIG_H -I. -I. -I.. -I/usr/include -D_FORTIFY_SOURCE=2 -Wall -g -O2 -MT rnaeffective.o -MD -MP -MF ".deps/rnaeffective.Tpo" \ -c -o rnaeffective.o `test -f 'rnaeffective.c' || echo './'`rnaeffective.c; \ then mv ".deps/rnaeffective.Tpo" ".deps/rnaeffective.Po"; \ else rm -f ".deps/rnaeffective.Tpo"; exit 1; \ fi rnaeffective.c: In function 'main': rnaeffective.c:112:3: warning: implicit declaration of function 'getopt' [-Wimplicit-function-declaration] rnaeffective.c:165:3: warning: suggest parentheses around '&&' within '||' [-Wparentheses] rnaeffective.c:216:5: warning: implicit declaration of function 'strlen' [-Wimplicit-function-declaration] rnaeffective.c:216:33: warning: incompatible implicit declaration of built-in function 'strlen' [enabled by default] rnaeffective.c:217:5: warning: implicit declaration of function 'strcpy' [-Wimplicit-function-declaration] rnaeffective.c:217:5: warning: incompatible implicit declaration of built-in function 'strcpy' [enabled by default] rnaeffective.c:219:5: warning: implicit declaration of function 'remove_whitespace' [-Wimplicit-function-declaration] rnaeffective.c:231:33: warning: incompatible implicit declaration of built-in function 'strlen' [enabled by default] rnaeffective.c:232:5: warning: incompatible implicit declaration of built-in function 'strcpy' [enabled by default] rnaeffective.c:255:7: warning: implicit declaration of function 'end' [-Wimplicit-function-declaration] rnaeffective.c:257:2: warning: implicit declaration of function 'nextAC' [-Wimplicit-function-declaration] rnaeffective.c:258:2: warning: implicit declaration of function 'nextSQ' [-Wimplicit-function-declaration] rnaeffective.c:262:11: warning: incompatible implicit declaration of built-in function 'strlen' [enabled by default] rnaeffective.c:265:4: warning: implicit declaration of function 'toupper' [-Wimplicit-function-declaration] rnaeffective.c:273:4: warning: implicit declaration of function 'strchr' [-Wimplicit-function-declaration] rnaeffective.c:273:22: warning: incompatible implicit declaration of built-in function 'strchr' [enabled by default] rnaeffective.c:288:16: warning: incompatible implicit declaration of built-in function 'strlen' [enabled by default] rnaeffective.c:299:20: warning: incompatible implicit declaration of built-in function 'strchr' [enabled by default] rnaeffective.c:318:3: warning: implicit declaration of function 'init_constants' [-Wimplicit-function-declaration] rnaeffective.c:319:3: warning: implicit declaration of function 'init_energies' [-Wimplicit-function-declaration] rnaeffective.c:321:3: warning: implicit declaration of function 'tableAlloc' [-Wimplicit-function-declaration] rnaeffective.c:333:3: warning: suggest parentheses around '&&' within '||' [-Wparentheses] rnaeffective.c:346:15: warning: incompatible implicit declaration of built-in function 'strlen' [enabled by default] rnaeffective.c:412:7: warning: implicit declaration of function 'convert_y' [-Wimplicit-function-declaration] rnaeffective.c:436:6: warning: incompatible implicit declaration of built-in function 'strcpy' [enabled by default] rnaeffective.c:437:6: warning: implicit declaration of function 'strcat' [-Wimplicit-function-declaration] rnaeffective.c:437:6: warning: incompatible implicit declaration of built-in function 'strcat' [enabled by default] rnaeffective.c:438:6: warning: implicit declaration of function 'convert_x' [-Wimplicit-function-declaration] rnaeffective.c:520:3: warning: suggest parentheses around '&&' within '||' [-Wparentheses] rnaeffective.c:565:6: warning: incompatible implicit declaration of built-in function 'strcpy' [enabled by default] rnaeffective.c:566:6: warning: incompatible implicit declaration of built-in function 'strcat' [enabled by default] rnaeffective.c:29:14: warning: unused variable 'optind' [-Wunused-variable] rnaeffective.c:659:1: warning: control reaches end of non-void function [-Wreturn-type] rnaeffective.c:26:5: warning: 'l' may be used uninitialized in this function [-Wuninitialized] rnaeffective.c:640:49: warning: 'smallest_error_sum' may be used uninitialized in this function [-Wuninitialized] rnaeffective.c:494:33: warning: 'k' may be used uninitialized in this function [-Wuninitialized] rnaeffective.c:324:31: warning: 'targetlength' may be used uninitialized in this function [-Wuninitialized] rnaeffective.c:559:14: warning: 'target_sq' may be used uninitialized in this function [-Wuninitialized] rnaeffective.c:339:14: warning: 'freq_filename' may be used uninitialized in this function [-Wuninitialized] rnaeffective.c:545:22: warning: 'target_fn' may be used uninitialized in this function [-Wuninitialized] rnaeffective.c:381:24: warning: 'query_fn' may be used uninitialized in this function [-Wuninitialized] arm-linux-gnueabihf-gcc -Wall -g -O2 -Wl,-z,defs -o RNAeffective rnaeffective.o hybrid_core.o numerical.o energy.o input.o fasta.o random.o mt19937-1.o plot.o -lg2 -lm make[3]: Leaving directory `/build/buildd/rnahybrid-2.1/src' Making all in man make[3]: Entering directory `/build/buildd/rnahybrid-2.1/man' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `/build/buildd/rnahybrid-2.1/man' make[3]: Entering directory `/build/buildd/rnahybrid-2.1' make[3]: Nothing to be done for `all-am'. make[3]: Leaving directory `/build/buildd/rnahybrid-2.1' make[2]: Leaving directory `/build/buildd/rnahybrid-2.1' make[1]: Leaving directory `/build/buildd/rnahybrid-2.1' touch build-stamp /usr/bin/fakeroot debian/rules binary-arch src/RNAhybrid -s 3utr_worm -t examples/cel-hbl-1.fasta -q examples/cel-let-7.fasta target: F13D11.2.1|F13D11.2.1 length: 1458 miRNA : cel-let-7 length: 22 mfe: -28.2 kcal/mol p-value: 0.064406 position 1265 target 5' U GUU C A 3' AUUAUACAACC C ACCUCA UGAUAUGUUGG G UGGAGU miRNA 3' U AU A 5' src/RNAcalibrate -d examples/3UTR_worm.freq -k 50 -l 50,30 -q examples/cel-let-7.fasta cel-let-7 22 1.976094 0.367127 src/RNAhybrid -d 1.9,0.28 -t examples/cel-hbl-1.fasta -q examples/cel-let-7.fasta target: F13D11.2.1|F13D11.2.1 length: 1458 miRNA : cel-let-7 length: 22 mfe: -28.2 kcal/mol p-value: 0.052460 position 1265 target 5' U GUU C A 3' AUUAUACAACC C ACCUCA UGAUAUGUUGG G UGGAGU miRNA 3' U AU A 5' src/RNAhybrid -f 2,7 -d 1.9,0.28 -t examples/cel-hbl-1.fasta -q examples/cel-let-7.fasta target: F13D11.2.1|F13D11.2.1 length: 1458 miRNA : cel-let-7 length: 22 mfe: -27.3 kcal/mol p-value: 0.070821 position 1189 target 5' C AU U C 3' CUGUAUA GCCU CUACCUC GAUAUGU UGGA GAUGGAG miRNA 3' UU U U 5' src/RNAcalibrate -f 2,7 -d examples/3UTR_worm.freq -k 50 -l 50,30 -q examples/cel-let-7.fasta cel-let-7 14 1.205730 0.386573 src/RNAhybrid -s 3utr_worm -t examples/cbr-hbl-1.fasta -q examples/cel-let-7.fasta target: ENSCBRT00000006770.1|ENSCBRG00000005546.1 length: 1449 miRNA : cel-let-7 length: 22 mfe: -28.3 kcal/mol p-value: 0.060792 position 1333 target 5' C GUU C A 3' AUUAUACAACC C ACCUCA UGAUAUGUUGG G UGGAGU miRNA 3' U AU A 5' src/RNAeffective -k 30 -s -t examples/hbl-1.fasta -q examples/cel-let-7.fasta 1.000000 0.453111 1.100000 0.284611 1.200000 0.228179 1.300000 0.346541 1.400000 0.502964 1.500000 0.685511 1.600000 0.941851 1.700000 1.313063 1.800000 1.838282 1.900000 2.369042 2.000000 2.442903 Effective number: 1.200000 make: [test] Error 27 (ignored) dh_testdir dh_testroot dh_clean -k dh_clean: dh_clean -k is deprecated; use dh_prep instead dh_installdirs /usr/bin/make DESTDIR=/build/buildd/rnahybrid-2.1/debian/rnahybrid install make[1]: Entering directory `/build/buildd/rnahybrid-2.1' Making install in src make[2]: Entering directory `/build/buildd/rnahybrid-2.1/src' make[3]: Entering directory `/build/buildd/rnahybrid-2.1/src' /bin/bash ../mkinstalldirs /build/buildd/rnahybrid-2.1/debian/rnahybrid/usr/bin mkdir -p -- /build/buildd/rnahybrid-2.1/debian/rnahybrid/usr/bin /usr/bin/install -c RNAhybrid /build/buildd/rnahybrid-2.1/debian/rnahybrid/usr/bin/RNAhybrid /usr/bin/install -c RNAcalibrate /build/buildd/rnahybrid-2.1/debian/rnahybrid/usr/bin/RNAcalibrate /usr/bin/install -c RNAeffective /build/buildd/rnahybrid-2.1/debian/rnahybrid/usr/bin/RNAeffective make[3]: Nothing to be done for `install-data-am'. make[3]: Leaving directory `/build/buildd/rnahybrid-2.1/src' make[2]: Leaving directory `/build/buildd/rnahybrid-2.1/src' Making install in man make[2]: Entering directory `/build/buildd/rnahybrid-2.1/man' make[3]: Entering directory `/build/buildd/rnahybrid-2.1/man' make[3]: Nothing to be done for `install-exec-am'. /bin/bash ../mkinstalldirs /build/buildd/rnahybrid-2.1/debian/rnahybrid/usr/share/man/man1 mkdir -p -- /build/buildd/rnahybrid-2.1/debian/rnahybrid/usr/share/man/man1 /usr/bin/install -c -m 644 ./RNAhybrid.1 /build/buildd/rnahybrid-2.1/debian/rnahybrid/usr/share/man/man1/RNAhybrid.1 /usr/bin/install -c -m 644 ./RNAcalibrate.1 /build/buildd/rnahybrid-2.1/debian/rnahybrid/usr/share/man/man1/RNAcalibrate.1 /usr/bin/install -c -m 644 ./RNAeffective.1 /build/buildd/rnahybrid-2.1/debian/rnahybrid/usr/share/man/man1/RNAeffective.1 make[3]: Leaving directory `/build/buildd/rnahybrid-2.1/man' make[2]: Leaving directory `/build/buildd/rnahybrid-2.1/man' make[2]: Entering directory `/build/buildd/rnahybrid-2.1' make[3]: Entering directory `/build/buildd/rnahybrid-2.1' make[3]: Nothing to be done for `install-exec-am'. make[3]: Nothing to be done for `install-data-am'. make[3]: Leaving directory `/build/buildd/rnahybrid-2.1' make[2]: Leaving directory `/build/buildd/rnahybrid-2.1' make[1]: Leaving directory `/build/buildd/rnahybrid-2.1' dh_testdir dh_testroot dh_installchangelogs ChangeLog dh_installdocs README dh_installexamples examples/* dh_link dh_strip dh_strip debug symbol extraction: all non-arch-all packages for this build platform armhf: rnahybrid dh_strip debug symbol extraction: packages to act on: rnahybrid dh_strip debug symbol extraction: ignored packages: dpkg-deb: building package `rnahybrid-dbgsym' in `../rnahybrid-dbgsym_2.1-2_armhf.ddeb'. dh_compress dh_fixperms dh_installdeb dh_shlibdeps dh_gencontrol dh_md5sums dh_builddeb INFO: pkgstriptranslations version 109 pkgstriptranslations: processing rnahybrid (in debian/rnahybrid); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/rnahybrid/DEBIAN/control, package rnahybrid, directory debian/rnahybrid .. removing usr/share/doc/rnahybrid/changelog.gz dpkg-deb: warning: 'debian/rnahybrid/DEBIAN/control' contains user-defined field 'Original-Maintainer' dpkg-deb: warning: ignoring 1 warning about the control file(s) dpkg-deb: building package `rnahybrid' in `../rnahybrid_2.1-2_armhf.deb'. dpkg-genchanges -B -mUbuntu/armel Build Daemon >../rnahybrid_2.1-2_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 rnahybrid-2.1 dpkg-buildpackage: binary only upload (no source included) ****************************************************************************** Build finished at 20111212-0513 Publishing debug debs. chroot-autobuild/build/buildd/rnahybrid_2.1-2_armhf.deb: new debian package, version 2.0. size 378274 bytes: control archive= 1304 bytes. 973 bytes, 20 lines control 1327 bytes, 18 lines md5sums Package: rnahybrid Version: 2.1-2 Architecture: armhf Maintainer: Ubuntu Developers Original-Maintainer: Debian-Med Packaging Team Installed-Size: 919 Depends: libc6 (>= 2.7), libg20 Section: science Priority: optional Homepage: http://bibiserv.techfak.uni-bielefeld.de/rnahybrid/submission.html Description: Fast and effective prediction of microRNA/target duplexes RNAhybrid is a tool for finding the minimum free energy hybridisation of a long and a short RNA. The hybridisation is performed in a kind of domain mode, ie. The short sequence is hybridised to the best fitting part of the long one. The tool is primarily meant as a means for microRNA target prediction. . Public research assisted by RNAhybrid should cite: Marc Rehmsmeier, Peter Steffen, Matthias Höchsmann, Robert Giegerich Fast and effective prediction of microRNA/target duplexes RNA, 10:1507-1517, 2004. chroot-autobuild/build/buildd/rnahybrid_2.1-2_armhf.deb: drwxr-xr-x root/root 0 2011-12-12 05:13 ./ drwxr-xr-x root/root 0 2011-12-12 05:13 ./usr/ drwxr-xr-x root/root 0 2011-12-12 05:13 ./usr/share/ drwxr-xr-x root/root 0 2011-12-12 05:13 ./usr/share/man/ drwxr-xr-x root/root 0 2011-12-12 05:13 ./usr/share/man/man1/ -rw-r--r-- root/root 2520 2011-12-12 05:13 ./usr/share/man/man1/RNAhybrid.1.gz -rw-r--r-- root/root 1724 2011-12-12 05:13 ./usr/share/man/man1/RNAcalibrate.1.gz -rw-r--r-- root/root 1602 2011-12-12 05:13 ./usr/share/man/man1/RNAeffective.1.gz drwxr-xr-x root/root 0 2011-12-12 05:13 ./usr/share/doc/ drwxr-xr-x root/root 0 2011-12-12 05:13 ./usr/share/doc/rnahybrid/ -rw-r--r-- root/root 2045 2004-11-15 20:23 ./usr/share/doc/rnahybrid/README.gz drwxr-xr-x root/root 0 2011-12-12 05:13 ./usr/share/doc/rnahybrid/examples/ -rw-r--r-- root/root 277 2004-03-01 15:37 ./usr/share/doc/rnahybrid/examples/3UTR_fly.freq -rw-r--r-- root/root 1573 2004-11-15 19:41 ./usr/share/doc/rnahybrid/examples/cbr-hbl-1.fasta -rw-r--r-- root/root 270 2004-03-01 15:51 ./usr/share/doc/rnahybrid/examples/3UTR_worm.freq -rw-r--r-- root/root 3125 2004-11-15 19:43 ./usr/share/doc/rnahybrid/examples/hbl-1.fasta -rw-r--r-- root/root 34 2004-11-15 20:11 ./usr/share/doc/rnahybrid/examples/cel-let-7.fasta -rw-r--r-- root/root 281 2004-03-11 12:59 ./usr/share/doc/rnahybrid/examples/coding_worm.freq -rw-r--r-- root/root 274 2004-03-01 15:54 ./usr/share/doc/rnahybrid/examples/3UTR_human.freq -rw-r--r-- root/root 286 2004-03-23 11:53 ./usr/share/doc/rnahybrid/examples/coding_fly.freq -rw-r--r-- root/root 1552 2004-11-15 19:37 ./usr/share/doc/rnahybrid/examples/cel-hbl-1.fasta -rw-r--r-- root/root 1901 2011-12-12 05:00 ./usr/share/doc/rnahybrid/copyright -rw-r--r-- root/root 319 2011-12-12 05:00 ./usr/share/doc/rnahybrid/changelog.Debian.gz drwxr-xr-x root/root 0 2011-12-12 05:13 ./usr/bin/ -rwxr-xr-x root/root 288348 2011-12-12 05:13 ./usr/bin/RNAhybrid -rwxr-xr-x root/root 296568 2011-12-12 05:13 ./usr/bin/RNAcalibrate -rwxr-xr-x root/root 296572 2011-12-12 05:13 ./usr/bin/RNAeffective rnahybrid_2.1-2_armhf.changes: Format: 1.8 Date: Mon, 01 Jun 2009 23:01:47 +0200 Source: rnahybrid Binary: rnahybrid Architecture: armhf Version: 2.1-2 Distribution: precise Urgency: low Maintainer: Ubuntu/armel Build Daemon Changed-By: Andreas Tille Description: rnahybrid - Fast and effective prediction of microRNA/target duplexes Changes: rnahybrid (2.1-2) unstable; urgency=low . [ Charles Plessy ] * Moved the Homepage: field out from the package's description. * Updated my email address. . [ Andreas Tille ] * Standards-Version: 3.8.1 (no changes needed) Checksums-Sha1: 74dc81aafe11d7901f8cc20756078c7bc5cd731f 378274 rnahybrid_2.1-2_armhf.deb Checksums-Sha256: b5da86fadb21259447e544716fdd751dc9469ff4c4c22b134463958692a4bb07 378274 rnahybrid_2.1-2_armhf.deb Files: 7f6c159ed1110c5cbab3a90c03df31c9 378274 science optional rnahybrid_2.1-2_armhf.deb ****************************************************************************** Built successfully Purging chroot-autobuild/build/buildd/rnahybrid-2.1 ------------------------------------------------------------------------------ /usr/bin/sudo dpkg --purge intltool-debian groff-base libx11-data libgd2-noxpm libxcb1 gettext file libg2-dev libg20 html2text libxdmcp6 gettext-base debhelper autotools-dev po-debconf libunistring0 libcroco3 libmagic1 libpipeline1 libxml2 libjpeg8 bsdmainutils libxau6 libfreetype6 libgettextpo0 man-db libx11-6 (Reading database ... 13028 files and directories currently installed.) Removing libg2-dev ... Removing libg20 ... Purging configuration files for libg20 ... Removing debhelper ... Removing autotools-dev ... Removing po-debconf ... Removing man-db ... Purging configuration files for man-db ... Removing catpages as well as /var/cache/man hierarchy. Removing libx11-6 ... Purging configuration files for libx11-6 ... Removing intltool-debian ... Removing groff-base ... Purging configuration files for groff-base ... Removing libx11-data ... Removing libgd2-noxpm ... Purging configuration files for libgd2-noxpm ... Removing libxcb1 ... Purging configuration files for libxcb1 ... Removing gettext ... Removing file ... Removing html2text ... Purging configuration files for html2text ... Removing libxdmcp6 ... Purging configuration files for libxdmcp6 ... Removing gettext-base ... Removing libmagic1 ... Purging configuration files for libmagic1 ... Removing libpipeline1 ... Purging configuration files for libpipeline1 ... Removing libjpeg8 ... Removing bsdmainutils ... Purging configuration files for bsdmainutils ... Removing libxau6 ... Purging configuration files for libxau6 ... Removing libfreetype6 ... Purging configuration files for libfreetype6 ... Removing libgettextpo0 ... Removing libunistring0 ... Purging configuration files for libunistring0 ... Removing libcroco3 ... Purging configuration files for libcroco3 ... Removing libxml2 ... Purging configuration files for libxml2 ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place ****************************************************************************** Finished at 20111212-0513 Build needed 00:12:48, 4656k disk space Can't open average time db /var/debbuild/avg-build-times Can't open average space db /var/debbuild/avg-build-space RUN: /usr/share/launchpad-buildd/slavebin/scan-for-processes ['/usr/share/launchpad-buildd/slavebin/scan-for-processes', 'be866bcf8bc1180d1ce3bd3ffcd443b556a03fa5'] Scanning for processes to kill in build /home/buildd/build-be866bcf8bc1180d1ce3bd3ffcd443b556a03fa5/chroot-autobuild... RUN: /usr/share/launchpad-buildd/slavebin/umount-chroot ['umount-chroot', 'be866bcf8bc1180d1ce3bd3ffcd443b556a03fa5'] Unmounting chroot for build be866bcf8bc1180d1ce3bd3ffcd443b556a03fa5... none /home/buildd/build-be866bcf8bc1180d1ce3bd3ffcd443b556a03fa5/chroot-autobuild/proc proc rw,relatime 0 0 none /home/buildd/build-be866bcf8bc1180d1ce3bd3ffcd443b556a03fa5/chroot-autobuild/dev/pts devpts rw,relatime,mode=600,ptmxmode=000 0 0 none /home/buildd/build-be866bcf8bc1180d1ce3bd3ffcd443b556a03fa5/chroot-autobuild/sys sysfs rw,relatime 0 0 none /home/buildd/build-be866bcf8bc1180d1ce3bd3ffcd443b556a03fa5/chroot-autobuild/dev/shm tmpfs rw,relatime 0 0 RUN: /usr/share/launchpad-buildd/slavebin/remove-build ['remove-build', 'be866bcf8bc1180d1ce3bd3ffcd443b556a03fa5'] Removing build be866bcf8bc1180d1ce3bd3ffcd443b556a03fa5