DC-Build-Header: samtools 0.1.18-1 / Fri Jan 13 02:23:04 +0100 2012 Another build requested exclusive access to the build node Another build requested exclusive access to the build node sbuild (Debian sbuild) 0.62.2 (05 Apr 2011) on stremi-18.reims.grid5000.fr ╔══════════════════════════════════════════════════════════════════════════════╗ ║ samtools 0.1.18-1 (amd64) 13 Jan 2012 02:24 ║ ╚══════════════════════════════════════════════════════════════════════════════╝ Package: samtools Version: 0.1.18-1 Source Version: 0.1.18-1 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 (4927 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: 'samtools' packaging is maintained in the 'Git' version control system at: git://git.debian.org/debian-med/samtools.git Need to get 389 kB of source archives. Get:1 http://localhost/debian/ sid/main samtools 0.1.18-1 (dsc) [1946 B] Get:2 http://localhost/debian/ sid/main samtools 0.1.18-1 (tar) [379 kB] Get:3 http://localhost/debian/ sid/main samtools 0.1.18-1 (diff) [7593 B] Fetched 389 kB in 0s (20.1 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/samtools-wkhK4e/resolver-ium8m0/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/698 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-6ebfbd9b-5ad7-4384-baff-23760c50f8eb/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 (>= 8), cdbs, quilt, libncurses5-dev, zlib1g-dev 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 (>= 8), cdbs, quilt, libncurses5-dev, zlib1g-dev dpkg-deb: building package `sbuild-build-depends-samtools-dummy' in `/build/samtools-wkhK4e/resolver-z2v6Ca/apt_archive/sbuild-build-depends-samtools-dummy.deb'. OK Reading package lists... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Install samtools build dependencies (apt-based resolver) │ └──────────────────────────────────────────────────────────────────────────────┘ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: bsdmainutils cdbs debhelper diffstat file gettext gettext-base groff-base html2text intltool-debian libcroco3 libglib2.0-0 libmagic1 libncurses5-dev libpcre3 libpipeline1 libtinfo-dev libunistring0 libxml2 man-db po-debconf quilt zlib1g-dev Suggested packages: wamerican wordlist whois vacation devscripts dh-make gettext-doc groff ncurses-doc www-browser libmail-box-perl procmail graphviz default-mta mail-transport-agent Recommended packages: autotools-dev curl wget lynx-cur autopoint libglib2.0-data shared-mime-info xml-core libmail-sendmail-perl The following NEW packages will be installed: bsdmainutils cdbs debhelper diffstat file gettext gettext-base groff-base html2text intltool-debian libcroco3 libglib2.0-0 libmagic1 libncurses5-dev libpcre3 libpipeline1 libtinfo-dev libunistring0 libxml2 man-db po-debconf quilt sbuild-build-depends-samtools-dummy zlib1g-dev 0 upgraded, 24 newly installed, 0 to remove and 10 not upgraded. Need to get 10.7 MB/10.7 MB of archives. After this operation, 29.2 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 cdbs html2text gettext intltool-debian po-debconf debhelper diffstat libtinfo-dev libncurses5-dev quilt zlib1g-dev sbuild-build-depends-samtools-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 cdbs all 0.4.100 [77.1 kB] Get:14 http://localhost/debian/ sid/main html2text amd64 1.3.2a-15 [103 kB] Get:15 http://localhost/debian/ sid/main gettext amd64 0.18.1.1-5 [2080 kB] Get:16 http://localhost/debian/ sid/main intltool-debian all 0.35.0+20060710.1 [30.8 kB] Get:17 http://localhost/debian/ sid/main po-debconf all 1.0.16+nmu2 [224 kB] Get:18 http://localhost/debian/ sid/main debhelper all 8.9.14 [693 kB] Get:19 http://localhost/debian/ sid/main diffstat amd64 1.55-2 [29.9 kB] Get:20 http://localhost/debian/ sid/main libtinfo-dev amd64 5.9-4 [103 kB] Get:21 http://localhost/debian/ sid/main libncurses5-dev amd64 5.9-4 [406 kB] Get:22 http://localhost/debian/ sid/main quilt all 0.50-2 [381 kB] Get:23 http://localhost/debian/ sid/main zlib1g-dev amd64 1:1.2.3.4.dfsg-3 [192 kB] Preconfiguring packages ... Fetched 10.7 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 cdbs. Unpacking cdbs (from .../archives/cdbs_0.4.100_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 diffstat. Unpacking diffstat (from .../diffstat_1.55-2_amd64.deb) ... Selecting previously unselected package libtinfo-dev. Unpacking libtinfo-dev (from .../libtinfo-dev_5.9-4_amd64.deb) ... Selecting previously unselected package libncurses5-dev. Unpacking libncurses5-dev (from .../libncurses5-dev_5.9-4_amd64.deb) ... Selecting previously unselected package quilt. Unpacking quilt (from .../archives/quilt_0.50-2_all.deb) ... Selecting previously unselected package zlib1g-dev. Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_amd64.deb) ... Selecting previously unselected package sbuild-build-depends-samtools-dummy. Unpacking sbuild-build-depends-samtools-dummy (from .../sbuild-build-depends-samtools-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 cdbs (0.4.100) ... 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 diffstat (1.55-2) ... Setting up libtinfo-dev (5.9-4) ... Setting up libncurses5-dev (5.9-4) ... Setting up quilt (0.50-2) ... Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ... Setting up sbuild-build-depends-samtools-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 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 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 diffstat_1.55-2 diffutils_1:3.2-1 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 libncurses5-dev_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 libtinfo-dev_5.9-4 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 quilt_0.50-2 readline-common_6.2-8 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-samtools-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 zlib1g-dev_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 Tue Sep 6 10:31:29 2011 CEST using RSA key ID 2295D502 gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./samtools_0.1.18-1.dsc dpkg-source: info: extracting samtools in samtools-0.1.18 dpkg-source: info: unpacking samtools_0.1.18.orig.tar.bz2 dpkg-source: info: unpacking samtools_0.1.18-1.debian.tar.gz dpkg-source: info: applying no-pileup-tests.patch Check disc space ──────────────── Sufficient free space for build dpkg-buildpackage ───────────────── dpkg-buildpackage: source package samtools dpkg-buildpackage: source version 0.1.18-1 dpkg-source --before-build samtools-0.1.18 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 . CFLAGS="-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC" CXXFLAGS="-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall" CPPFLAGS="" LDFLAGS="" -k clean make[1]: Entering directory `/build/samtools-wkhK4e/samtools-0.1.18' make[2]: Entering directory `/build/samtools-wkhK4e/samtools-0.1.18' rm -fr gmon.out *.o a.out *.exe *.dSYM razip bgzip samtools *~ *.a *.so.* *.so *.dylib make[2]: Leaving directory `/build/samtools-wkhK4e/samtools-0.1.18' make[2]: Entering directory `/build/samtools-wkhK4e/samtools-0.1.18/bcftools' rm -fr gmon.out *.o a.out *.dSYM bcftools *~ *.a bcf.aux bcf.log bcf.pdf *.class libbcf.*.dylib libbcf.so* make[2]: Leaving directory `/build/samtools-wkhK4e/samtools-0.1.18/bcftools' make[2]: Entering directory `/build/samtools-wkhK4e/samtools-0.1.18/misc' rm -fr gmon.out *.o a.out *.exe *.dSYM md5sum-lite md5fa maq2sam-short maq2sam-long wgsim seqtk *~ *.a make[2]: Leaving directory `/build/samtools-wkhK4e/samtools-0.1.18/misc' make[1]: Leaving directory `/build/samtools-wkhK4e/samtools-0.1.18' rm -f debian/stamp-makefile-check dh_clean /usr/bin/make -f debian/rules reverse-config make[1]: Entering directory `/build/samtools-wkhK4e/samtools-0.1.18' make[1]: Nothing to be done for `reverse-config'. make[1]: Leaving directory `/build/samtools-wkhK4e/samtools-0.1.18' if [ -d "." ]; then \ cd . && QUILT_PATCHES=/build/samtools-wkhK4e/samtools-0.1.18/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \ fi Removing patch no-pileup-tests.patch Restoring examples/Makefile No patches applied rm -rf ./.pc rm -f debian/stamp-patch* rm -f examples/calDepth examples/ex1.bam examples/ex1.bam.bai examples/ex1.fa.fai examples/ex1.glf examples/ex1.glfview.gz examples/ex1.pileup.gz examples/ex1a.bam examples/ex1b.bam examples/ex1f-rmduppe.bam examples/ex1f-rmdupse.bam examples/ex1f.bam examples/ex1f.rg examples/ex1.bcf dpkg-source -b samtools-0.1.18 dpkg-source: info: using source format `3.0 (quilt)' dpkg-source: info: patches are not applied, applying them now dpkg-source: info: applying no-pileup-tests.patch dpkg-source: info: building samtools using existing ./samtools_0.1.18.orig.tar.bz2 dpkg-source: info: building samtools in samtools_0.1.18-1.debian.tar.gz dpkg-source: info: building samtools in samtools_0.1.18-1.dsc debian/rules build test -x debian/rules mkdir -p "." /usr/share/cdbs/1/rules/buildcore.mk:109: WARNING: DEB_DH_BUILDDEB_ARGS is a deprecated variable /usr/bin/make -f debian/rules reverse-config make[1]: Entering directory `/build/samtools-wkhK4e/samtools-0.1.18' make[1]: Nothing to be done for `reverse-config'. make[1]: Leaving directory `/build/samtools-wkhK4e/samtools-0.1.18' cd . && QUILT_PATCHES=/build/samtools-wkhK4e/samtools-0.1.18/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2 File series fully applied, ends at patch no-pileup-tests.patch touch debian/stamp-patched /usr/bin/make -f debian/rules update-config make[1]: Entering directory `/build/samtools-wkhK4e/samtools-0.1.18' make[1]: Nothing to be done for `update-config'. make[1]: Leaving directory `/build/samtools-wkhK4e/samtools-0.1.18' /usr/bin/make -C . CFLAGS="-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC" CXXFLAGS="-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall" CPPFLAGS="" LDFLAGS="" all all-recur razip lib make[1]: Entering directory `/build/samtools-wkhK4e/samtools-0.1.18' make[2]: Entering directory `/build/samtools-wkhK4e/samtools-0.1.18' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bgzf.c -o bgzf.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. kstring.c -o kstring.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_aux.c -o bam_aux.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam.c -o bam.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_import.c -o bam_import.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. sam.c -o sam.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_index.c -o bam_index.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_pileup.c -o bam_pileup.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_lpileup.c -o bam_lpileup.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_md.c -o bam_md.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. razf.c -o razf.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. faidx.c -o faidx.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bedidx.c -o bedidx.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. knetfile.c -o knetfile.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_sort.c -o bam_sort.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. sam_header.c -o sam_header.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_reheader.c -o bam_reheader.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. kprobaln.c -o kprobaln.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_cat.c -o bam_cat.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' ar -csru libbam.a bgzf.o kstring.o bam_aux.o bam.o bam_import.o sam.o bam_index.o bam_pileup.o bam_lpileup.o bam_md.o razf.o faidx.o bedidx.o knetfile.o bam_sort.o sam_header.o bam_reheader.o kprobaln.o bam_cat.o make[2]: Leaving directory `/build/samtools-wkhK4e/samtools-0.1.18' make[2]: Entering directory `/build/samtools-wkhK4e/samtools-0.1.18/bcftools' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. bcf.c -o bcf.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. vcf.c -o vcf.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' vcf.c:238:15: warning: explicitly assigning a variable of type 'int' to itself [-Wself-assign] endblock: i = i; ~ ^ ~ 1 warning generated. gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. bcfutils.c -o bcfutils.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. prob1.c -o prob1.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. em.c -o em.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. kfunc.c -o kfunc.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. kmin.c -o kmin.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. index.c -o index.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. fet.c -o fet.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. mut.c -o mut.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. bcf2qcall.c -o bcf2qcall.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' ar -csru libbcf.a bcf.o vcf.o bcfutils.o prob1.o em.o kfunc.o kmin.o index.o fet.o mut.o bcf2qcall.o make[2]: Leaving directory `/build/samtools-wkhK4e/samtools-0.1.18/bcftools' make[2]: Entering directory `/build/samtools-wkhK4e/samtools-0.1.18/misc' make[2]: Nothing to be done for `lib'. make[2]: Leaving directory `/build/samtools-wkhK4e/samtools-0.1.18/misc' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_tview.c -o bam_tview.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_plcmd.c -o bam_plcmd.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. sam_view.c -o sam_view.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_rmdup.c -o bam_rmdup.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_rmdupse.c -o bam_rmdupse.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_mate.c -o bam_mate.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_stat.c -o bam_stat.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_color.c -o bam_color.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bamtk.c -o bamtk.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. kaln.c -o kaln.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam2bcf.c -o bam2bcf.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam2bcf_indel.c -o bam2bcf_indel.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. errmod.c -o errmod.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' errmod.c:79:8: warning: self-comparison always evaluates to false [-Wtautological-compare] if (m > m) return -1; ^ 1 warning generated. gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. sample.c -o sample.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. cut_target.c -o cut_target.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. phase.c -o phase.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam2depth.c -o bam2depth.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -o samtools bam_tview.o bam_plcmd.o sam_view.o bam_rmdup.o bam_rmdupse.o bam_mate.o bam_stat.o bam_color.o bamtk.o kaln.o bam2bcf.o bam2bcf_indel.o errmod.o sample.o cut_target.o phase.o bam2depth.o -Lbcftools libbam.a -lbcf -lcurses -lm -lz clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' libbam.a(bam_sort.o): In function `ks_combsort_heap': /build/samtools-wkhK4e/samtools-0.1.18/bam_sort.c:53: undefined reference to `__ks_insertsort_heap' libbam.a(bam_sort.o): In function `ks_introsort_heap': /build/samtools-wkhK4e/samtools-0.1.18/bam_sort.c:53: undefined reference to `__ks_insertsort_heap' libbam.a(bam_sort.o): In function `ks_combsort_sort': /build/samtools-wkhK4e/samtools-0.1.18/bam_sort.c:309: undefined reference to `__ks_insertsort_sort' libbam.a(bam_sort.o): In function `ks_introsort_sort': /build/samtools-wkhK4e/samtools-0.1.18/bam_sort.c:309: undefined reference to `__ks_insertsort_sort' clang: error: linker command failed with exit code 1 (use -v to see invocation) make[1]: *** [samtools] Error 1 make[1]: Leaving directory `/build/samtools-wkhK4e/samtools-0.1.18' make: *** [debian/stamp-makefile-build] Error 2 dpkg-buildpackage: error: debian/rules build gave error exit status 2 ──────────────────────────────────────────────────────────────────────────────── Build finished at 20120113-0224 Finished ──────── E: Build failure (dpkg-buildpackage died) ┌──────────────────────────────────────────────────────────────────────────────┐ │ Cleanup │ └──────────────────────────────────────────────────────────────────────────────┘ Purging /var/lib/schroot/mount/lsid64b-6ebfbd9b-5ad7-4384-baff-23760c50f8eb/build/samtools-wkhK4e Not cleaning session: cloned chroot in use ┌──────────────────────────────────────────────────────────────────────────────┐ │ Summary │ └──────────────────────────────────────────────────────────────────────────────┘ Architecture: amd64 Build-Space: 4992 Build-Time: 18 Distribution: lsid64b Fail-Stage: build Install-Time: 7 Job: samtools_0.1.18-1 Package: samtools Package-Time: 38 Source-Version: 0.1.18-1 Space: 4992 Status: attempted Version: 0.1.18-1 ──────────────────────────────────────────────────────────────────────────────── Finished at 20120113-0224 Build needed 00:00:38, 4992k disc space DC-Message: Failed, but took only 99.271908. Retrying, you never know. 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-18.reims.grid5000.fr ╔══════════════════════════════════════════════════════════════════════════════╗ ║ samtools 0.1.18-1 (amd64) 13 Jan 2012 02:25 ║ ╚══════════════════════════════════════════════════════════════════════════════╝ Package: samtools Version: 0.1.18-1 Source Version: 0.1.18-1 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 (5217 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: 'samtools' packaging is maintained in the 'Git' version control system at: git://git.debian.org/debian-med/samtools.git Need to get 389 kB of source archives. Get:1 http://localhost/debian/ sid/main samtools 0.1.18-1 (dsc) [1946 B] Get:2 http://localhost/debian/ sid/main samtools 0.1.18-1 (tar) [379 kB] Get:3 http://localhost/debian/ sid/main samtools 0.1.18-1 (diff) [7593 B] Fetched 389 kB in 0s (20.4 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/samtools-mOgP4f/resolver-YI6wgS/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-4bc46a5b-0ea3-41fb-b5d0-530baf4d9b62/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 (>= 8), cdbs, quilt, libncurses5-dev, zlib1g-dev 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 (>= 8), cdbs, quilt, libncurses5-dev, zlib1g-dev dpkg-deb: building package `sbuild-build-depends-samtools-dummy' in `/build/samtools-mOgP4f/resolver-ckVDoG/apt_archive/sbuild-build-depends-samtools-dummy.deb'. OK Reading package lists... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Install samtools build dependencies (apt-based resolver) │ └──────────────────────────────────────────────────────────────────────────────┘ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: bsdmainutils cdbs debhelper diffstat file gettext gettext-base groff-base html2text intltool-debian libcroco3 libglib2.0-0 libmagic1 libncurses5-dev libpcre3 libpipeline1 libtinfo-dev libunistring0 libxml2 man-db po-debconf quilt zlib1g-dev Suggested packages: wamerican wordlist whois vacation devscripts dh-make gettext-doc groff ncurses-doc www-browser libmail-box-perl procmail graphviz default-mta mail-transport-agent Recommended packages: autotools-dev curl wget lynx-cur autopoint libglib2.0-data shared-mime-info xml-core libmail-sendmail-perl The following NEW packages will be installed: bsdmainutils cdbs debhelper diffstat file gettext gettext-base groff-base html2text intltool-debian libcroco3 libglib2.0-0 libmagic1 libncurses5-dev libpcre3 libpipeline1 libtinfo-dev libunistring0 libxml2 man-db po-debconf quilt sbuild-build-depends-samtools-dummy zlib1g-dev 0 upgraded, 24 newly installed, 0 to remove and 10 not upgraded. Need to get 10.7 MB/10.7 MB of archives. After this operation, 29.2 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 cdbs html2text gettext intltool-debian po-debconf debhelper diffstat libtinfo-dev libncurses5-dev quilt zlib1g-dev sbuild-build-depends-samtools-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 cdbs all 0.4.100 [77.1 kB] Get:14 http://localhost/debian/ sid/main html2text amd64 1.3.2a-15 [103 kB] Get:15 http://localhost/debian/ sid/main gettext amd64 0.18.1.1-5 [2080 kB] Get:16 http://localhost/debian/ sid/main intltool-debian all 0.35.0+20060710.1 [30.8 kB] Get:17 http://localhost/debian/ sid/main po-debconf all 1.0.16+nmu2 [224 kB] Get:18 http://localhost/debian/ sid/main debhelper all 8.9.14 [693 kB] Get:19 http://localhost/debian/ sid/main diffstat amd64 1.55-2 [29.9 kB] Get:20 http://localhost/debian/ sid/main libtinfo-dev amd64 5.9-4 [103 kB] Get:21 http://localhost/debian/ sid/main libncurses5-dev amd64 5.9-4 [406 kB] Get:22 http://localhost/debian/ sid/main quilt all 0.50-2 [381 kB] Get:23 http://localhost/debian/ sid/main zlib1g-dev amd64 1:1.2.3.4.dfsg-3 [192 kB] Preconfiguring packages ... Fetched 10.7 MB in 0s (41.8 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 cdbs. Unpacking cdbs (from .../archives/cdbs_0.4.100_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 diffstat. Unpacking diffstat (from .../diffstat_1.55-2_amd64.deb) ... Selecting previously unselected package libtinfo-dev. Unpacking libtinfo-dev (from .../libtinfo-dev_5.9-4_amd64.deb) ... Selecting previously unselected package libncurses5-dev. Unpacking libncurses5-dev (from .../libncurses5-dev_5.9-4_amd64.deb) ... Selecting previously unselected package quilt. Unpacking quilt (from .../archives/quilt_0.50-2_all.deb) ... Selecting previously unselected package zlib1g-dev. Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_amd64.deb) ... Selecting previously unselected package sbuild-build-depends-samtools-dummy. Unpacking sbuild-build-depends-samtools-dummy (from .../sbuild-build-depends-samtools-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 cdbs (0.4.100) ... 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 diffstat (1.55-2) ... Setting up libtinfo-dev (5.9-4) ... Setting up libncurses5-dev (5.9-4) ... Setting up quilt (0.50-2) ... Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ... Setting up sbuild-build-depends-samtools-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 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 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 diffstat_1.55-2 diffutils_1:3.2-1 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 libncurses5-dev_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 libtinfo-dev_5.9-4 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 quilt_0.50-2 readline-common_6.2-8 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-samtools-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 zlib1g-dev_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 Tue Sep 6 10:31:29 2011 CEST using RSA key ID 2295D502 gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./samtools_0.1.18-1.dsc dpkg-source: info: extracting samtools in samtools-0.1.18 dpkg-source: info: unpacking samtools_0.1.18.orig.tar.bz2 dpkg-source: info: unpacking samtools_0.1.18-1.debian.tar.gz dpkg-source: info: applying no-pileup-tests.patch Check disc space ──────────────── Sufficient free space for build dpkg-buildpackage ───────────────── dpkg-buildpackage: source package samtools dpkg-buildpackage: source version 0.1.18-1 dpkg-source --before-build samtools-0.1.18 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 . CFLAGS="-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC" CXXFLAGS="-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall" CPPFLAGS="" LDFLAGS="" -k clean make[1]: Entering directory `/build/samtools-mOgP4f/samtools-0.1.18' make[2]: Entering directory `/build/samtools-mOgP4f/samtools-0.1.18' rm -fr gmon.out *.o a.out *.exe *.dSYM razip bgzip samtools *~ *.a *.so.* *.so *.dylib make[2]: Leaving directory `/build/samtools-mOgP4f/samtools-0.1.18' make[2]: Entering directory `/build/samtools-mOgP4f/samtools-0.1.18/bcftools' rm -fr gmon.out *.o a.out *.dSYM bcftools *~ *.a bcf.aux bcf.log bcf.pdf *.class libbcf.*.dylib libbcf.so* make[2]: Leaving directory `/build/samtools-mOgP4f/samtools-0.1.18/bcftools' make[2]: Entering directory `/build/samtools-mOgP4f/samtools-0.1.18/misc' rm -fr gmon.out *.o a.out *.exe *.dSYM md5sum-lite md5fa maq2sam-short maq2sam-long wgsim seqtk *~ *.a make[2]: Leaving directory `/build/samtools-mOgP4f/samtools-0.1.18/misc' make[1]: Leaving directory `/build/samtools-mOgP4f/samtools-0.1.18' rm -f debian/stamp-makefile-check dh_clean /usr/bin/make -f debian/rules reverse-config make[1]: Entering directory `/build/samtools-mOgP4f/samtools-0.1.18' make[1]: Nothing to be done for `reverse-config'. make[1]: Leaving directory `/build/samtools-mOgP4f/samtools-0.1.18' if [ -d "." ]; then \ cd . && QUILT_PATCHES=/build/samtools-mOgP4f/samtools-0.1.18/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \ fi Removing patch no-pileup-tests.patch Restoring examples/Makefile No patches applied rm -rf ./.pc rm -f debian/stamp-patch* rm -f examples/calDepth examples/ex1.bam examples/ex1.bam.bai examples/ex1.fa.fai examples/ex1.glf examples/ex1.glfview.gz examples/ex1.pileup.gz examples/ex1a.bam examples/ex1b.bam examples/ex1f-rmduppe.bam examples/ex1f-rmdupse.bam examples/ex1f.bam examples/ex1f.rg examples/ex1.bcf dpkg-source -b samtools-0.1.18 dpkg-source: info: using source format `3.0 (quilt)' dpkg-source: info: patches are not applied, applying them now dpkg-source: info: applying no-pileup-tests.patch dpkg-source: info: building samtools using existing ./samtools_0.1.18.orig.tar.bz2 dpkg-source: info: building samtools in samtools_0.1.18-1.debian.tar.gz dpkg-source: info: building samtools in samtools_0.1.18-1.dsc debian/rules build test -x debian/rules mkdir -p "." /usr/share/cdbs/1/rules/buildcore.mk:109: WARNING: DEB_DH_BUILDDEB_ARGS is a deprecated variable /usr/bin/make -f debian/rules reverse-config make[1]: Entering directory `/build/samtools-mOgP4f/samtools-0.1.18' make[1]: Nothing to be done for `reverse-config'. make[1]: Leaving directory `/build/samtools-mOgP4f/samtools-0.1.18' cd . && QUILT_PATCHES=/build/samtools-mOgP4f/samtools-0.1.18/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2 File series fully applied, ends at patch no-pileup-tests.patch touch debian/stamp-patched /usr/bin/make -f debian/rules update-config make[1]: Entering directory `/build/samtools-mOgP4f/samtools-0.1.18' make[1]: Nothing to be done for `update-config'. make[1]: Leaving directory `/build/samtools-mOgP4f/samtools-0.1.18' /usr/bin/make -C . CFLAGS="-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC" CXXFLAGS="-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall" CPPFLAGS="" LDFLAGS="" all all-recur razip lib make[1]: Entering directory `/build/samtools-mOgP4f/samtools-0.1.18' make[2]: Entering directory `/build/samtools-mOgP4f/samtools-0.1.18' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bgzf.c -o bgzf.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. kstring.c -o kstring.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_aux.c -o bam_aux.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam.c -o bam.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_import.c -o bam_import.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. sam.c -o sam.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_index.c -o bam_index.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_pileup.c -o bam_pileup.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_lpileup.c -o bam_lpileup.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_md.c -o bam_md.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. razf.c -o razf.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. faidx.c -o faidx.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bedidx.c -o bedidx.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. knetfile.c -o knetfile.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_sort.c -o bam_sort.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. sam_header.c -o sam_header.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_reheader.c -o bam_reheader.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. kprobaln.c -o kprobaln.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_cat.c -o bam_cat.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' ar -csru libbam.a bgzf.o kstring.o bam_aux.o bam.o bam_import.o sam.o bam_index.o bam_pileup.o bam_lpileup.o bam_md.o razf.o faidx.o bedidx.o knetfile.o bam_sort.o sam_header.o bam_reheader.o kprobaln.o bam_cat.o make[2]: Leaving directory `/build/samtools-mOgP4f/samtools-0.1.18' make[2]: Entering directory `/build/samtools-mOgP4f/samtools-0.1.18/bcftools' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. bcf.c -o bcf.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. vcf.c -o vcf.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' vcf.c:238:15: warning: explicitly assigning a variable of type 'int' to itself [-Wself-assign] endblock: i = i; ~ ^ ~ 1 warning generated. gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. bcfutils.c -o bcfutils.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. prob1.c -o prob1.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. em.c -o em.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. kfunc.c -o kfunc.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. kmin.c -o kmin.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. index.c -o index.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. fet.c -o fet.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. mut.c -o mut.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. bcf2qcall.c -o bcf2qcall.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' ar -csru libbcf.a bcf.o vcf.o bcfutils.o prob1.o em.o kfunc.o kmin.o index.o fet.o mut.o bcf2qcall.o make[2]: Leaving directory `/build/samtools-mOgP4f/samtools-0.1.18/bcftools' make[2]: Entering directory `/build/samtools-mOgP4f/samtools-0.1.18/misc' make[2]: Nothing to be done for `lib'. make[2]: Leaving directory `/build/samtools-mOgP4f/samtools-0.1.18/misc' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_tview.c -o bam_tview.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_plcmd.c -o bam_plcmd.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. sam_view.c -o sam_view.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_rmdup.c -o bam_rmdup.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_rmdupse.c -o bam_rmdupse.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_mate.c -o bam_mate.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_stat.c -o bam_stat.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_color.c -o bam_color.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bamtk.c -o bamtk.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. kaln.c -o kaln.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam2bcf.c -o bam2bcf.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam2bcf_indel.c -o bam2bcf_indel.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. errmod.c -o errmod.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' errmod.c:79:8: warning: self-comparison always evaluates to false [-Wtautological-compare] if (m > m) return -1; ^ 1 warning generated. gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. sample.c -o sample.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. cut_target.c -o cut_target.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. phase.c -o phase.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -c -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam2depth.c -o bam2depth.o clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wall -fPIC -o samtools bam_tview.o bam_plcmd.o sam_view.o bam_rmdup.o bam_rmdupse.o bam_mate.o bam_stat.o bam_color.o bamtk.o kaln.o bam2bcf.o bam2bcf_indel.o errmod.o sample.o cut_target.o phase.o bam2depth.o -Lbcftools libbam.a -lbcf -lcurses -lm -lz clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' libbam.a(bam_sort.o): In function `ks_combsort_heap': /build/samtools-mOgP4f/samtools-0.1.18/bam_sort.c:53: undefined reference to `__ks_insertsort_heap' libbam.a(bam_sort.o): In function `ks_introsort_heap': /build/samtools-mOgP4f/samtools-0.1.18/bam_sort.c:53: undefined reference to `__ks_insertsort_heap' libbam.a(bam_sort.o): In function `ks_combsort_sort': /build/samtools-mOgP4f/samtools-0.1.18/bam_sort.c:309: undefined reference to `__ks_insertsort_sort' libbam.a(bam_sort.o): In function `ks_introsort_sort': /build/samtools-mOgP4f/samtools-0.1.18/bam_sort.c:309: undefined reference to `__ks_insertsort_sort' clang: error: linker command failed with exit code 1 (use -v to see invocation) make[1]: *** [samtools] Error 1 make[1]: Leaving directory `/build/samtools-mOgP4f/samtools-0.1.18' make: *** [debian/stamp-makefile-build] Error 2 dpkg-buildpackage: error: debian/rules build gave error exit status 2 ──────────────────────────────────────────────────────────────────────────────── Build finished at 20120113-0226 Finished ──────── E: Build failure (dpkg-buildpackage died) ┌──────────────────────────────────────────────────────────────────────────────┐ │ Cleanup │ └──────────────────────────────────────────────────────────────────────────────┘ Purging /var/lib/schroot/mount/lsid64b-4bc46a5b-0ea3-41fb-b5d0-530baf4d9b62/build/samtools-mOgP4f Not cleaning session: cloned chroot in use ┌──────────────────────────────────────────────────────────────────────────────┐ │ Summary │ └──────────────────────────────────────────────────────────────────────────────┘ Architecture: amd64 Build-Space: 4992 Build-Time: 17 Distribution: lsid64b Fail-Stage: build Install-Time: 6 Job: samtools_0.1.18-1 Package: samtools Package-Time: 36 Source-Version: 0.1.18-1 Space: 4992 Status: attempted Version: 0.1.18-1 ──────────────────────────────────────────────────────────────────────────────── Finished at 20120113-0226 Build needed 00:00:36, 4992k disc space DC-Build-Status: Failed 196.739933s ### Content of /var/log/daemon.log ### Jan 12 21:03:45 stremi-18 approx: Concurrent download of debian/dists/sid/main/i18n/Translation-en.bz2 is taking too long Jan 12 21:04:03 stremi-18 approx: Concurrent download of debian/dists/sid/Release.gpg is taking too long Jan 12 21:04:14 stremi-18 approx: Concurrent download of debian/dists/sid/Release.gpg is taking too long Jan 12 21:04:25 stremi-18 approx: Concurrent download of debian/dists/sid/Release.gpg is taking too long Jan 12 21:04:40 stremi-18 approx: Concurrent download of debian/dists/sid/Release.gpg is taking too long Jan 12 21:04:51 stremi-18 approx: Concurrent download of debian/dists/sid/Release.gpg is taking too long Jan 12 21:04:56 stremi-18 approx: Concurrent download of debian/dists/sid/main/i18n/Index is taking too long Jan 12 21:05:07 stremi-18 approx: Concurrent download of debian/dists/sid/Release.gpg is taking too long Jan 12 21:05:27 stremi-18 approx: Concurrent download of debian/dists/sid/Release is taking too long Jan 12 21:05:37 stremi-18 approx: Concurrent download of debian/dists/sid/main/binary-amd64/Packages.xz is taking too long Jan 12 21:05:48 stremi-18 approx: Concurrent download of debian/dists/sid/main/i18n/Index is taking too long Jan 12 21:05:59 stremi-18 approx: Concurrent download of debian/dists/sid/main/i18n/Index is taking too long Jan 12 21:06:21 stremi-18 approx: Concurrent download of debian/dists/sid/main/source/Sources.xz is taking too long ### End of content of /var/log/daemon.log ### DC-Time-Estimation: 196.739933 versus expected 42 (r/m: 3.68428411904762 ; m: 42.0) DC-Build-Network: USED. See /tmp/rulesafter.eZEEYs ! ************************************************************ # Generated by iptables-save v1.4.8 on Fri Jan 13 02:26:21 2012 *filter :INPUT ACCEPT [20722416:29020955831] :FORWARD ACCEPT [0:0] :OUTPUT DROP [0:0] :LD - [0:0] [18480098:25305551203] -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 [377498:110404854] -A OUTPUT -d 172.16.0.0/16 -j ACCEPT [0:0] -A OUTPUT -d 192.168.67.0/24 -j ACCEPT [37171:4932844] -A OUTPUT -d 224.0.0.0/4 -p udp -j ACCEPT [19:1140] -A OUTPUT -j LD [19:1140] -A LD -j LOG [19:1140] -A LD -j REJECT --reject-with icmp-port-unreachable COMMIT # Completed on Fri Jan 13 02:26:21 2012 ************************************************************ --- /tmp/rulesbefore.fioNYl 2012-01-13 02:23:04.504873918 +0100 +++ /tmp/rulesafter.eZEEYs 2012-01-13 02:26:21.253451969 +0100 @@ -1,10 +1,10 @@ -# Generated by iptables-save v1.4.8 on Fri Jan 13 02:23:04 2012 +# Generated by iptables-save v1.4.8 on Fri Jan 13 02:26:21 2012 *filter -:INPUT ACCEPT [20645366:28286348046] +:INPUT ACCEPT [20722416:29020955831] :FORWARD ACCEPT [0:0] :OUTPUT DROP [0:0] :LD - [0:0] -[18426535:24595103943] -A OUTPUT -o lo -j ACCEPT +[18480098:25305551203] -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 -[372488:107959835] -A OUTPUT -d 172.16.0.0/16 -j ACCEPT +[377498:110404854] -A OUTPUT -d 172.16.0.0/16 -j ACCEPT [0:0] -A OUTPUT -d 192.168.67.0/24 -j ACCEPT -[36750:4878832] -A OUTPUT -d 224.0.0.0/4 -p udp -j ACCEPT +[37171:4932844] -A OUTPUT -d 224.0.0.0/4 -p udp -j ACCEPT [19:1140] -A OUTPUT -j LD [19:1140] -A LD -j LOG [19:1140] -A LD -j REJECT --reject-with icmp-port-unreachable COMMIT -# Completed on Fri Jan 13 02:23:04 2012 +# Completed on Fri Jan 13 02:26:21 2012 ************************************************************ [11525.775977] [] ? get_request+0x7e/0x2ba [11525.782154] [] ? io_schedule+0x73/0xb7 [11525.788230] [] ? get_request_wait+0xf0/0x188 [11525.794893] [] ? autoremove_wake_function+0x0/0x2e [11525.802139] [] ? __make_request+0x2f7/0x428 [11525.808705] [] ? generic_make_request+0x299/0x2f9 [11525.815853] [] ? submit_bio+0xd6/0xf2 [11525.821835] [] ? end_swap_bio_read+0x0/0x60 [11525.828400] [] ? bio_alloc+0x10/0x1f [11525.834285] [] ? get_swap_bio+0x4a/0x9a [11525.840462] [] ? swap_readpage+0x4f/0x53 [11525.846736] [] ? read_swap_cache_async+0xb3/0xf3 [11525.853789] [] ? swapin_readahead+0x57/0x98 [11525.860356] [] ? handle_mm_fault+0x47f/0x80f [11525.867020] [] ? do_page_fault+0x2e0/0x2fc [11525.873489] [] ? page_fault+0x25/0x30 [11525.879470] INFO: task x86_64-linux-gn:24163 blocked for more than 120 seconds. [11525.887713] "echo 0 > /proc/sys/kernel/hung_task_timeout_secs" disables this message. [11525.896540] x86_64-linux- D ffff88064ac0fd50 0 24163 24160 0x00000000 [11525.904280] ffff880c3e471c40 0000000000000082 0000000000000000 ffff8807fef8a930 [11525.912675] ffff88033cc40400 ffffffff8118b96e 000000000000f9e0 ffff8808f4013fd8 [11525.921053] 0000000000015780 0000000000015780 ffff88093d57dbd0 ffff88093d57dec8 [11525.929434] Call Trace: [11525.932204] [] ? cfq_dispatch_requests+0x106/0x420 [11525.939459] [] ? get_request+0x7e/0x2ba [11525.945632] [] ? io_schedule+0x73/0xb7 [11525.951711] [] ? get_request_wait+0xf0/0x188 [11525.958373] [] ? autoremove_wake_function+0x0/0x2e [11525.965619] [] ? __make_request+0x2f7/0x428 [11525.972184] [] ? generic_make_request+0x299/0x2f9 [11525.979335] [] ? submit_bio+0xd6/0xf2 [11525.985320] [] ? end_swap_bio_read+0x0/0x60 [11525.991886] [] ? bio_alloc+0x10/0x1f [11525.997771] [] ? get_swap_bio+0x4a/0x9a [11526.003947] [] ? swap_readpage+0x4f/0x53 [11526.010211] [] ? read_swap_cache_async+0xb3/0xf3 [11526.017264] [] ? swapin_readahead+0x57/0x98 [11526.023818] [] ? handle_mm_fault+0x47f/0x80f [11526.030482] [] ? do_page_fault+0x2e0/0x2fc [11526.036950] [] ? page_fault+0x25/0x30 [18051.422616] IN= OUT=eth0 SRC=172.16.160.18 DST=192.9.162.55 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=43681 DF PROTO=TCP SPT=35260 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [18054.440115] IN= OUT=eth0 SRC=172.16.160.18 DST=192.9.162.55 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=43682 DF PROTO=TCP SPT=35260 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [18516.335464] IN= OUT=eth0 SRC=172.16.160.18 DST=82.94.164.162 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=28981 DF PROTO=TCP SPT=41393 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [18519.352020] IN= OUT=eth0 SRC=172.16.160.18 DST=82.94.164.162 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=28982 DF PROTO=TCP SPT=41393 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [18556.084269] blender[14863]: segfault at ffff ip 00002b2aedebd038 sp 00007fffc2685910 error 4 in libc-2.13.so[2b2aede79000+17a000] [18913.095982] IN= OUT=eth0 SRC=172.16.160.18 DST=129.255.93.48 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=12112 DF PROTO=TCP SPT=55823 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [19082.506626] bzr[14008] general protection ip:4f556b sp:7fff2c06e910 error:0 in python2.7[400000+273000] [19235.793540] bzr[8225]: segfault at 1000000048 ip 00002b3efde3e0a9 sp 00007fff04c35048 error 4 in sip.so[2b3efde36000+1b000] [19434.546910] IN= OUT=eth0 SRC=172.16.160.18 DST=192.9.162.55 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=58799 DF PROTO=TCP SPT=37640 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 [19437.564870] IN= OUT=eth0 SRC=172.16.160.18 DST=192.9.162.55 LEN=60 TOS=0x00 PREC=0x00 TTL=64 ID=58800 DF PROTO=TCP SPT=37640 DPT=80 WINDOW=5840 RES=0x00 SYN URGP=0 ************************************************************