DC-Build-Header: libgenome 1.3.1-3 / Fri Jan 13 01:16:15 +0100 2012 sbuild (Debian sbuild) 0.62.2 (05 Apr 2011) on stremi-25.reims.grid5000.fr ╔══════════════════════════════════════════════════════════════════════════════╗ ║ libgenome 1.3.1-3 (amd64) 13 Jan 2012 01:16 ║ ╚══════════════════════════════════════════════════════════════════════════════╝ Package: libgenome Version: 1.3.1-3 Source Version: 1.3.1-3 Distribution: lsid64b Architecture: amd64 ┌──────────────────────────────────────────────────────────────────────────────┐ │ Update chroot │ └──────────────────────────────────────────────────────────────────────────────┘ Ign http://localhost sid InRelease Get:1 http://localhost sid Release.gpg [836 B] Get:2 http://localhost sid Release [188 kB] Ign http://localhost sid/main Sources/DiffIndex Ign http://localhost sid/main amd64 Packages/DiffIndex Ign http://localhost sid/main TranslationIndex Get:3 http://localhost sid/main Sources [7544 kB] Get:4 http://localhost sid/main amd64 Packages [10.4 MB] Ign http://localhost sid/main Translation-en Fetched 18.2 MB in 3s (5277 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... The following packages have been kept back: clang cpp-4.6 g++-4.6 gcc-4.6 gcc-4.6-base libgcc1 libgomp1 libquadmath0 libstdc++6 libstdc++6-4.6-dev 0 upgraded, 0 newly installed, 0 to remove and 10 not upgraded. ┌──────────────────────────────────────────────────────────────────────────────┐ │ Fetch source files │ └──────────────────────────────────────────────────────────────────────────────┘ Check APT ───────── Checking available source versions... Download source files with APT ────────────────────────────── Reading package lists... Building dependency tree... Reading state information... NOTICE: 'libgenome' packaging is maintained in the 'Svn' version control system at: svn://svn.debian.org/svn/debian-med/trunk/packages/libgenome/trunk/ Need to get 418 kB of source archives. Get:1 http://localhost/debian/ sid/main libgenome 1.3.1-3 (dsc) [1416 B] Get:2 http://localhost/debian/ sid/main libgenome 1.3.1-3 (tar) [413 kB] Get:3 http://localhost/debian/ sid/main libgenome 1.3.1-3 (diff) [3820 B] Fetched 418 kB in 0s (741 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 `/build/libgenome-IXFKX2/resolver-C7mtCl/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 0 upgraded, 1 newly installed, 0 to remove and 10 not upgraded. Need to get 0 B/702 B of archives. After this operation, 0 B of additional disk space will be used. WARNING: The following packages cannot be authenticated! sbuild-build-depends-core-dummy Authentication warning overridden. Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 10821 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) ... Cannot open /var/lib/schroot/mount/lsid64b-074c9dc6-46cf-4771-882d-f6e1e907d478/etc/lsb-release: No such file or directory Merged Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 7), autotools-dev, d-shlibs (>= 0.40), cdbs, doxygen Filtered Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 7), autotools-dev, d-shlibs (>= 0.40), cdbs, doxygen dpkg-deb: building package `sbuild-build-depends-libgenome-dummy' in `/build/libgenome-IXFKX2/resolver-4OlMZ3/apt_archive/sbuild-build-depends-libgenome-dummy.deb'. OK Reading package lists... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Install libgenome build dependencies (apt-based resolver) │ └──────────────────────────────────────────────────────────────────────────────┘ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: autotools-dev bsdmainutils cdbs d-shlibs debhelper doxygen file gettext gettext-base groff-base html2text intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1 libunistring0 libxml2 man-db po-debconf Suggested packages: wamerican wordlist whois vacation devscripts dh-make doxygen-doc doxygen-gui graphviz gettext-doc groff www-browser libmail-box-perl Recommended packages: doxygen-latex curl wget lynx-cur autopoint libglib2.0-data shared-mime-info xml-core libmail-sendmail-perl The following NEW packages will be installed: autotools-dev bsdmainutils cdbs d-shlibs debhelper doxygen file gettext gettext-base groff-base html2text intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1 libunistring0 libxml2 man-db po-debconf sbuild-build-depends-libgenome-dummy 0 upgraded, 22 newly installed, 0 to remove and 10 not upgraded. Need to get 12.1 MB/12.1 MB of archives. After this operation, 33.4 MB of additional disk space will be used. WARNING: The following packages cannot be authenticated! libpipeline1 libpcre3 libglib2.0-0 libxml2 libcroco3 libunistring0 bsdmainutils groff-base man-db libmagic1 file gettext-base autotools-dev cdbs d-shlibs html2text gettext intltool-debian po-debconf debhelper doxygen sbuild-build-depends-libgenome-dummy Authentication warning overridden. Get:1 http://localhost/debian/ sid/main libpipeline1 amd64 1.2.0-5 [38.2 kB] Get:2 http://localhost/debian/ sid/main libpcre3 amd64 8.12-4 [225 kB] Get:3 http://localhost/debian/ sid/main libglib2.0-0 amd64 2.30.2-4 [1844 kB] Get:4 http://localhost/debian/ sid/main libxml2 amd64 2.7.8.dfsg-5.1 [891 kB] Get:5 http://localhost/debian/ sid/main libcroco3 amd64 0.6.2-2 [122 kB] Get:6 http://localhost/debian/ sid/main libunistring0 amd64 0.9.3-5 [434 kB] Get:7 http://localhost/debian/ sid/main bsdmainutils amd64 8.2.3 [208 kB] Get:8 http://localhost/debian/ sid/main groff-base amd64 1.21-6 [1150 kB] Get:9 http://localhost/debian/ sid/main man-db amd64 2.6.0.2-3 [1015 kB] Get:10 http://localhost/debian/ sid/main libmagic1 amd64 5.09-2 [246 kB] Get:11 http://localhost/debian/ sid/main file amd64 5.09-2 [52.0 kB] Get:12 http://localhost/debian/ sid/main gettext-base amd64 0.18.1.1-5 [154 kB] Get:13 http://localhost/debian/ sid/main autotools-dev all 20110511.1 [73.8 kB] Get:14 http://localhost/debian/ sid/main cdbs all 0.4.100 [77.1 kB] Get:15 http://localhost/debian/ sid/main d-shlibs all 0.49 [15.3 kB] Get:16 http://localhost/debian/ sid/main html2text amd64 1.3.2a-15 [103 kB] Get:17 http://localhost/debian/ sid/main gettext amd64 0.18.1.1-5 [2080 kB] Get:18 http://localhost/debian/ sid/main intltool-debian all 0.35.0+20060710.1 [30.8 kB] Get:19 http://localhost/debian/ sid/main po-debconf all 1.0.16+nmu2 [224 kB] Get:20 http://localhost/debian/ sid/main debhelper all 8.9.14 [693 kB] Get:21 http://localhost/debian/ sid/main doxygen amd64 1.7.6.1-2.1 [2430 kB] Preconfiguring packages ... Fetched 12.1 MB in 0s (41.4 MB/s) Selecting previously unselected package libpipeline1. (Reading database ... 10821 files and directories currently installed.) Unpacking libpipeline1 (from .../libpipeline1_1.2.0-5_amd64.deb) ... Selecting previously unselected package libpcre3. Unpacking libpcre3 (from .../libpcre3_8.12-4_amd64.deb) ... Selecting previously unselected package libglib2.0-0. Unpacking libglib2.0-0 (from .../libglib2.0-0_2.30.2-4_amd64.deb) ... Selecting previously unselected package libxml2. Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-5.1_amd64.deb) ... Selecting previously unselected package libcroco3. Unpacking libcroco3 (from .../libcroco3_0.6.2-2_amd64.deb) ... Selecting previously unselected package libunistring0. Unpacking libunistring0 (from .../libunistring0_0.9.3-5_amd64.deb) ... Selecting previously unselected package bsdmainutils. Unpacking bsdmainutils (from .../bsdmainutils_8.2.3_amd64.deb) ... Selecting previously unselected package groff-base. Unpacking groff-base (from .../groff-base_1.21-6_amd64.deb) ... Selecting previously unselected package man-db. Unpacking man-db (from .../man-db_2.6.0.2-3_amd64.deb) ... Selecting previously unselected package libmagic1. Unpacking libmagic1 (from .../libmagic1_5.09-2_amd64.deb) ... Selecting previously unselected package file. Unpacking file (from .../archives/file_5.09-2_amd64.deb) ... Selecting previously unselected package gettext-base. Unpacking gettext-base (from .../gettext-base_0.18.1.1-5_amd64.deb) ... Selecting previously unselected package autotools-dev. Unpacking autotools-dev (from .../autotools-dev_20110511.1_all.deb) ... Selecting previously unselected package cdbs. Unpacking cdbs (from .../archives/cdbs_0.4.100_all.deb) ... Selecting previously unselected package d-shlibs. Unpacking d-shlibs (from .../archives/d-shlibs_0.49_all.deb) ... Selecting previously unselected package html2text. Unpacking html2text (from .../html2text_1.3.2a-15_amd64.deb) ... Selecting previously unselected package gettext. Unpacking gettext (from .../gettext_0.18.1.1-5_amd64.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_8.9.14_all.deb) ... Selecting previously unselected package doxygen. Unpacking doxygen (from .../doxygen_1.7.6.1-2.1_amd64.deb) ... Selecting previously unselected package sbuild-build-depends-libgenome-dummy. Unpacking sbuild-build-depends-libgenome-dummy (from .../sbuild-build-depends-libgenome-dummy.deb) ... Processing triggers for install-info ... Setting up libpipeline1 (1.2.0-5) ... Setting up libpcre3 (8.12-4) ... Setting up libglib2.0-0 (2.30.2-4) ... No schema files found: doing nothing. Setting up libxml2 (2.7.8.dfsg-5.1) ... Setting up libcroco3 (0.6.2-2) ... Setting up libunistring0 (0.9.3-5) ... 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 groff-base (1.21-6) ... Setting up man-db (2.6.0.2-3) ... Building database of manual pages ... Setting up libmagic1 (5.09-2) ... Setting up file (5.09-2) ... Setting up gettext-base (0.18.1.1-5) ... Setting up autotools-dev (20110511.1) ... Setting up cdbs (0.4.100) ... Setting up d-shlibs (0.49) ... Setting up html2text (1.3.2a-15) ... Setting up gettext (0.18.1.1-5) ... Setting up intltool-debian (0.35.0+20060710.1) ... Setting up po-debconf (1.0.16+nmu2) ... Setting up debhelper (8.9.14) ... Setting up doxygen (1.7.6.1-2.1) ... Setting up sbuild-build-depends-libgenome-dummy (0.invalid.0) ... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build environment │ └──────────────────────────────────────────────────────────────────────────────┘ Kernel: Linux 2.6.32-5-amd64 amd64 (x86_64) Toolchain package versions: binutils_2.22-4 dpkg-dev_1.16.1.2 g++-4.6_4.6.2-9 gcc-4.6_4.6.2-9 libc6-dev_2.13-24 libstdc++6_4.6.2-9 libstdc++6-4.6-dev_4.6.2-9 linux-libc-dev_3.1.8-2 Package versions: apt_0.8.15.9 apt-utils_0.8.15.9 autotools-dev_20110511.1 base-files_6.5 base-passwd_3.5.24 bash_4.2-1 binutils_2.22-4 bsdmainutils_8.2.3 bsdutils_1:2.20.1-1.1 build-essential_11.5 bzip2_1.0.6-1 cdbs_0.4.100 clang_3.0-5 coreutils_8.13-3 cpp_4:4.6.2-4 cpp-4.6_4.6.2-9 d-shlibs_0.49 dash_0.5.7-2 debconf_1.5.41 debfoster_2.7-1.1 debhelper_8.9.14 debian-archive-keyring_2010.08.28 debianutils_4.1 diffutils_1:3.2-1 doxygen_1.7.6.1-2.1 dpkg_1.16.1.2 dpkg-dev_1.16.1.2 e2fslibs_1.42-1 e2fsprogs_1.42-1 fakeroot_1.18.2-1 file_5.09-2 findutils_4.4.2-4 g++_4:4.6.2-4 g++-4.6_4.6.2-9 gcc_4:4.6.2-4 gcc-4.6_4.6.2-9 gcc-4.6-base_4.6.2-9 gettext_0.18.1.1-5 gettext-base_0.18.1.1-5 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.10-1 groff-base_1.21-6 gzip_1.4-2 hostname_3.09 html2text_1.3.2a-15 initscripts_2.88dsf-18 insserv_1.14.0-2.1 install-info_4.13a.dfsg.1-8 intltool-debian_0.35.0+20060710.1 less_444-1 libacl1_2.2.51-5 libattr1_1:2.4.46-5 libblkid1_2.20.1-1.1 libbz2-1.0_1.0.6-1 libc-bin_2.13-24 libc-dev-bin_2.13-24 libc6_2.13-24 libc6-dev_2.13-24 libclang-common-dev_3.0-5 libclass-isa-perl_0.36-3 libcomerr2_1.42-1 libcroco3_0.6.2-2 libdb5.1_5.1.29-1 libdpkg-perl_1.16.1.2 libffi5_3.0.10-3 libgc1c2_1:7.1-8 libgcc1_1:4.6.2-9 libgdbm3_1.8.3-10 libglib2.0-0_2.30.2-4 libgmp10_2:5.0.2+dfsg-2 libgomp1_4.6.2-9 libllvm3.0_3.0-5 liblzma2_5.1.1alpha+20110809-2 liblzma5_5.1.1alpha+20110809-3 libmagic1_5.09-2 libmount1_2.20.1-1.1 libmpc2_0.9-4 libmpfr4_3.1.0-3 libncurses5_5.9-4 libncursesw5_5.9-4 libpam-modules_1.1.3-6 libpam-modules-bin_1.1.3-6 libpam-runtime_1.1.3-6 libpam0g_1.1.3-6 libpcre3_8.12-4 libpipeline1_1.2.0-5 libquadmath0_4.6.2-9 libreadline6_6.2-8 libselinux1_2.1.0-4 libsepol1_2.1.0-1.2 libslang2_2.2.4-5 libss2_1.42-1 libstdc++6_4.6.2-9 libstdc++6-4.6-dev_4.6.2-9 libswitch-perl_2.16-2 libtimedate-perl_1.2000-1 libtinfo5_5.9-4 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-20 libuuid1_2.20.1-1.1 libxml2_2.7.8.dfsg-5.1 linux-libc-dev_3.1.8-2 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-3 mawk_1.3.3-16 mount_2.20.1-1.1 multiarch-support_2.13-24 ncurses-base_5.9-4 ncurses-bin_5.9-4 nvi_1.81.6-8.2 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.14.2-6 perl-base_5.14.2-6 perl-modules_5.14.2-6 po-debconf_1.0.16+nmu2 readline-common_6.2-8 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-libgenome-dummy_0.invalid.0 sed_4.2.1-9 sensible-utils_0.0.6 sysv-rc_2.88dsf-18 sysvinit_2.88dsf-18 sysvinit-utils_2.88dsf-18 tar_1.26-4 tzdata_2011n-2 util-linux_2.20.1-1.1 xz-utils_5.1.1alpha+20110809-3 zlib1g_1:1.2.3.4.dfsg-3 ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build │ └──────────────────────────────────────────────────────────────────────────────┘ Unpack source ───────────── gpgv: keyblock resource `/var/lib/sbuild/.gnupg/trustedkeys.gpg': file open error gpgv: Signature made Thu Apr 29 11:23:26 2010 CEST using DSA key ID C09FD35A gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./libgenome_1.3.1-3.dsc dpkg-source: info: extracting libgenome in libgenome-1.3.1 dpkg-source: info: unpacking libgenome_1.3.1.orig.tar.gz dpkg-source: info: unpacking libgenome_1.3.1-3.debian.tar.gz Check disc space ──────────────── Sufficient free space for build dpkg-buildpackage ───────────────── dpkg-buildpackage: source package libgenome dpkg-buildpackage: source version 1.3.1-3 dpkg-source --before-build libgenome-1.3.1 dpkg-buildpackage: host architecture amd64 fakeroot debian/rules clean test -x debian/rules dh_testroot rm -f debian/stamp-makefile-build debian/stamp-makefile-install /usr/bin/make -C . -k distclean make[1]: *** No rule to make target `distclean'. make[1]: Entering directory `/build/libgenome-IXFKX2/libgenome-1.3.1' make[1]: Leaving directory `/build/libgenome-IXFKX2/libgenome-1.3.1' make: [makefile-clean] Error 2 (ignored) rm -f debian/stamp-autotools rmdir --ignore-fail-on-non-empty . rmdir: failed to remove `.': Invalid argument make: [makefile-clean] Error 1 (ignored) for i in ./config.guess ./config.sub ; do \ if test -e $i.cdbs-orig ; then \ mv $i.cdbs-orig $i ; \ fi ; \ done dh_clean rm -f debian/stamp-autotools-files rm -f debian/libgenome1-dev.substvars dpkg-source -b libgenome-1.3.1 dpkg-source: info: using source format `3.0 (quilt)' dpkg-source: info: building libgenome using existing ./libgenome_1.3.1.orig.tar.gz dpkg-source: info: building libgenome in libgenome_1.3.1-3.debian.tar.gz dpkg-source: info: building libgenome in libgenome_1.3.1-3.dsc debian/rules build test -x debian/rules mkdir -p "." if test -e /usr/share/misc/config.guess ; then \ for i in ./config.guess ; do \ if ! test -e $i.cdbs-orig ; then \ mv $i $i.cdbs-orig ; \ cp --remove-destination /usr/share/misc/config.guess $i ; \ fi ; \ done ; \ fi if test -e /usr/share/misc/config.sub ; then \ for i in ./config.sub ; do \ if ! test -e $i.cdbs-orig ; then \ mv $i $i.cdbs-orig ; \ cp --remove-destination /usr/share/misc/config.sub $i ; \ fi ; \ done ; \ fi touch debian/stamp-autotools-files chmod a+x /build/libgenome-IXFKX2/libgenome-1.3.1/./configure mkdir -p . cd . && CFLAGS="-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall" CXXFLAGS="-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall" CPPFLAGS="" LDFLAGS="" /build/libgenome-IXFKX2/libgenome-1.3.1/./configure --build=x86_64-linux-gnu --prefix=/usr --includedir="\${prefix}/include" --mandir="\${prefix}/share/man" --infodir="\${prefix}/share/info" --sysconfdir=/etc --localstatedir=/var --libexecdir="\${prefix}/lib/libgenome" --srcdir=. --disable-maintainer-mode --disable-dependency-tracking --disable-silent-rules checking build system type... x86_64-pc-linux-gnu checking host system type... x86_64-pc-linux-gnu checking target system type... x86_64-pc-linux-gnu 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 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 ANSI C... none needed checking for style of include used by make... GNU checking dependency style of gcc... none checking for g++... g++ checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking dependency style of g++... none checking for a sed that does not truncate output... /bin/sed checking for egrep... grep -E checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for /usr/bin/ld option to reload object files... -r checking for BSD-compatible nm... /usr/bin/nm -B checking whether ln -s works... yes checking how to recognise dependent libraries... pass_all checking how to run the C preprocessor... gcc -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 dlfcn.h usability... yes checking dlfcn.h presence... yes checking for dlfcn.h... yes checking how to run the C++ preprocessor... g++ -E checking for g77... no checking for f77... no checking for xlf... no checking for frt... no checking for pgf77... no checking for fort77... no checking for fl32... no checking for af77... no checking for f90... no checking for xlf90... no checking for pgf90... no checking for epcf90... no checking for f95... no checking for fort... no checking for xlf95... no checking for ifc... no checking for efc... no checking for pgf95... no checking for lf95... no checking for gfortran... no checking whether we are using the GNU Fortran 77 compiler... no checking whether accepts -g... no checking the maximum length of command line arguments... 32768 checking command to parse /usr/bin/nm -B output from gcc object... ok checking for objdir... .libs checking for ar... ar checking for ranlib... ranlib checking for strip... strip checking if gcc static flag works... no checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC checking if gcc PIC flag -fPIC works... no checking if gcc supports -c -o file.o... no checking if we can lock with hard links... yes checking whether the gcc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes configure: creating libtool appending configuration tag "CXX" to libtool checking for ld used by g++... /usr/bin/ld -m elf_x86_64 checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC checking if g++ PIC flag -fPIC works... no checking if g++ supports -c -o file.o... no checking if we can lock with hard links... yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes appending configuration tag "F77" to libtool checking for a BSD-compatible install... /usr/bin/install -c checking whether ln -s works... yes checking for special C compiler options needed for large files... no checking for _FILE_OFFSET_BITS value needed for large files... no checking for _LARGE_FILES value needed for large files... no checking for ANSI C header files... (cached) yes checking for OpenMP flag of C compiler... unknown checking for doxygen... /usr/bin/doxygen checking for perl... /usr/bin/perl checking for dot... no configure: WARNING: dot not found - will not generate graphics for doxygen documentation checking for latex... no configure: WARNING: latex not found - will not generate doxygen PostScript documentation checking for makeindex... no checking for dvips... no checking for egrep... /bin/egrep checking for pdflatex... no configure: WARNING: pdflatex not found - will not generate doxygen PDF documentation checking for makeindex... no checking for egrep... (cached) /bin/egrep checking for an ANSI C-conforming const... yes checking for inline... inline checking whether time.h and sys/time.h may both be included... yes checking whether gcc needs -traditional... no configure: creating ./config.status config.status: creating Makefile config.status: creating libGenome/Makefile config.status: creating libGenome-1.3.pc config.status: creating config.h config.status: executing depfiles commands touch debian/stamp-autotools /usr/bin/make -C . make[1]: Entering directory `/build/libgenome-IXFKX2/libgenome-1.3.1' /usr/bin/make all-recursive make[2]: Entering directory `/build/libgenome-IXFKX2/libgenome-1.3.1' Making all in libGenome make[3]: Entering directory `/build/libgenome-IXFKX2/libgenome-1.3.1/libGenome' /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnFilter.lo gnFilter.cpp mkdir .libs g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnFilter.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnFilter.cpp:17: In file included from ../libGenome/gnFilter.h:21: In file included from ../libGenome/gnClone.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ gnFilter.cpp:90:14: warning: array subscript is of type 'char' [-Wchar-subscripts] m_pairArray[i] = NO_REVCOMP_CHAR; ^~ gnFilter.cpp:97:14: warning: array subscript is of type 'char' [-Wchar-subscripts] m_pairArray[i] = NO_REVCOMP_CHAR; ^~ gnFilter.cpp:104:14: warning: array subscript is of type 'char' [-Wchar-subscripts] m_pairArray[i] = sf.m_pairArray[i]; ^~ gnFilter.cpp:104:34: warning: array subscript is of type 'char' [-Wchar-subscripts] m_pairArray[i] = sf.m_pairArray[i]; ^~ gnFilter.cpp:111:14: warning: array subscript is of type 'char' [-Wchar-subscripts] m_pairArray[i] = NO_REVCOMP_CHAR; ^~ gnFilter.cpp:162:26: warning: array subscript is of type 'char' [-Wchar-subscripts] tmp[c++] = m_pairArray[(*seq)[i]]; ^~~~~~~~~~ gnFilter.cpp:176:20: warning: array subscript is of type 'char' [-Wchar-subscripts] tmp = m_pairArray[(*seq)[i]]; ^~~~~~~~~~ gnFilter.cpp:177:20: warning: array subscript is of type 'char' [-Wchar-subscripts] dum = m_pairArray[(*seq)[ end - i ]]; ^~~~~~~~~~~~~~~~~~ gnFilter.cpp:184:20: warning: array subscript is of type 'char' [-Wchar-subscripts] tmp = m_pairArray[(*seq)[halfLen]]; ^~~~~~~~~~~~~~~~ gnFilter.cpp:201:26: warning: array subscript is of type 'char' [-Wchar-subscripts] seq[c++] = m_pairArray[seq[i]]; ^~~~~~~ gnFilter.cpp:213:20: warning: array subscript is of type 'char' [-Wchar-subscripts] tmp = m_pairArray[seq[i]]; ^~~~~~~ gnFilter.cpp:214:20: warning: array subscript is of type 'char' [-Wchar-subscripts] dum = m_pairArray[seq[ end - i ]]; ^~~~~~~~~~~~~~~ gnFilter.cpp:221:20: warning: array subscript is of type 'char' [-Wchar-subscripts] tmp = m_pairArray[seq[halfLen]]; ^~~~~~~~~~~~~ 14 warnings generated. mv -f gnFilter.o .libs/gnFilter.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnFilter.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnCompare.lo gnCompare.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnCompare.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnCompare.cpp:16: In file included from ../libGenome/gnCompare.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ In file included from gnCompare.cpp:16: ../libGenome/gnCompare.h:142:23: warning: array subscript is of type 'char' [-Wchar-subscripts] if(strchr(m_pairArray[ch], ch2) == 0) ^~~ gnCompare.cpp:41:14: warning: array subscript is of type 'char' [-Wchar-subscripts] m_pairArray[i] = new gnSeqC[1]; ^~ gnCompare.cpp:42:14: warning: array subscript is of type 'char' [-Wchar-subscripts] m_pairArray[i][0] = 0; ^~ gnCompare.cpp:43:17: warning: array subscript is of type 'char' [-Wchar-subscripts] m_containArray[i] = new gnSeqC[1]; ^~ gnCompare.cpp:44:17: warning: array subscript is of type 'char' [-Wchar-subscripts] m_containArray[i][0] = 0; ^~ gnCompare.cpp:65:26: warning: array subscript is of type 'char' [-Wchar-subscripts] if(strchr(m_containArray[ch], ch2) == 0) ^~~ gnCompare.cpp:86:14: warning: array subscript is of type 'char' [-Wchar-subscripts] m_pairArray[i] = new gnSeqC[1]; ^~ gnCompare.cpp:87:14: warning: array subscript is of type 'char' [-Wchar-subscripts] m_pairArray[i][0] = 0; ^~ gnCompare.cpp:88:17: warning: array subscript is of type 'char' [-Wchar-subscripts] m_containArray[i] = new gnSeqC[1]; ^~ gnCompare.cpp:89:17: warning: array subscript is of type 'char' [-Wchar-subscripts] m_containArray[i][0] = 0; ^~ gnCompare.cpp:107:23: warning: array subscript is of type 'char' [-Wchar-subscripts] delete[] m_pairArray[i]; ^~ gnCompare.cpp:108:26: warning: array subscript is of type 'char' [-Wchar-subscripts] delete[] m_containArray[i]; ^~ gnCompare.cpp:114:30: warning: array subscript is of type 'char' [-Wchar-subscripts] uint32 curlen = strlen(array[ch]); ^~~ gnCompare.cpp:116:19: warning: array subscript is of type 'char' [-Wchar-subscripts] strcpy(tmp, array[ch]); ^~~ gnCompare.cpp:119:16: warning: array subscript is of type 'char' [-Wchar-subscripts] delete[] array[ch]; ^~~ gnCompare.cpp:120:7: warning: array subscript is of type 'char' [-Wchar-subscripts] array[ch] = tmp; ^~~ gnCompare.cpp:125:37: warning: array subscript is of type 'char' [-Wchar-subscripts] gnSeqC* loc = strchr(m_containArray[ch], ch2); ^~~ gnCompare.cpp:134:30: warning: array subscript is of type 'char' [-Wchar-subscripts] uint32 curlen = strlen(array[ch]); ^~~ gnCompare.cpp:138:20: warning: array subscript is of type 'char' [-Wchar-subscripts] if(m_containArray[ch][i] != ch2) ^~~ gnCompare.cpp:139:34: warning: array subscript is of type 'char' [-Wchar-subscripts] tmp[tmppos++] = m_containArray[ch][i]; ^~~ gnCompare.cpp:141:16: warning: array subscript is of type 'char' [-Wchar-subscripts] delete[] array[ch]; ^~~ gnCompare.cpp:142:7: warning: array subscript is of type 'char' [-Wchar-subscripts] array[ch] = tmp; ^~~ 23 warnings generated. mv -f gnCompare.o .libs/gnCompare.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnCompare.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnTranslator.lo gnTranslator.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnTranslator.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnTranslator.cpp:16: In file included from ../libGenome/gnTranslator.h:20: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ In file included from gnTranslator.cpp:16: In file included from ../libGenome/gnTranslator.h:26: ../libGenome/gnCompare.h:142:23: warning: array subscript is of type 'char' [-Wchar-subscripts] if(strchr(m_pairArray[ch], ch2) == 0) ^~~ 2 warnings generated. mv -f gnTranslator.o .libs/gnTranslator.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnTranslator.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnSourceFactory.lo gnSourceFactory.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnSourceFactory.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnSourceFactory.cpp:16: In file included from ../libGenome/gnSourceFactory.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ In file included from gnSourceFactory.cpp:19: In file included from ../libGenome/gnFASSource.h:25: In file included from ../libGenome/gnSequence.h:31: ../libGenome/gnCompare.h:142:23: warning: array subscript is of type 'char' [-Wchar-subscripts] if(strchr(m_pairArray[ch], ch2) == 0) ^~~ 2 warnings generated. mv -f gnSourceFactory.o .libs/gnSourceFactory.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnSourceFactory.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnFeature.lo gnFeature.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnFeature.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnFeature.cpp:16: In file included from ../libGenome/gnFeature.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ 1 warning generated. mv -f gnFeature.o .libs/gnFeature.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnFeature.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnSourceQualifier.lo gnSourceQualifier.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnSourceQualifier.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnSourceQualifier.cpp:18: In file included from ../libGenome/gnBaseSource.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ 1 warning generated. mv -f gnSourceQualifier.o .libs/gnSourceQualifier.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnSourceQualifier.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnFileContig.lo gnFileContig.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnFileContig.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnFileContig.cpp:16: In file included from ../libGenome/gnFileContig.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ 1 warning generated. mv -f gnFileContig.o .libs/gnFileContig.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnFileContig.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnSourceSpec.lo gnSourceSpec.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnSourceSpec.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnSourceSpec.cpp:17: In file included from ../libGenome/gnSourceSpec.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ 1 warning generated. mv -f gnSourceSpec.o .libs/gnSourceSpec.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnSourceSpec.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnFileSource.lo gnFileSource.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnFileSource.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnFileSource.cpp:17: In file included from ../libGenome/gnFileSource.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ gnFileSource.cpp:35:9: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma omp critical ^ gnFileSource.cpp:47:9: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma omp critical ^ gnFileSource.cpp:72:9: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma omp critical ^ gnFileSource.cpp:85:9: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma omp critical ^ gnFileSource.cpp:92:9: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma omp critical ^ gnFileSource.cpp:99:9: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma omp critical ^ 7 warnings generated. mv -f gnFileSource.o .libs/gnFileSource.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnFileSource.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnFASSource.lo gnFASSource.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnFASSource.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnFASSource.cpp:16: In file included from ../libGenome/gnFASSource.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ In file included from gnFASSource.cpp:16: In file included from ../libGenome/gnFASSource.h:25: In file included from ../libGenome/gnSequence.h:31: ../libGenome/gnCompare.h:142:23: warning: array subscript is of type 'char' [-Wchar-subscripts] if(strchr(m_pairArray[ch], ch2) == 0) ^~~ gnFASSource.cpp:104:9: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma omp critical ^ 3 warnings generated. mv -f gnFASSource.o .libs/gnFASSource.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnFASSource.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnFragmentSpec.lo gnFragmentSpec.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnFragmentSpec.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnFragmentSpec.cpp:16: In file included from ../libGenome/gnFragmentSpec.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ 1 warning generated. mv -f gnFragmentSpec.o .libs/gnFragmentSpec.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnFragmentSpec.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnStringSpec.lo gnStringSpec.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnStringSpec.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnStringSpec.cpp:17: In file included from ../libGenome/gnStringSpec.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ 1 warning generated. mv -f gnStringSpec.o .libs/gnStringSpec.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnStringSpec.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnGBKSource.lo gnGBKSource.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnGBKSource.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnGBKSource.cpp:16: In file included from ../libGenome/gnFilter.h:21: In file included from ../libGenome/gnClone.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ In file included from gnGBKSource.cpp:18: In file included from ../libGenome/gnGBKSource.h:27: In file included from ../libGenome/gnSequence.h:31: ../libGenome/gnCompare.h:142:23: warning: array subscript is of type 'char' [-Wchar-subscripts] if(strchr(m_pairArray[ch], ch2) == 0) ^~~ gnGBKSource.cpp:101:9: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma omp critical ^ 3 warnings generated. mv -f gnGBKSource.o .libs/gnGBKSource.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnGBKSource.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnStringTools.lo gnStringTools.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnStringTools.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnStringTools.cpp:16: In file included from ../libGenome/gnStringTools.h:24: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ 1 warning generated. mv -f gnStringTools.o .libs/gnStringTools.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnStringTools.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnGenomeSpec.lo gnGenomeSpec.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnGenomeSpec.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnGenomeSpec.cpp:16: In file included from ../libGenome/gnGenomeSpec.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ 1 warning generated. mv -f gnGenomeSpec.o .libs/gnGenomeSpec.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnGenomeSpec.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnLocation.lo gnLocation.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnLocation.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnLocation.cpp:15: In file included from ../libGenome/gnLocation.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ 1 warning generated. mv -f gnLocation.o .libs/gnLocation.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnLocation.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnRAWSource.lo gnRAWSource.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnRAWSource.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnRAWSource.cpp:16: In file included from ../libGenome/gnFilter.h:21: In file included from ../libGenome/gnClone.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ In file included from gnRAWSource.cpp:17: In file included from ../libGenome/gnRAWSource.h:27: In file included from ../libGenome/gnSequence.h:31: ../libGenome/gnCompare.h:142:23: warning: array subscript is of type 'char' [-Wchar-subscripts] if(strchr(m_pairArray[ch], ch2) == 0) ^~~ 2 warnings generated. mv -f gnRAWSource.o .libs/gnRAWSource.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnRAWSource.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnBaseFeature.lo gnBaseFeature.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnBaseFeature.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnBaseFeature.cpp:16: In file included from ../libGenome/gnBaseFeature.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ 1 warning generated. mv -f gnBaseFeature.o .libs/gnBaseFeature.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnBaseFeature.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnSEQSource.lo gnSEQSource.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnSEQSource.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnSEQSource.cpp:16: In file included from ../libGenome/gnFilter.h:21: In file included from ../libGenome/gnClone.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ In file included from gnSEQSource.cpp:18: In file included from ../libGenome/gnSEQSource.h:27: In file included from ../libGenome/gnSequence.h:31: ../libGenome/gnCompare.h:142:23: warning: array subscript is of type 'char' [-Wchar-subscripts] if(strchr(m_pairArray[ch], ch2) == 0) ^~~ 2 warnings generated. mv -f gnSEQSource.o .libs/gnSEQSource.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnSEQSource.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnSequence.lo gnSequence.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnSequence.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnSequence.cpp:16: In file included from ../libGenome/gnSequence.h:20: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ In file included from gnSequence.cpp:16: In file included from ../libGenome/gnSequence.h:31: ../libGenome/gnCompare.h:142:23: warning: array subscript is of type 'char' [-Wchar-subscripts] if(strchr(m_pairArray[ch], ch2) == 0) ^~~ 2 warnings generated. mv -f gnSequence.o .libs/gnSequence.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnSequence.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnContigSpec.lo gnContigSpec.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnContigSpec.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnContigSpec.cpp:16: In file included from ../libGenome/gnContigSpec.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ 1 warning generated. mv -f gnContigSpec.o .libs/gnContigSpec.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnContigSpec.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnSourceHeader.lo gnSourceHeader.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnSourceHeader.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnSourceHeader.cpp:18: In file included from ../libGenome/gnBaseSource.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ 1 warning generated. mv -f gnSourceHeader.o .libs/gnSourceHeader.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnSourceHeader.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnException.lo gnException.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnException.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnException.cpp:5: In file included from ../libGenome/gnException.h:8: In file included from ../libGenome/gnClone.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ 1 warning generated. mv -f gnException.o .libs/gnException.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnException.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnFastTranslator.lo gnFastTranslator.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnFastTranslator.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnFastTranslator.cpp:16: In file included from ../libGenome/gnFastTranslator.h:20: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ In file included from gnFastTranslator.cpp:16: In file included from ../libGenome/gnFastTranslator.h:27: In file included from ../libGenome/gnTranslator.h:26: ../libGenome/gnCompare.h:142:23: warning: array subscript is of type 'char' [-Wchar-subscripts] if(strchr(m_pairArray[ch], ch2) == 0) ^~~ 2 warnings generated. mv -f gnFastTranslator.o .libs/gnFastTranslator.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnFastTranslator.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnPosSpecificTranslator.lo gnPosSpecificTranslator.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnPosSpecificTranslator.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnPosSpecificTranslator.cpp:18: In file included from ../libGenome/gnPosSpecificTranslator.h:22: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ In file included from gnPosSpecificTranslator.cpp:18: In file included from ../libGenome/gnPosSpecificTranslator.h:29: In file included from ../libGenome/gnFastTranslator.h:27: In file included from ../libGenome/gnTranslator.h:26: ../libGenome/gnCompare.h:142:23: warning: array subscript is of type 'char' [-Wchar-subscripts] if(strchr(m_pairArray[ch], ch2) == 0) ^~~ 2 warnings generated. mv -f gnPosSpecificTranslator.o .libs/gnPosSpecificTranslator.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnPosSpecificTranslator.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnDefs.lo gnDefs.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnDefs.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnDefs.cpp:5: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ 1 warning generated. mv -f gnDefs.o .libs/gnDefs.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnDefs.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=link --tag=CXX g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -o libGenome-1.3.la -rpath /usr/lib -version-info 1:3:1 gnFilter.lo gnCompare.lo gnTranslator.lo gnSourceFactory.lo gnFeature.lo gnSourceQualifier.lo gnFileContig.lo gnSourceSpec.lo gnFileSource.lo gnFASSource.lo gnFragmentSpec.lo gnStringSpec.lo gnGBKSource.lo gnStringTools.lo gnGenomeSpec.lo gnLocation.lo gnRAWSource.lo gnBaseFeature.lo gnSEQSource.lo gnSequence.lo gnContigSpec.lo gnSourceHeader.lo gnException.lo gnFastTranslator.lo gnPosSpecificTranslator.lo gnDefs.lo g++ -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/4.6/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/4.6/crtbeginS.o .libs/gnFilter.o .libs/gnCompare.o .libs/gnTranslator.o .libs/gnSourceFactory.o .libs/gnFeature.o .libs/gnSourceQualifier.o .libs/gnFileContig.o .libs/gnSourceSpec.o .libs/gnFileSource.o .libs/gnFASSource.o .libs/gnFragmentSpec.o .libs/gnStringSpec.o .libs/gnGBKSource.o .libs/gnStringTools.o .libs/gnGenomeSpec.o .libs/gnLocation.o .libs/gnRAWSource.o .libs/gnBaseFeature.o .libs/gnSEQSource.o .libs/gnSequence.o .libs/gnContigSpec.o .libs/gnSourceHeader.o .libs/gnException.o .libs/gnFastTranslator.o .libs/gnPosSpecificTranslator.o .libs/gnDefs.o -L/usr/lib/gcc/x86_64-linux-gnu/4.6 -L/usr/lib/gcc/x86_64-linux-gnu/4.6/../../../x86_64-linux-gnu -L/lib/x86_64-linux-gnu -L/lib/../lib64 -L/usr/lib/x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/4.6/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/4.6/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/4.6/../../../x86_64-linux-gnu/crtn.o -Wl,-soname -Wl,libGenome-1.3.so.0 -o .libs/libGenome-1.3.so.0.1.3 /usr/bin/ld: .libs/gnFilter.o: relocation R_X86_64_32 against `.bss' can not be used when making a shared object; recompile with -fPIC .libs/gnFilter.o: could not read symbols: Bad value clang: error: linker command failed with exit code 1 (use -v to see invocation) make[3]: *** [libGenome-1.3.la] Error 1 make[3]: Leaving directory `/build/libgenome-IXFKX2/libgenome-1.3.1/libGenome' make[2]: *** [all-recursive] Error 1 make[2]: Leaving directory `/build/libgenome-IXFKX2/libgenome-1.3.1' make[1]: *** [all] Error 2 make[1]: Leaving directory `/build/libgenome-IXFKX2/libgenome-1.3.1' make: *** [debian/stamp-makefile-build] Error 2 dpkg-buildpackage: error: debian/rules build gave error exit status 2 ──────────────────────────────────────────────────────────────────────────────── Build finished at 20120113-0117 Finished ──────── E: Build failure (dpkg-buildpackage died) ┌──────────────────────────────────────────────────────────────────────────────┐ │ Cleanup │ └──────────────────────────────────────────────────────────────────────────────┘ Purging /var/lib/schroot/mount/lsid64b-074c9dc6-46cf-4771-882d-f6e1e907d478/build/libgenome-IXFKX2 Not cleaning session: cloned chroot in use ┌──────────────────────────────────────────────────────────────────────────────┐ │ Summary │ └──────────────────────────────────────────────────────────────────────────────┘ Architecture: amd64 Build-Space: 16132 Build-Time: 52 Distribution: lsid64b Fail-Stage: build Install-Time: 7 Job: libgenome_1.3.1-3 Package: libgenome Package-Time: 72 Source-Version: 1.3.1-3 Space: 16132 Status: attempted Version: 1.3.1-3 ──────────────────────────────────────────────────────────────────────────────── Finished at 20120113-0117 Build needed 00:01:12, 16132k disc space DC-Message: Failed, but took only 73.248165. Retrying, you never know. Another build requested exclusive access to the build node Another build requested exclusive access to the build node Requested exclusive mode, but other builds running. Requested exclusive mode, but other builds running. Requested exclusive mode, but other builds running. Requested exclusive mode, but other builds running. Requested exclusive mode, but other builds running. Requested exclusive mode, but other builds running. Requested exclusive mode, but other builds running. Requested exclusive mode, but other builds running. Requested exclusive mode, but other builds running. Requested exclusive mode, but other builds running. Requested exclusive mode, but other builds running. Requested exclusive mode, but other builds running. Requested exclusive mode, but other builds running. Requested exclusive mode, but other builds running. Requested exclusive mode, but other builds running. Requested exclusive mode, but other builds running. Requested exclusive mode, but other builds running. Requested exclusive mode, but other builds running. sbuild (Debian sbuild) 0.62.2 (05 Apr 2011) on stremi-25.reims.grid5000.fr ╔══════════════════════════════════════════════════════════════════════════════╗ ║ libgenome 1.3.1-3 (amd64) 13 Jan 2012 01:27 ║ ╚══════════════════════════════════════════════════════════════════════════════╝ Package: libgenome Version: 1.3.1-3 Source Version: 1.3.1-3 Distribution: lsid64b Architecture: amd64 ┌──────────────────────────────────────────────────────────────────────────────┐ │ Update chroot │ └──────────────────────────────────────────────────────────────────────────────┘ Ign http://localhost sid InRelease Get:1 http://localhost sid Release.gpg [836 B] Get:2 http://localhost sid Release [188 kB] Ign http://localhost sid/main Sources/DiffIndex Ign http://localhost sid/main amd64 Packages/DiffIndex Ign http://localhost sid/main TranslationIndex Get:3 http://localhost sid/main Sources [7544 kB] Get:4 http://localhost sid/main amd64 Packages [10.4 MB] Ign http://localhost sid/main Translation-en Fetched 18.2 MB in 3s (5461 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... The following packages have been kept back: clang cpp-4.6 g++-4.6 gcc-4.6 gcc-4.6-base libgcc1 libgomp1 libquadmath0 libstdc++6 libstdc++6-4.6-dev 0 upgraded, 0 newly installed, 0 to remove and 10 not upgraded. ┌──────────────────────────────────────────────────────────────────────────────┐ │ Fetch source files │ └──────────────────────────────────────────────────────────────────────────────┘ Check APT ───────── Checking available source versions... Download source files with APT ────────────────────────────── Reading package lists... Building dependency tree... Reading state information... NOTICE: 'libgenome' packaging is maintained in the 'Svn' version control system at: svn://svn.debian.org/svn/debian-med/trunk/packages/libgenome/trunk/ Need to get 418 kB of source archives. Get:1 http://localhost/debian/ sid/main libgenome 1.3.1-3 (dsc) [1416 B] Get:2 http://localhost/debian/ sid/main libgenome 1.3.1-3 (tar) [413 kB] Get:3 http://localhost/debian/ sid/main libgenome 1.3.1-3 (diff) [3820 B] Fetched 418 kB in 0s (21.1 MB/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 `/build/libgenome-gohPCJ/resolver-ZmHFyV/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 0 upgraded, 1 newly installed, 0 to remove and 10 not upgraded. Need to get 0 B/702 B of archives. After this operation, 0 B of additional disk space will be used. WARNING: The following packages cannot be authenticated! sbuild-build-depends-core-dummy Authentication warning overridden. Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 10821 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) ... Cannot open /var/lib/schroot/mount/lsid64b-9f781679-4bea-423d-a7ef-ecf1aece2d5f/etc/lsb-release: No such file or directory Merged Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 7), autotools-dev, d-shlibs (>= 0.40), cdbs, doxygen Filtered Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 7), autotools-dev, d-shlibs (>= 0.40), cdbs, doxygen dpkg-deb: building package `sbuild-build-depends-libgenome-dummy' in `/build/libgenome-gohPCJ/resolver-5m_zkG/apt_archive/sbuild-build-depends-libgenome-dummy.deb'. OK Reading package lists... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Install libgenome build dependencies (apt-based resolver) │ └──────────────────────────────────────────────────────────────────────────────┘ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: autotools-dev bsdmainutils cdbs d-shlibs debhelper doxygen file gettext gettext-base groff-base html2text intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1 libunistring0 libxml2 man-db po-debconf Suggested packages: wamerican wordlist whois vacation devscripts dh-make doxygen-doc doxygen-gui graphviz gettext-doc groff www-browser libmail-box-perl Recommended packages: doxygen-latex curl wget lynx-cur autopoint libglib2.0-data shared-mime-info xml-core libmail-sendmail-perl The following NEW packages will be installed: autotools-dev bsdmainutils cdbs d-shlibs debhelper doxygen file gettext gettext-base groff-base html2text intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1 libunistring0 libxml2 man-db po-debconf sbuild-build-depends-libgenome-dummy 0 upgraded, 22 newly installed, 0 to remove and 10 not upgraded. Need to get 12.1 MB/12.1 MB of archives. After this operation, 33.4 MB of additional disk space will be used. WARNING: The following packages cannot be authenticated! libpipeline1 libpcre3 libglib2.0-0 libxml2 libcroco3 libunistring0 bsdmainutils groff-base man-db libmagic1 file gettext-base autotools-dev cdbs d-shlibs html2text gettext intltool-debian po-debconf debhelper doxygen sbuild-build-depends-libgenome-dummy Authentication warning overridden. Get:1 http://localhost/debian/ sid/main libpipeline1 amd64 1.2.0-5 [38.2 kB] Get:2 http://localhost/debian/ sid/main libpcre3 amd64 8.12-4 [225 kB] Get:3 http://localhost/debian/ sid/main libglib2.0-0 amd64 2.30.2-4 [1844 kB] Get:4 http://localhost/debian/ sid/main libxml2 amd64 2.7.8.dfsg-5.1 [891 kB] Get:5 http://localhost/debian/ sid/main libcroco3 amd64 0.6.2-2 [122 kB] Get:6 http://localhost/debian/ sid/main libunistring0 amd64 0.9.3-5 [434 kB] Get:7 http://localhost/debian/ sid/main bsdmainutils amd64 8.2.3 [208 kB] Get:8 http://localhost/debian/ sid/main groff-base amd64 1.21-6 [1150 kB] Get:9 http://localhost/debian/ sid/main man-db amd64 2.6.0.2-3 [1015 kB] Get:10 http://localhost/debian/ sid/main libmagic1 amd64 5.09-2 [246 kB] Get:11 http://localhost/debian/ sid/main file amd64 5.09-2 [52.0 kB] Get:12 http://localhost/debian/ sid/main gettext-base amd64 0.18.1.1-5 [154 kB] Get:13 http://localhost/debian/ sid/main autotools-dev all 20110511.1 [73.8 kB] Get:14 http://localhost/debian/ sid/main cdbs all 0.4.100 [77.1 kB] Get:15 http://localhost/debian/ sid/main d-shlibs all 0.49 [15.3 kB] Get:16 http://localhost/debian/ sid/main html2text amd64 1.3.2a-15 [103 kB] Get:17 http://localhost/debian/ sid/main gettext amd64 0.18.1.1-5 [2080 kB] Get:18 http://localhost/debian/ sid/main intltool-debian all 0.35.0+20060710.1 [30.8 kB] Get:19 http://localhost/debian/ sid/main po-debconf all 1.0.16+nmu2 [224 kB] Get:20 http://localhost/debian/ sid/main debhelper all 8.9.14 [693 kB] Get:21 http://localhost/debian/ sid/main doxygen amd64 1.7.6.1-2.1 [2430 kB] Preconfiguring packages ... Fetched 12.1 MB in 0s (42.2 MB/s) Selecting previously unselected package libpipeline1. (Reading database ... 10821 files and directories currently installed.) Unpacking libpipeline1 (from .../libpipeline1_1.2.0-5_amd64.deb) ... Selecting previously unselected package libpcre3. Unpacking libpcre3 (from .../libpcre3_8.12-4_amd64.deb) ... Selecting previously unselected package libglib2.0-0. Unpacking libglib2.0-0 (from .../libglib2.0-0_2.30.2-4_amd64.deb) ... Selecting previously unselected package libxml2. Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-5.1_amd64.deb) ... Selecting previously unselected package libcroco3. Unpacking libcroco3 (from .../libcroco3_0.6.2-2_amd64.deb) ... Selecting previously unselected package libunistring0. Unpacking libunistring0 (from .../libunistring0_0.9.3-5_amd64.deb) ... Selecting previously unselected package bsdmainutils. Unpacking bsdmainutils (from .../bsdmainutils_8.2.3_amd64.deb) ... Selecting previously unselected package groff-base. Unpacking groff-base (from .../groff-base_1.21-6_amd64.deb) ... Selecting previously unselected package man-db. Unpacking man-db (from .../man-db_2.6.0.2-3_amd64.deb) ... Selecting previously unselected package libmagic1. Unpacking libmagic1 (from .../libmagic1_5.09-2_amd64.deb) ... Selecting previously unselected package file. Unpacking file (from .../archives/file_5.09-2_amd64.deb) ... Selecting previously unselected package gettext-base. Unpacking gettext-base (from .../gettext-base_0.18.1.1-5_amd64.deb) ... Selecting previously unselected package autotools-dev. Unpacking autotools-dev (from .../autotools-dev_20110511.1_all.deb) ... Selecting previously unselected package cdbs. Unpacking cdbs (from .../archives/cdbs_0.4.100_all.deb) ... Selecting previously unselected package d-shlibs. Unpacking d-shlibs (from .../archives/d-shlibs_0.49_all.deb) ... Selecting previously unselected package html2text. Unpacking html2text (from .../html2text_1.3.2a-15_amd64.deb) ... Selecting previously unselected package gettext. Unpacking gettext (from .../gettext_0.18.1.1-5_amd64.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_8.9.14_all.deb) ... Selecting previously unselected package doxygen. Unpacking doxygen (from .../doxygen_1.7.6.1-2.1_amd64.deb) ... Selecting previously unselected package sbuild-build-depends-libgenome-dummy. Unpacking sbuild-build-depends-libgenome-dummy (from .../sbuild-build-depends-libgenome-dummy.deb) ... Processing triggers for install-info ... Setting up libpipeline1 (1.2.0-5) ... Setting up libpcre3 (8.12-4) ... Setting up libglib2.0-0 (2.30.2-4) ... No schema files found: doing nothing. Setting up libxml2 (2.7.8.dfsg-5.1) ... Setting up libcroco3 (0.6.2-2) ... Setting up libunistring0 (0.9.3-5) ... 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 groff-base (1.21-6) ... Setting up man-db (2.6.0.2-3) ... Building database of manual pages ... Setting up libmagic1 (5.09-2) ... Setting up file (5.09-2) ... Setting up gettext-base (0.18.1.1-5) ... Setting up autotools-dev (20110511.1) ... Setting up cdbs (0.4.100) ... Setting up d-shlibs (0.49) ... Setting up html2text (1.3.2a-15) ... Setting up gettext (0.18.1.1-5) ... Setting up intltool-debian (0.35.0+20060710.1) ... Setting up po-debconf (1.0.16+nmu2) ... Setting up debhelper (8.9.14) ... Setting up doxygen (1.7.6.1-2.1) ... Setting up sbuild-build-depends-libgenome-dummy (0.invalid.0) ... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build environment │ └──────────────────────────────────────────────────────────────────────────────┘ Kernel: Linux 2.6.32-5-amd64 amd64 (x86_64) Toolchain package versions: binutils_2.22-4 dpkg-dev_1.16.1.2 g++-4.6_4.6.2-9 gcc-4.6_4.6.2-9 libc6-dev_2.13-24 libstdc++6_4.6.2-9 libstdc++6-4.6-dev_4.6.2-9 linux-libc-dev_3.1.8-2 Package versions: apt_0.8.15.9 apt-utils_0.8.15.9 autotools-dev_20110511.1 base-files_6.5 base-passwd_3.5.24 bash_4.2-1 binutils_2.22-4 bsdmainutils_8.2.3 bsdutils_1:2.20.1-1.1 build-essential_11.5 bzip2_1.0.6-1 cdbs_0.4.100 clang_3.0-5 coreutils_8.13-3 cpp_4:4.6.2-4 cpp-4.6_4.6.2-9 d-shlibs_0.49 dash_0.5.7-2 debconf_1.5.41 debfoster_2.7-1.1 debhelper_8.9.14 debian-archive-keyring_2010.08.28 debianutils_4.1 diffutils_1:3.2-1 doxygen_1.7.6.1-2.1 dpkg_1.16.1.2 dpkg-dev_1.16.1.2 e2fslibs_1.42-1 e2fsprogs_1.42-1 fakeroot_1.18.2-1 file_5.09-2 findutils_4.4.2-4 g++_4:4.6.2-4 g++-4.6_4.6.2-9 gcc_4:4.6.2-4 gcc-4.6_4.6.2-9 gcc-4.6-base_4.6.2-9 gettext_0.18.1.1-5 gettext-base_0.18.1.1-5 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.10-1 groff-base_1.21-6 gzip_1.4-2 hostname_3.09 html2text_1.3.2a-15 initscripts_2.88dsf-18 insserv_1.14.0-2.1 install-info_4.13a.dfsg.1-8 intltool-debian_0.35.0+20060710.1 less_444-1 libacl1_2.2.51-5 libattr1_1:2.4.46-5 libblkid1_2.20.1-1.1 libbz2-1.0_1.0.6-1 libc-bin_2.13-24 libc-dev-bin_2.13-24 libc6_2.13-24 libc6-dev_2.13-24 libclang-common-dev_3.0-5 libclass-isa-perl_0.36-3 libcomerr2_1.42-1 libcroco3_0.6.2-2 libdb5.1_5.1.29-1 libdpkg-perl_1.16.1.2 libffi5_3.0.10-3 libgc1c2_1:7.1-8 libgcc1_1:4.6.2-9 libgdbm3_1.8.3-10 libglib2.0-0_2.30.2-4 libgmp10_2:5.0.2+dfsg-2 libgomp1_4.6.2-9 libllvm3.0_3.0-5 liblzma2_5.1.1alpha+20110809-2 liblzma5_5.1.1alpha+20110809-3 libmagic1_5.09-2 libmount1_2.20.1-1.1 libmpc2_0.9-4 libmpfr4_3.1.0-3 libncurses5_5.9-4 libncursesw5_5.9-4 libpam-modules_1.1.3-6 libpam-modules-bin_1.1.3-6 libpam-runtime_1.1.3-6 libpam0g_1.1.3-6 libpcre3_8.12-4 libpipeline1_1.2.0-5 libquadmath0_4.6.2-9 libreadline6_6.2-8 libselinux1_2.1.0-4 libsepol1_2.1.0-1.2 libslang2_2.2.4-5 libss2_1.42-1 libstdc++6_4.6.2-9 libstdc++6-4.6-dev_4.6.2-9 libswitch-perl_2.16-2 libtimedate-perl_1.2000-1 libtinfo5_5.9-4 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-20 libuuid1_2.20.1-1.1 libxml2_2.7.8.dfsg-5.1 linux-libc-dev_3.1.8-2 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-3 mawk_1.3.3-16 mount_2.20.1-1.1 multiarch-support_2.13-24 ncurses-base_5.9-4 ncurses-bin_5.9-4 nvi_1.81.6-8.2 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.14.2-6 perl-base_5.14.2-6 perl-modules_5.14.2-6 po-debconf_1.0.16+nmu2 readline-common_6.2-8 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-libgenome-dummy_0.invalid.0 sed_4.2.1-9 sensible-utils_0.0.6 sysv-rc_2.88dsf-18 sysvinit_2.88dsf-18 sysvinit-utils_2.88dsf-18 tar_1.26-4 tzdata_2011n-2 util-linux_2.20.1-1.1 xz-utils_5.1.1alpha+20110809-3 zlib1g_1:1.2.3.4.dfsg-3 ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build │ └──────────────────────────────────────────────────────────────────────────────┘ Unpack source ───────────── gpgv: keyblock resource `/var/lib/sbuild/.gnupg/trustedkeys.gpg': file open error gpgv: Signature made Thu Apr 29 11:23:26 2010 CEST using DSA key ID C09FD35A gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./libgenome_1.3.1-3.dsc dpkg-source: info: extracting libgenome in libgenome-1.3.1 dpkg-source: info: unpacking libgenome_1.3.1.orig.tar.gz dpkg-source: info: unpacking libgenome_1.3.1-3.debian.tar.gz Check disc space ──────────────── Sufficient free space for build dpkg-buildpackage ───────────────── dpkg-buildpackage: source package libgenome dpkg-buildpackage: source version 1.3.1-3 dpkg-source --before-build libgenome-1.3.1 dpkg-buildpackage: host architecture amd64 fakeroot debian/rules clean test -x debian/rules dh_testroot rm -f debian/stamp-makefile-build debian/stamp-makefile-install /usr/bin/make -C . -k distclean make[1]: *** No rule to make target `distclean'. make[1]: Entering directory `/build/libgenome-gohPCJ/libgenome-1.3.1' make[1]: Leaving directory `/build/libgenome-gohPCJ/libgenome-1.3.1' make: [makefile-clean] Error 2 (ignored) rm -f debian/stamp-autotools rmdir --ignore-fail-on-non-empty . rmdir: failed to remove `.': Invalid argument make: [makefile-clean] Error 1 (ignored) for i in ./config.guess ./config.sub ; do \ if test -e $i.cdbs-orig ; then \ mv $i.cdbs-orig $i ; \ fi ; \ done dh_clean rm -f debian/stamp-autotools-files rm -f debian/libgenome1-dev.substvars dpkg-source -b libgenome-1.3.1 dpkg-source: info: using source format `3.0 (quilt)' dpkg-source: info: building libgenome using existing ./libgenome_1.3.1.orig.tar.gz dpkg-source: info: building libgenome in libgenome_1.3.1-3.debian.tar.gz dpkg-source: info: building libgenome in libgenome_1.3.1-3.dsc debian/rules build test -x debian/rules mkdir -p "." if test -e /usr/share/misc/config.guess ; then \ for i in ./config.guess ; do \ if ! test -e $i.cdbs-orig ; then \ mv $i $i.cdbs-orig ; \ cp --remove-destination /usr/share/misc/config.guess $i ; \ fi ; \ done ; \ fi if test -e /usr/share/misc/config.sub ; then \ for i in ./config.sub ; do \ if ! test -e $i.cdbs-orig ; then \ mv $i $i.cdbs-orig ; \ cp --remove-destination /usr/share/misc/config.sub $i ; \ fi ; \ done ; \ fi touch debian/stamp-autotools-files chmod a+x /build/libgenome-gohPCJ/libgenome-1.3.1/./configure mkdir -p . cd . && CFLAGS="-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall" CXXFLAGS="-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall" CPPFLAGS="" LDFLAGS="" /build/libgenome-gohPCJ/libgenome-1.3.1/./configure --build=x86_64-linux-gnu --prefix=/usr --includedir="\${prefix}/include" --mandir="\${prefix}/share/man" --infodir="\${prefix}/share/info" --sysconfdir=/etc --localstatedir=/var --libexecdir="\${prefix}/lib/libgenome" --srcdir=. --disable-maintainer-mode --disable-dependency-tracking --disable-silent-rules checking build system type... x86_64-pc-linux-gnu checking host system type... x86_64-pc-linux-gnu checking target system type... x86_64-pc-linux-gnu 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 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 ANSI C... none needed checking for style of include used by make... GNU checking dependency style of gcc... none checking for g++... g++ checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking dependency style of g++... none checking for a sed that does not truncate output... /bin/sed checking for egrep... grep -E checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for /usr/bin/ld option to reload object files... -r checking for BSD-compatible nm... /usr/bin/nm -B checking whether ln -s works... yes checking how to recognise dependent libraries... pass_all checking how to run the C preprocessor... gcc -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 dlfcn.h usability... yes checking dlfcn.h presence... yes checking for dlfcn.h... yes checking how to run the C++ preprocessor... g++ -E checking for g77... no checking for f77... no checking for xlf... no checking for frt... no checking for pgf77... no checking for fort77... no checking for fl32... no checking for af77... no checking for f90... no checking for xlf90... no checking for pgf90... no checking for epcf90... no checking for f95... no checking for fort... no checking for xlf95... no checking for ifc... no checking for efc... no checking for pgf95... no checking for lf95... no checking for gfortran... no checking whether we are using the GNU Fortran 77 compiler... no checking whether accepts -g... no checking the maximum length of command line arguments... 32768 checking command to parse /usr/bin/nm -B output from gcc object... ok checking for objdir... .libs checking for ar... ar checking for ranlib... ranlib checking for strip... strip checking if gcc static flag works... no checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC checking if gcc PIC flag -fPIC works... no checking if gcc supports -c -o file.o... no checking if we can lock with hard links... yes checking whether the gcc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes configure: creating libtool appending configuration tag "CXX" to libtool checking for ld used by g++... /usr/bin/ld -m elf_x86_64 checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC checking if g++ PIC flag -fPIC works... no checking if g++ supports -c -o file.o... no checking if we can lock with hard links... yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes appending configuration tag "F77" to libtool checking for a BSD-compatible install... /usr/bin/install -c checking whether ln -s works... yes checking for special C compiler options needed for large files... no checking for _FILE_OFFSET_BITS value needed for large files... no checking for _LARGE_FILES value needed for large files... no checking for ANSI C header files... (cached) yes checking for OpenMP flag of C compiler... unknown checking for doxygen... /usr/bin/doxygen checking for perl... /usr/bin/perl checking for dot... no configure: WARNING: dot not found - will not generate graphics for doxygen documentation checking for latex... no configure: WARNING: latex not found - will not generate doxygen PostScript documentation checking for makeindex... no checking for dvips... no checking for egrep... /bin/egrep checking for pdflatex... no configure: WARNING: pdflatex not found - will not generate doxygen PDF documentation checking for makeindex... no checking for egrep... (cached) /bin/egrep checking for an ANSI C-conforming const... yes checking for inline... inline checking whether time.h and sys/time.h may both be included... yes checking whether gcc needs -traditional... no configure: creating ./config.status config.status: creating Makefile config.status: creating libGenome/Makefile config.status: creating libGenome-1.3.pc config.status: creating config.h config.status: executing depfiles commands touch debian/stamp-autotools /usr/bin/make -C . make[1]: Entering directory `/build/libgenome-gohPCJ/libgenome-1.3.1' /usr/bin/make all-recursive make[2]: Entering directory `/build/libgenome-gohPCJ/libgenome-1.3.1' Making all in libGenome make[3]: Entering directory `/build/libgenome-gohPCJ/libgenome-1.3.1/libGenome' /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnFilter.lo gnFilter.cpp mkdir .libs g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnFilter.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnFilter.cpp:17: In file included from ../libGenome/gnFilter.h:21: In file included from ../libGenome/gnClone.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ gnFilter.cpp:90:14: warning: array subscript is of type 'char' [-Wchar-subscripts] m_pairArray[i] = NO_REVCOMP_CHAR; ^~ gnFilter.cpp:97:14: warning: array subscript is of type 'char' [-Wchar-subscripts] m_pairArray[i] = NO_REVCOMP_CHAR; ^~ gnFilter.cpp:104:14: warning: array subscript is of type 'char' [-Wchar-subscripts] m_pairArray[i] = sf.m_pairArray[i]; ^~ gnFilter.cpp:104:34: warning: array subscript is of type 'char' [-Wchar-subscripts] m_pairArray[i] = sf.m_pairArray[i]; ^~ gnFilter.cpp:111:14: warning: array subscript is of type 'char' [-Wchar-subscripts] m_pairArray[i] = NO_REVCOMP_CHAR; ^~ gnFilter.cpp:162:26: warning: array subscript is of type 'char' [-Wchar-subscripts] tmp[c++] = m_pairArray[(*seq)[i]]; ^~~~~~~~~~ gnFilter.cpp:176:20: warning: array subscript is of type 'char' [-Wchar-subscripts] tmp = m_pairArray[(*seq)[i]]; ^~~~~~~~~~ gnFilter.cpp:177:20: warning: array subscript is of type 'char' [-Wchar-subscripts] dum = m_pairArray[(*seq)[ end - i ]]; ^~~~~~~~~~~~~~~~~~ gnFilter.cpp:184:20: warning: array subscript is of type 'char' [-Wchar-subscripts] tmp = m_pairArray[(*seq)[halfLen]]; ^~~~~~~~~~~~~~~~ gnFilter.cpp:201:26: warning: array subscript is of type 'char' [-Wchar-subscripts] seq[c++] = m_pairArray[seq[i]]; ^~~~~~~ gnFilter.cpp:213:20: warning: array subscript is of type 'char' [-Wchar-subscripts] tmp = m_pairArray[seq[i]]; ^~~~~~~ gnFilter.cpp:214:20: warning: array subscript is of type 'char' [-Wchar-subscripts] dum = m_pairArray[seq[ end - i ]]; ^~~~~~~~~~~~~~~ gnFilter.cpp:221:20: warning: array subscript is of type 'char' [-Wchar-subscripts] tmp = m_pairArray[seq[halfLen]]; ^~~~~~~~~~~~~ 14 warnings generated. mv -f gnFilter.o .libs/gnFilter.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnFilter.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnCompare.lo gnCompare.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnCompare.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnCompare.cpp:16: In file included from ../libGenome/gnCompare.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ In file included from gnCompare.cpp:16: ../libGenome/gnCompare.h:142:23: warning: array subscript is of type 'char' [-Wchar-subscripts] if(strchr(m_pairArray[ch], ch2) == 0) ^~~ gnCompare.cpp:41:14: warning: array subscript is of type 'char' [-Wchar-subscripts] m_pairArray[i] = new gnSeqC[1]; ^~ gnCompare.cpp:42:14: warning: array subscript is of type 'char' [-Wchar-subscripts] m_pairArray[i][0] = 0; ^~ gnCompare.cpp:43:17: warning: array subscript is of type 'char' [-Wchar-subscripts] m_containArray[i] = new gnSeqC[1]; ^~ gnCompare.cpp:44:17: warning: array subscript is of type 'char' [-Wchar-subscripts] m_containArray[i][0] = 0; ^~ gnCompare.cpp:65:26: warning: array subscript is of type 'char' [-Wchar-subscripts] if(strchr(m_containArray[ch], ch2) == 0) ^~~ gnCompare.cpp:86:14: warning: array subscript is of type 'char' [-Wchar-subscripts] m_pairArray[i] = new gnSeqC[1]; ^~ gnCompare.cpp:87:14: warning: array subscript is of type 'char' [-Wchar-subscripts] m_pairArray[i][0] = 0; ^~ gnCompare.cpp:88:17: warning: array subscript is of type 'char' [-Wchar-subscripts] m_containArray[i] = new gnSeqC[1]; ^~ gnCompare.cpp:89:17: warning: array subscript is of type 'char' [-Wchar-subscripts] m_containArray[i][0] = 0; ^~ gnCompare.cpp:107:23: warning: array subscript is of type 'char' [-Wchar-subscripts] delete[] m_pairArray[i]; ^~ gnCompare.cpp:108:26: warning: array subscript is of type 'char' [-Wchar-subscripts] delete[] m_containArray[i]; ^~ gnCompare.cpp:114:30: warning: array subscript is of type 'char' [-Wchar-subscripts] uint32 curlen = strlen(array[ch]); ^~~ gnCompare.cpp:116:19: warning: array subscript is of type 'char' [-Wchar-subscripts] strcpy(tmp, array[ch]); ^~~ gnCompare.cpp:119:16: warning: array subscript is of type 'char' [-Wchar-subscripts] delete[] array[ch]; ^~~ gnCompare.cpp:120:7: warning: array subscript is of type 'char' [-Wchar-subscripts] array[ch] = tmp; ^~~ gnCompare.cpp:125:37: warning: array subscript is of type 'char' [-Wchar-subscripts] gnSeqC* loc = strchr(m_containArray[ch], ch2); ^~~ gnCompare.cpp:134:30: warning: array subscript is of type 'char' [-Wchar-subscripts] uint32 curlen = strlen(array[ch]); ^~~ gnCompare.cpp:138:20: warning: array subscript is of type 'char' [-Wchar-subscripts] if(m_containArray[ch][i] != ch2) ^~~ gnCompare.cpp:139:34: warning: array subscript is of type 'char' [-Wchar-subscripts] tmp[tmppos++] = m_containArray[ch][i]; ^~~ gnCompare.cpp:141:16: warning: array subscript is of type 'char' [-Wchar-subscripts] delete[] array[ch]; ^~~ gnCompare.cpp:142:7: warning: array subscript is of type 'char' [-Wchar-subscripts] array[ch] = tmp; ^~~ 23 warnings generated. mv -f gnCompare.o .libs/gnCompare.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnCompare.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnTranslator.lo gnTranslator.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnTranslator.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnTranslator.cpp:16: In file included from ../libGenome/gnTranslator.h:20: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ In file included from gnTranslator.cpp:16: In file included from ../libGenome/gnTranslator.h:26: ../libGenome/gnCompare.h:142:23: warning: array subscript is of type 'char' [-Wchar-subscripts] if(strchr(m_pairArray[ch], ch2) == 0) ^~~ 2 warnings generated. mv -f gnTranslator.o .libs/gnTranslator.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnTranslator.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnSourceFactory.lo gnSourceFactory.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnSourceFactory.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnSourceFactory.cpp:16: In file included from ../libGenome/gnSourceFactory.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ In file included from gnSourceFactory.cpp:19: In file included from ../libGenome/gnFASSource.h:25: In file included from ../libGenome/gnSequence.h:31: ../libGenome/gnCompare.h:142:23: warning: array subscript is of type 'char' [-Wchar-subscripts] if(strchr(m_pairArray[ch], ch2) == 0) ^~~ 2 warnings generated. mv -f gnSourceFactory.o .libs/gnSourceFactory.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnSourceFactory.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnFeature.lo gnFeature.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnFeature.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnFeature.cpp:16: In file included from ../libGenome/gnFeature.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ 1 warning generated. mv -f gnFeature.o .libs/gnFeature.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnFeature.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnSourceQualifier.lo gnSourceQualifier.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnSourceQualifier.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnSourceQualifier.cpp:18: In file included from ../libGenome/gnBaseSource.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ 1 warning generated. mv -f gnSourceQualifier.o .libs/gnSourceQualifier.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnSourceQualifier.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnFileContig.lo gnFileContig.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnFileContig.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnFileContig.cpp:16: In file included from ../libGenome/gnFileContig.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ 1 warning generated. mv -f gnFileContig.o .libs/gnFileContig.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnFileContig.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnSourceSpec.lo gnSourceSpec.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnSourceSpec.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnSourceSpec.cpp:17: In file included from ../libGenome/gnSourceSpec.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ 1 warning generated. mv -f gnSourceSpec.o .libs/gnSourceSpec.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnSourceSpec.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnFileSource.lo gnFileSource.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnFileSource.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnFileSource.cpp:17: In file included from ../libGenome/gnFileSource.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ gnFileSource.cpp:35:9: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma omp critical ^ gnFileSource.cpp:47:9: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma omp critical ^ gnFileSource.cpp:72:9: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma omp critical ^ gnFileSource.cpp:85:9: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma omp critical ^ gnFileSource.cpp:92:9: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma omp critical ^ gnFileSource.cpp:99:9: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma omp critical ^ 7 warnings generated. mv -f gnFileSource.o .libs/gnFileSource.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnFileSource.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnFASSource.lo gnFASSource.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnFASSource.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnFASSource.cpp:16: In file included from ../libGenome/gnFASSource.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ In file included from gnFASSource.cpp:16: In file included from ../libGenome/gnFASSource.h:25: In file included from ../libGenome/gnSequence.h:31: ../libGenome/gnCompare.h:142:23: warning: array subscript is of type 'char' [-Wchar-subscripts] if(strchr(m_pairArray[ch], ch2) == 0) ^~~ gnFASSource.cpp:104:9: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma omp critical ^ 3 warnings generated. mv -f gnFASSource.o .libs/gnFASSource.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnFASSource.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnFragmentSpec.lo gnFragmentSpec.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnFragmentSpec.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnFragmentSpec.cpp:16: In file included from ../libGenome/gnFragmentSpec.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ 1 warning generated. mv -f gnFragmentSpec.o .libs/gnFragmentSpec.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnFragmentSpec.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnStringSpec.lo gnStringSpec.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnStringSpec.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnStringSpec.cpp:17: In file included from ../libGenome/gnStringSpec.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ 1 warning generated. mv -f gnStringSpec.o .libs/gnStringSpec.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnStringSpec.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnGBKSource.lo gnGBKSource.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnGBKSource.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnGBKSource.cpp:16: In file included from ../libGenome/gnFilter.h:21: In file included from ../libGenome/gnClone.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ In file included from gnGBKSource.cpp:18: In file included from ../libGenome/gnGBKSource.h:27: In file included from ../libGenome/gnSequence.h:31: ../libGenome/gnCompare.h:142:23: warning: array subscript is of type 'char' [-Wchar-subscripts] if(strchr(m_pairArray[ch], ch2) == 0) ^~~ gnGBKSource.cpp:101:9: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma omp critical ^ 3 warnings generated. mv -f gnGBKSource.o .libs/gnGBKSource.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnGBKSource.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnStringTools.lo gnStringTools.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnStringTools.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnStringTools.cpp:16: In file included from ../libGenome/gnStringTools.h:24: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ 1 warning generated. mv -f gnStringTools.o .libs/gnStringTools.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnStringTools.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnGenomeSpec.lo gnGenomeSpec.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnGenomeSpec.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnGenomeSpec.cpp:16: In file included from ../libGenome/gnGenomeSpec.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ 1 warning generated. mv -f gnGenomeSpec.o .libs/gnGenomeSpec.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnGenomeSpec.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnLocation.lo gnLocation.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnLocation.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnLocation.cpp:15: In file included from ../libGenome/gnLocation.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ 1 warning generated. mv -f gnLocation.o .libs/gnLocation.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnLocation.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnRAWSource.lo gnRAWSource.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnRAWSource.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnRAWSource.cpp:16: In file included from ../libGenome/gnFilter.h:21: In file included from ../libGenome/gnClone.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ In file included from gnRAWSource.cpp:17: In file included from ../libGenome/gnRAWSource.h:27: In file included from ../libGenome/gnSequence.h:31: ../libGenome/gnCompare.h:142:23: warning: array subscript is of type 'char' [-Wchar-subscripts] if(strchr(m_pairArray[ch], ch2) == 0) ^~~ 2 warnings generated. mv -f gnRAWSource.o .libs/gnRAWSource.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnRAWSource.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnBaseFeature.lo gnBaseFeature.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnBaseFeature.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnBaseFeature.cpp:16: In file included from ../libGenome/gnBaseFeature.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ 1 warning generated. mv -f gnBaseFeature.o .libs/gnBaseFeature.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnBaseFeature.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnSEQSource.lo gnSEQSource.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnSEQSource.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnSEQSource.cpp:16: In file included from ../libGenome/gnFilter.h:21: In file included from ../libGenome/gnClone.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ In file included from gnSEQSource.cpp:18: In file included from ../libGenome/gnSEQSource.h:27: In file included from ../libGenome/gnSequence.h:31: ../libGenome/gnCompare.h:142:23: warning: array subscript is of type 'char' [-Wchar-subscripts] if(strchr(m_pairArray[ch], ch2) == 0) ^~~ 2 warnings generated. mv -f gnSEQSource.o .libs/gnSEQSource.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnSEQSource.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnSequence.lo gnSequence.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnSequence.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnSequence.cpp:16: In file included from ../libGenome/gnSequence.h:20: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ In file included from gnSequence.cpp:16: In file included from ../libGenome/gnSequence.h:31: ../libGenome/gnCompare.h:142:23: warning: array subscript is of type 'char' [-Wchar-subscripts] if(strchr(m_pairArray[ch], ch2) == 0) ^~~ 2 warnings generated. mv -f gnSequence.o .libs/gnSequence.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnSequence.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnContigSpec.lo gnContigSpec.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnContigSpec.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnContigSpec.cpp:16: In file included from ../libGenome/gnContigSpec.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ 1 warning generated. mv -f gnContigSpec.o .libs/gnContigSpec.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnContigSpec.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnSourceHeader.lo gnSourceHeader.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnSourceHeader.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnSourceHeader.cpp:18: In file included from ../libGenome/gnBaseSource.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ 1 warning generated. mv -f gnSourceHeader.o .libs/gnSourceHeader.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnSourceHeader.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnException.lo gnException.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnException.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnException.cpp:5: In file included from ../libGenome/gnException.h:8: In file included from ../libGenome/gnClone.h:19: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ 1 warning generated. mv -f gnException.o .libs/gnException.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnException.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnFastTranslator.lo gnFastTranslator.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnFastTranslator.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnFastTranslator.cpp:16: In file included from ../libGenome/gnFastTranslator.h:20: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ In file included from gnFastTranslator.cpp:16: In file included from ../libGenome/gnFastTranslator.h:27: In file included from ../libGenome/gnTranslator.h:26: ../libGenome/gnCompare.h:142:23: warning: array subscript is of type 'char' [-Wchar-subscripts] if(strchr(m_pairArray[ch], ch2) == 0) ^~~ 2 warnings generated. mv -f gnFastTranslator.o .libs/gnFastTranslator.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnFastTranslator.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnPosSpecificTranslator.lo gnPosSpecificTranslator.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnPosSpecificTranslator.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnPosSpecificTranslator.cpp:18: In file included from ../libGenome/gnPosSpecificTranslator.h:22: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ In file included from gnPosSpecificTranslator.cpp:18: In file included from ../libGenome/gnPosSpecificTranslator.h:29: In file included from ../libGenome/gnFastTranslator.h:27: In file included from ../libGenome/gnTranslator.h:26: ../libGenome/gnCompare.h:142:23: warning: array subscript is of type 'char' [-Wchar-subscripts] if(strchr(m_pairArray[ch], ch2) == 0) ^~~ 2 warnings generated. mv -f gnPosSpecificTranslator.o .libs/gnPosSpecificTranslator.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnPosSpecificTranslator.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c -o gnDefs.lo gnDefs.cpp g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnDefs.cpp -DPIC clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' In file included from gnDefs.cpp:5: ../libGenome/gnDefs.h:19:13: warning: unknown pragma ignored [-Wunknown-pragmas] #pragma interface "libGenome/gnDefs.h" ^ 1 warning generated. mv -f gnDefs.o .libs/gnDefs.o g++ -DHAVE_CONFIG_H -I. -I. -I.. -I.. -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -c gnDefs.cpp >/dev/null 2>&1 /bin/bash ../libtool --mode=link --tag=CXX g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -o libGenome-1.3.la -rpath /usr/lib -version-info 1:3:1 gnFilter.lo gnCompare.lo gnTranslator.lo gnSourceFactory.lo gnFeature.lo gnSourceQualifier.lo gnFileContig.lo gnSourceSpec.lo gnFileSource.lo gnFASSource.lo gnFragmentSpec.lo gnStringSpec.lo gnGBKSource.lo gnStringTools.lo gnGenomeSpec.lo gnLocation.lo gnRAWSource.lo gnBaseFeature.lo gnSEQSource.lo gnSequence.lo gnContigSpec.lo gnSourceHeader.lo gnException.lo gnFastTranslator.lo gnPosSpecificTranslator.lo gnDefs.lo g++ -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/4.6/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/4.6/crtbeginS.o .libs/gnFilter.o .libs/gnCompare.o .libs/gnTranslator.o .libs/gnSourceFactory.o .libs/gnFeature.o .libs/gnSourceQualifier.o .libs/gnFileContig.o .libs/gnSourceSpec.o .libs/gnFileSource.o .libs/gnFASSource.o .libs/gnFragmentSpec.o .libs/gnStringSpec.o .libs/gnGBKSource.o .libs/gnStringTools.o .libs/gnGenomeSpec.o .libs/gnLocation.o .libs/gnRAWSource.o .libs/gnBaseFeature.o .libs/gnSEQSource.o .libs/gnSequence.o .libs/gnContigSpec.o .libs/gnSourceHeader.o .libs/gnException.o .libs/gnFastTranslator.o .libs/gnPosSpecificTranslator.o .libs/gnDefs.o -L/usr/lib/gcc/x86_64-linux-gnu/4.6 -L/usr/lib/gcc/x86_64-linux-gnu/4.6/../../../x86_64-linux-gnu -L/lib/x86_64-linux-gnu -L/lib/../lib64 -L/usr/lib/x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/4.6/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/4.6/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/4.6/../../../x86_64-linux-gnu/crtn.o -Wl,-soname -Wl,libGenome-1.3.so.0 -o .libs/libGenome-1.3.so.0.1.3 /usr/bin/ld: .libs/gnFilter.o: relocation R_X86_64_32 against `.bss' can not be used when making a shared object; recompile with -fPIC .libs/gnFilter.o: could not read symbols: Bad value clang: error: linker command failed with exit code 1 (use -v to see invocation) make[3]: *** [libGenome-1.3.la] Error 1 make[3]: Leaving directory `/build/libgenome-gohPCJ/libgenome-1.3.1/libGenome' make[2]: *** [all-recursive] Error 1 make[2]: Leaving directory `/build/libgenome-gohPCJ/libgenome-1.3.1' make[1]: *** [all] Error 2 make[1]: Leaving directory `/build/libgenome-gohPCJ/libgenome-1.3.1' make: *** [debian/stamp-makefile-build] Error 2 dpkg-buildpackage: error: debian/rules build gave error exit status 2 ──────────────────────────────────────────────────────────────────────────────── Build finished at 20120113-0128 Finished ──────── E: Build failure (dpkg-buildpackage died) ┌──────────────────────────────────────────────────────────────────────────────┐ │ Cleanup │ └──────────────────────────────────────────────────────────────────────────────┘ Purging /var/lib/schroot/mount/lsid64b-9f781679-4bea-423d-a7ef-ecf1aece2d5f/build/libgenome-gohPCJ Not cleaning session: cloned chroot in use ┌──────────────────────────────────────────────────────────────────────────────┐ │ Summary │ └──────────────────────────────────────────────────────────────────────────────┘ Architecture: amd64 Build-Space: 16132 Build-Time: 51 Distribution: lsid64b Fail-Stage: build Install-Time: 6 Job: libgenome_1.3.1-3 Package: libgenome Package-Time: 69 Source-Version: 1.3.1-3 Space: 16132 Status: attempted Version: 1.3.1-3 ──────────────────────────────────────────────────────────────────────────────── Finished at 20120113-0128 Build needed 00:01:09, 16132k disc space DC-Build-Status: Failed 744.878782s ### Content of /var/log/daemon.log ### Jan 12 21:03:09 stremi-25 approx: Concurrent download of debian/dists/sid/Release.gpg is taking too long Jan 12 21:04:00 stremi-25 approx: Concurrent download of debian/dists/sid/Release.gpg is taking too long Jan 12 21:04:21 stremi-25 approx: Concurrent download of debian/dists/sid/Release.gpg is taking too long Jan 12 21:04:32 stremi-25 approx: Concurrent download of debian/dists/sid/Release.gpg is taking too long Jan 12 21:04:53 stremi-25 approx: Concurrent download of debian/dists/sid/Release.gpg is taking too long Jan 12 21:05:04 stremi-25 approx: Concurrent download of debian/dists/sid/Release.gpg is taking too long Jan 12 21:05:09 stremi-25 approx: Concurrent download of debian/dists/sid/Release is taking too long Jan 12 21:05:33 stremi-25 approx: Concurrent download of debian/dists/sid/main/i18n/Index is taking too long Jan 12 21:06:09 stremi-25 approx: Concurrent download of debian/dists/sid/main/i18n/Translation-en.gz is taking too long Jan 12 21:06:11 stremi-25 approx: Concurrent download of debian/dists/sid/main/i18n/Translation-en.bz2 is taking too long Jan 12 21:06:23 stremi-25 approx: Concurrent download of debian/dists/sid/main/source/Sources.xz is taking too long Jan 12 21:06:30 stremi-25 approx: Concurrent download of debian/dists/sid/main/i18n/Translation-en is taking too long ### End of content of /var/log/daemon.log ### DC-Time-Estimation: 744.878782 versus expected 66 (r/m: 10.2860421515152 ; m: 66.0) DC-Build-Network: USED. See /tmp/rulesafter.8HloHs ! ************************************************************ # Generated by iptables-save v1.4.8 on Fri Jan 13 01:28:40 2012 *filter :INPUT ACCEPT [22064401:36245537616] :FORWARD ACCEPT [0:0] :OUTPUT DROP [0:0] :LD - [0:0] [20041804:31733567133] -A OUTPUT -o lo -j ACCEPT [0:0] -A OUTPUT -d 129.88.0.0/16 -j ACCEPT [0:0] -A OUTPUT -d 10.0.0.0/8 -j ACCEPT [0:0] -A OUTPUT -d 192.168.133.0/24 -j ACCEPT [0:0] -A OUTPUT -d 192.168.159.0/24 -j ACCEPT [0:0] -A OUTPUT -d 192.168.160.0/24 -j ACCEPT [0:0] -A OUTPUT -d 10.69.0.0/17 -j ACCEPT [0:0] -A OUTPUT -d 172.28.52.0/22 -j ACCEPT [0:0] -A OUTPUT -d 172.24.0.0/16 -j ACCEPT [0:0] -A OUTPUT -d 131.254.202.0/23 -j ACCEPT [0:0] -A OUTPUT -d 138.96.20.0/22 -j ACCEPT [0:0] -A OUTPUT -d 192.168.22.0/24 -j ACCEPT [446646:188360499] -A OUTPUT -d 172.16.0.0/16 -j ACCEPT [0:0] -A OUTPUT -d 192.168.67.0/24 -j ACCEPT [32342:4309076] -A OUTPUT -d 224.0.0.0/4 -p udp -j ACCEPT [202:12120] -A OUTPUT -j LD [202:12120] -A LD -j LOG [202:12120] -A LD -j REJECT --reject-with icmp-port-unreachable COMMIT # Completed on Fri Jan 13 01:28:40 2012 ************************************************************ --- /tmp/rulesbefore.akS87A 2012-01-13 01:16:15.912988424 +0100 +++ /tmp/rulesafter.8HloHs 2012-01-13 01:28:40.797744017 +0100 @@ -1,10 +1,10 @@ -# Generated by iptables-save v1.4.8 on Fri Jan 13 01:16:15 2012 +# Generated by iptables-save v1.4.8 on Fri Jan 13 01:28:40 2012 *filter -:INPUT ACCEPT [21717006:32699790319] +:INPUT ACCEPT [22064401:36245537616] :FORWARD ACCEPT [0:0] :OUTPUT DROP [0:0] :LD - [0:0] -[19783881:28299483919] -A OUTPUT -o lo -j ACCEPT +[20041804:31733567133] -A OUTPUT -o lo -j ACCEPT [0:0] -A OUTPUT -d 129.88.0.0/16 -j ACCEPT [0:0] -A OUTPUT -d 10.0.0.0/8 -j ACCEPT [0:0] -A OUTPUT -d 192.168.133.0/24 -j ACCEPT @@ -16,11 +16,11 @@ [0:0] -A OUTPUT -d 131.254.202.0/23 -j ACCEPT [0:0] -A OUTPUT -d 138.96.20.0/22 -j ACCEPT [0:0] -A OUTPUT -d 192.168.22.0/24 -j ACCEPT -[426527:178726836] -A OUTPUT -d 172.16.0.0/16 -j ACCEPT +[446646:188360499] -A OUTPUT -d 172.16.0.0/16 -j ACCEPT [0:0] -A OUTPUT -d 192.168.67.0/24 -j ACCEPT -[30813:4108060] -A OUTPUT -d 224.0.0.0/4 -p udp -j ACCEPT +[32342:4309076] -A OUTPUT -d 224.0.0.0/4 -p udp -j ACCEPT [202:12120] -A OUTPUT -j LD [202:12120] -A LD -j LOG [202:12120] -A LD -j REJECT --reject-with icmp-port-unreachable COMMIT -# Completed on Fri Jan 13 01:16:15 2012 +# Completed on Fri Jan 13 01:28:40 2012 ************************************************************ [ 9067.309753] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=64671 DF PROTO=TCP SPT=54091 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9070.328030] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=64672 DF PROTO=TCP SPT=54091 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9070.345590] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=953 DF PROTO=TCP SPT=54092 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9073.364114] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=954 DF PROTO=TCP SPT=54092 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9073.381898] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=34371 DF PROTO=TCP SPT=54093 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9076.400620] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=34372 DF PROTO=TCP SPT=54093 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9076.418393] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=45630 DF PROTO=TCP SPT=54094 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9079.436535] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=45631 DF PROTO=TCP SPT=54094 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9079.454157] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=21326 DF PROTO=TCP SPT=54095 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9082.468704] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=21327 DF PROTO=TCP SPT=54095 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9082.486349] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=62056 DF PROTO=TCP SPT=54096 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9085.500090] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=62057 DF PROTO=TCP SPT=54096 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9085.517679] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=21723 DF PROTO=TCP SPT=54097 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9088.533533] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=21724 DF PROTO=TCP SPT=54097 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9088.551538] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=6375 DF PROTO=TCP SPT=54098 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9091.568073] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=6376 DF PROTO=TCP SPT=54098 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9091.585577] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=39654 DF PROTO=TCP SPT=54099 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9094.601541] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=39655 DF PROTO=TCP SPT=54099 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9094.619199] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=50624 DF PROTO=TCP SPT=54100 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9097.633702] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=50625 DF PROTO=TCP SPT=54100 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9097.651330] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=50592 DF PROTO=TCP SPT=54101 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9100.664048] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=50593 DF PROTO=TCP SPT=54101 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9100.682185] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=39289 DF PROTO=TCP SPT=54102 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9103.700537] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=39290 DF PROTO=TCP SPT=54102 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9103.718162] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=22147 DF PROTO=TCP SPT=54103 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9106.732072] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=22148 DF PROTO=TCP SPT=54103 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9106.749724] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=56693 DF PROTO=TCP SPT=54104 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9109.765621] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=56694 DF PROTO=TCP SPT=54104 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9109.943465] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=39012 DF PROTO=TCP SPT=54105 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9112.964030] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=39013 DF PROTO=TCP SPT=54105 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9112.981627] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=2052 DF PROTO=TCP SPT=54106 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9115.996046] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=2053 DF PROTO=TCP SPT=54106 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9116.013547] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=7014 DF PROTO=TCP SPT=54107 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [ 9119.028039] IN= OUT=eth0 SRC=172.16.160.25 DST=152.3.101.146 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=7015 DF PROTO=TCP SPT=54107 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [12270.644039] IN= OUT=eth0 SRC=172.16.160.25 DST=216.34.181.96 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=6682 DF PROTO=TCP SPT=45717 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [12273.664030] IN= OUT=eth0 SRC=172.16.160.25 DST=216.34.181.96 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=6683 DF PROTO=TCP SPT=45717 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [12324.920270] IN= OUT=eth0 SRC=172.16.160.25 DST=216.34.181.96 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=45451 DF PROTO=TCP SPT=45988 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [12327.940107] IN= OUT=eth0 SRC=172.16.160.25 DST=216.34.181.96 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=45452 DF PROTO=TCP SPT=45988 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [12893.823967] IN= OUT=eth0 SRC=172.16.160.25 DST=130.239.18.172 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=18509 DF PROTO=TCP SPT=36671 DPT=6667 WINDOW=5840 RES=0x00 SYN URGP=0 [12896.841282] IN= OUT=eth0 SRC=172.16.160.25 DST=130.239.18.172 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=18510 DF PROTO=TCP SPT=36671 DPT=6667 WINDOW=5840 RES=0x00 SYN URGP=0 [13559.794684] IN= OUT=eth0 SRC=172.16.160.25 DST=192.9.162.55 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=53885 DF PROTO=TCP SPT=34807 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [13998.022757] IN= OUT=eth0 SRC=172.16.160.25 DST=192.9.162.55 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=42751 DF PROTO=TCP SPT=48224 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [14527.882100] IN= OUT=eth0 SRC=172.16.160.25 DST=66.151.234.53 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=34487 DF PROTO=TCP SPT=32838 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [14530.897369] IN= OUT=eth0 SRC=172.16.160.25 DST=66.151.234.53 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=34488 DF PROTO=TCP SPT=32838 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [15423.521231] IN= OUT=eth0 SRC=172.16.160.25 DST=192.9.162.55 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=22391 DF PROTO=TCP SPT=42186 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [15426.540871] IN= OUT=eth0 SRC=172.16.160.25 DST=192.9.162.55 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=22392 DF PROTO=TCP SPT=42186 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [15437.033267] IN= OUT=eth0 SRC=172.16.160.25 DST=192.9.162.55 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=15721 DF PROTO=TCP SPT=42188 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [15440.052028] IN= OUT=eth0 SRC=172.16.160.25 DST=192.9.162.55 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=15722 DF PROTO=TCP SPT=42188 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [15582.297966] IN= OUT=eth0 SRC=172.16.160.25 DST=192.9.162.55 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=9388 DF PROTO=TCP SPT=42396 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [15585.313035] IN= OUT=eth0 SRC=172.16.160.25 DST=192.9.162.55 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=9389 DF PROTO=TCP SPT=42396 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 ************************************************************