Raspbian Package Auto-Building

Build log for htslib (1.1-1) on armhf

htslib1.1-1armhf → 2014-11-27 02:16:18

sbuild (Debian sbuild) 0.63.2 (18 Aug 2012) on bm-wb-03

║ htslib 1.1-1 (armhf)                                       27 Nov 2014 02:10 ║

Package: htslib
Version: 1.1-1
Source Version: 1.1-1
Distribution: jessie-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf

I: NOTICE: Log filtering will replace 'build/htslib-w3OliE/htslib-1.1' with '«PKGBUILDDIR»'
I: NOTICE: Log filtering will replace 'build/htslib-w3OliE' with '«BUILDDIR»'
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/jessie-staging-armhf-sbuild-ae2e5ccb-519e-4b3c-984e-f657bc0ea2a8' with '«CHROOT»'

│ Update chroot                                                                │

Get:1 jessie-staging InRelease [11.3 kB]
Get:2 jessie-staging/main Sources [7716 kB]
Get:3 jessie-staging/main armhf Packages [8942 kB]
Ign jessie-staging/main Translation-en
Fetched 16.7 MB in 30s (545 kB/s)
Reading package lists...

│ Fetch source files                                                           │

Check APT

Checking available source versions...

Download source files with APT

Reading package lists...
Building dependency tree...
Reading state information...
NOTICE: 'htslib' packaging is maintained in the 'Git' version control system at:
git://anonscm.debian.org/debian-med/htslib.git -b debian/unstable
Need to get 968 kB of source archives.
Get:1 jessie-staging/main htslib 1.1-1 (dsc) [2069 B]
Get:2 jessie-staging/main htslib 1.1-1 (tar) [957 kB]
Get:3 jessie-staging/main htslib 1.1-1 (diff) [8228 B]
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Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/«BUILDDIR»/resolver-0XgKga/apt_archive/sbuild-build-depends-core-dummy.deb'.
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:
debconf: delaying package configuration, since apt-utils is not installed
0 upgraded, 1 newly installed, 0 to remove and 71 not upgraded.
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After this operation, 0 B of additional disk space will be used.
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 11075 files and directories currently installed.)
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Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
Merged Build-Depends: libc6-dev | libc-dev, gcc (>= 4:4.9.1), g++ (>= 4:4.9.1), make, dpkg-dev (>= 1.17.11), debhelper (>= 9), dh-exec, zlib1g-dev
Filtered Build-Depends: libc6-dev, gcc (>= 4:4.9.1), g++ (>= 4:4.9.1), make, dpkg-dev (>= 1.17.11), debhelper (>= 9), dh-exec, zlib1g-dev
dpkg-deb: building package `sbuild-build-depends-htslib-dummy' in `/«BUILDDIR»/resolver-Xlfn4F/apt_archive/sbuild-build-depends-htslib-dummy.deb'.
Reading package lists...

│ Install htslib 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 debhelper dh-exec dpkg-dev file gettext gettext-base groff-base
  intltool-debian libasprintf0c2 libcroco3 libdpkg-perl libffi6 libglib2.0-0
  libmagic1 libpipeline1 libunistring0 libxml2 man-db po-debconf zlib1g-dev
Suggested packages:
  wamerican wordlist whois vacation dh-make debian-keyring gettext-doc groff
  less www-browser libmail-box-perl
Recommended packages:
  libalgorithm-merge-perl curl wget lynx-cur autopoint libasprintf-dev
  libgettextpo-dev libfile-fcntllock-perl libglib2.0-data shared-mime-info
  xdg-user-dirs xml-core libmail-sendmail-perl
The following NEW packages will be installed:
  bsdmainutils debhelper dh-exec file gettext gettext-base groff-base
  intltool-debian libasprintf0c2 libcroco3 libffi6 libglib2.0-0 libmagic1
  libpipeline1 libunistring0 libxml2 man-db po-debconf
  sbuild-build-depends-htslib-dummy zlib1g-dev
The following packages will be upgraded:
  dpkg-dev libdpkg-perl
2 upgraded, 20 newly installed, 0 to remove and 69 not upgraded.
Need to get 11.1 MB/11.1 MB of archives.
After this operation, 24.3 MB of additional disk space will be used.
Get:1 jessie-staging/main libpipeline1 armhf 1.4.0-1 [24.0 kB]
Get:2 jessie-staging/main groff-base armhf 1.22.2-8 [1045 kB]
Get:3 jessie-staging/main bsdmainutils armhf 9.0.6 [177 kB]
Get:4 jessie-staging/main man-db armhf [972 kB]
Get:5 jessie-staging/main libasprintf0c2 armhf 0.19.3-1 [30.9 kB]
Get:6 jessie-staging/main libmagic1 armhf 1:5.20-2 [239 kB]
Get:7 jessie-staging/main libxml2 armhf 2.9.1+dfsg1-4 [698 kB]
Get:8 jessie-staging/main libffi6 armhf 3.1-2 [18.1 kB]
Get:9 jessie-staging/main libglib2.0-0 armhf 2.42.0-2 [2333 kB]
Get:10 jessie-staging/main libcroco3 armhf 0.6.8-3 [121 kB]
Get:11 jessie-staging/main libunistring0 armhf 0.9.3-5.2 [253 kB]
Get:12 jessie-staging/main file armhf 1:5.20-2 [58.0 kB]
Get:13 jessie-staging/main gettext-base armhf 0.19.3-1 [116 kB]
Get:14 jessie-staging/main dpkg-dev all 1.17.21 [1502 kB]
Get:15 jessie-staging/main libdpkg-perl all 1.17.21 [1038 kB]
Get:16 jessie-staging/main gettext armhf 0.19.3-1 [1168 kB]
Get:17 jessie-staging/main intltool-debian all 0.35.0+20060710.1 [29.8 kB]
Get:18 jessie-staging/main po-debconf all 1.0.16+nmu3 [220 kB]
Get:19 jessie-staging/main debhelper all 9.20141022 [812 kB]
Get:20 jessie-staging/main zlib1g-dev armhf 1:1.2.8.dfsg-1+rpi1 [192 kB]
Get:21 jessie-staging/main dh-exec armhf 0.13 [22.1 kB]
debconf: delaying package configuration, since apt-utils is not installed
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Setting up libpipeline1:armhf (1.4.0-1) ...
Setting up groff-base (1.22.2-8) ...
Setting up bsdmainutils (9.0.6) ...
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 man-db ( ...
Not building database; man-db/auto-update is not 'true'.
Setting up libasprintf0c2:armhf (0.19.3-1) ...
Setting up libmagic1:armhf (1:5.20-2) ...
Setting up libxml2:armhf (2.9.1+dfsg1-4) ...
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Setting up libcroco3:armhf (0.6.8-3) ...
Setting up libunistring0:armhf (0.9.3-5.2) ...
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Setting up libdpkg-perl (1.17.21) ...
Setting up dpkg-dev (1.17.21) ...
Setting up gettext (0.19.3-1) ...
Setting up intltool-debian (0.35.0+20060710.1) ...
Setting up po-debconf (1.0.16+nmu3) ...
Setting up debhelper (9.20141022) ...
Setting up zlib1g-dev:armhf (1:1.2.8.dfsg-1+rpi1) ...
Setting up dh-exec (0.13) ...
Setting up sbuild-build-depends-htslib-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.19-11) ...

│ Build environment                                                            │

Kernel: Linux 3.17-1-armmp armhf (armv7l)
Toolchain package versions: binutils_2.24.51.20140918-1 dpkg-dev_1.17.21 g++-4.9_4.9.1-15 gcc-4.8_4.8.3-11 gcc-4.9_4.9.1-15 libc6-dev_2.19-11 libstdc++-4.9-dev_4.9.1-15 libstdc++6_4.9.1-15 linux-libc-dev_3.14.4-1+rpi1+b4
Package versions: apt_1.0.9.1 base-files_7.5+rpi1 base-passwd_3.5.36 bash_4.3-9.2 binutils_2.24.51.20140918-1 bsdmainutils_9.0.6 bsdutils_1:2.20.1-5.9 build-essential_11.7 bzip2_1.0.6-7 coreutils_8.23-2 cpio_2.11+dfsg-2 cpp_4:4.9.1-1 cpp-4.8_4.8.3-11 cpp-4.9_4.9.1-15 dash_0.5.7-4 debconf_1.5.53 debfoster_2.7-2 debhelper_9.20141022 debianutils_4.4 dh-exec_0.13 diffutils_1:3.3-1 dpkg_1.17.13 dpkg-dev_1.17.21 e2fslibs_1.42.12-1 e2fsprogs_1.42.12-1 fakeroot_1.20.1-1.1 file_1:5.20-2 findutils_4.4.2-9 g++_4:4.9.1-1 g++-4.9_4.9.1-15 gcc_4:4.9.1-1 gcc-4.5-base_4.5.3-12+rpi1 gcc-4.6-base_4.6.4-5+rpi1 gcc-4.7-base_4.7.3-11+rpi1 gcc-4.8_4.8.3-11 gcc-4.8-base_4.8.3-11 gcc-4.9_4.9.1-15 gcc-4.9-base_4.9.1-15 gettext_0.19.3-1 gettext-base_0.19.3-1 gnupg_1.4.18-4 gpgv_1.4.18-4 grep_2.20-3 groff-base_1.22.2-8 gzip_1.6-3 hostname_3.15 init_1.21 initramfs-tools_0.116 initscripts_2.88dsf-53.4 insserv_1.14.0-5 intltool-debian_0.35.0+20060710.1 klibc-utils_2.0.3-1+rpi1 kmod_18-3 libacl1_2.2.52-2 libapt-pkg4.12_1.0.9.1 libasan0_4.8.3-11 libasan1_4.9.1-15 libasprintf0c2_0.19.3-1 libatomic1_4.9.1-15 libattr1_1:2.4.47-2 libaudit-common_1:2.4-1 libaudit1_1:2.4-1 libblkid1_2.20.1-5.9 libbz2-1.0_1.0.6-7 libc-bin_2.19-11 libc-dev-bin_2.19-11 libc6_2.19-11 libc6-dev_2.19-11 libcap2_1:2.24-6 libcgi-pm-perl_4.03-1 libcloog-isl4_0.18.2-1 libcomerr2_1.42.12-1 libcroco3_0.6.8-3 libdb5.1_5.1.29-6 libdb5.3_5.3.28-6 libdbus-1-3_1.8.6-2 libdebconfclient0_0.192 libdpkg-perl_1.17.21 libdrm2_2.4.56-1 libfakeroot_1.20.1-1.1 libffi6_3.1-2 libgc1c2_1:7.2d-6.3 libgcc-4.8-dev_4.8.3-11 libgcc-4.9-dev_4.9.1-15 libgcc1_1:4.9.1-15 libgdbm3_1.8.3-13 libglib2.0-0_2.42.0-2 libgmp10_2:6.0.0+dfsg-4+rpi1 libgomp1_4.9.1-15 libisl10_0.12.2-2 libklibc_2.0.3-1+rpi1 libkmod2_18-3 liblzma5_5.1.1alpha+20120614-2 libmagic1_1:5.20-2 libmount1_2.20.1-5.9 libmpc3_1.0.2-1 libmpfr4_3.1.2-1 libncurses5_5.9+20140913-1 libncursesw5_5.9+20140913-1 libpackage-constants-perl_0.04-1 libpam-modules_1.1.8-3.1 libpam-modules-bin_1.1.8-3.1 libpam-runtime_1.1.8-3.1 libpam0g_1.1.8-3.1 libpcre3_1:8.35-3 libpipeline1_1.4.0-1 libpng12-0_1.2.50-2 libprocps0_1:3.3.4-2 libprocps3_1:3.3.9-7 libreadline6_6.3-8 libselinux1_2.3-2 libsemanage-common_2.3-1 libsemanage1_2.3-1 libsepol1_2.3-2 libslang2_2.3.0-1 libss2_1.42.12-1 libstdc++-4.9-dev_4.9.1-15 libstdc++6_4.9.1-15 libtimedate-perl_2.3000-2 libtinfo5_5.9+20140913-1 libubsan0_4.9.1-15 libudev1_208-8 libunistring0_0.9.3-5.2 libusb-0.1-4_2:0.1.12-24 libustr-1.0-1_1.0.4-3 libuuid1_2.20.1-5.9 libxml2_2.9.1+dfsg1-4 linux-libc-dev_3.14.4-1+rpi1+b4 login_1:4.2-2 lsb-base_4.1+Debian13+rpi1 make_4.0-8 makedev_2.3.1-93 man-db_2.7.0.2-3 mawk_1.3.3-17 mount_2.20.1-5.9 multiarch-support_2.19-11 nano_2.2.6-3 ncurses-base_5.9+20140913-1 ncurses-bin_5.9+20140913-1 passwd_1:4.2-2 patch_2.7.1-6 perl_5.20.1-1 perl-base_5.20.1-1 perl-modules_5.20.1-1 plymouth_0.9.0-7 po-debconf_1.0.16+nmu3 procps_1:3.3.9-7 raspbian-archive-keyring_20120528.2 readline-common_6.3-8 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-htslib-dummy_0.invalid.0 sed_4.2.2-4 sensible-utils_0.0.9 startpar_0.59-3 sysv-rc_2.88dsf-53.4 sysvinit_2.88dsf-53.4 sysvinit-core_2.88dsf-53.4 sysvinit-utils_2.88dsf-53.4 tar_1.27.1-2 tzdata_2014g-1 udev_208-8 util-linux_2.20.1-5.9 xz-utils_5.1.1alpha+20120614-2 zlib1g_1:1.2.8.dfsg-1+rpi1 zlib1g-dev_1:1.2.8.dfsg-1+rpi1

│ Build                                                                        │

Unpack source

gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error
gpgv: Signature made Wed Sep 24 12:33:35 2014 UTC using RSA key ID 2295D502
gpgv: Can't check signature: public key not found
dpkg-source: warning: failed to verify signature on ./htslib_1.1-1.dsc
dpkg-source: info: extracting htslib in htslib-1.1
dpkg-source: info: unpacking htslib_1.1.orig.tar.gz
dpkg-source: info: unpacking htslib_1.1-1.debian.tar.xz
dpkg-source: info: applying debian-changes

Check disc space

Sufficient free space for build

User Environment



dpkg-buildpackage: source package htslib
dpkg-buildpackage: source version 1.1-1
dpkg-buildpackage: source distribution unstable
 dpkg-source --before-build htslib-1.1
dpkg-buildpackage: host architecture armhf
dpkg-source: info: using options from htslib-1.1/debian/source/options: --single-debian-patch
 fakeroot debian/rules clean
dh clean --parallel
   dh_testdir -O--parallel
   dh_auto_clean -O--parallel
	make -j4 distclean
make[1]: Entering directory '/«PKGBUILDDIR»'
rm -f test/*.tmp test/*.tmp.*
rm -f libhts.so libhts.so.*
rm -f *.o *.pico cram/*.o cram/*.pico test/*.o test/*.dSYM version.h
rm -f libhts.a bgzip tabix test/fieldarith test/hfile test/sam test/test_view test/test-vcf-api test/test-vcf-sweep
rm -f TAGS *-uninstalled.pc
make[1]: Leaving directory '/«PKGBUILDDIR»'
   dh_clean -O--parallel
	rm -f debian/libhts1.substvars
	rm -f debian/libhts1.*.debhelper
	rm -rf debian/libhts1/
	rm -f debian/libhts-dev.substvars
	rm -f debian/libhts-dev.*.debhelper
	rm -rf debian/libhts-dev/
	rm -f debian/htslib-test.substvars
	rm -f debian/htslib-test.*.debhelper
	rm -rf debian/htslib-test/
	rm -f debian/tabix.substvars
	rm -f debian/tabix.*.debhelper
	rm -rf debian/tabix/
	rm -f debian/*.debhelper.log
	rm -f debian/files
	find .  \( \( \
		\( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS \) -prune -o -type f -a \
	        \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \
		 -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \
		 -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \
		 -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \
		\) -exec rm -f {} + \) -o \
		\( -type d -a -name autom4te.cache -prune -exec rm -rf {} + \) \)
	rm -f *-stamp
 debian/rules build-arch
dh build-arch --parallel
   dh_testdir -a -O--parallel
   dh_auto_configure -a -O--parallel
   debian/rules override_dh_auto_build
make[1]: Entering directory '/«PKGBUILDDIR»'
dh_auto_build -- \
  CFLAGS="$(dpkg-buildflags --get CFLAGS)" \
  CPPFLAGS="-I. -DSAMTOOLS=1 $(dpkg-buildflags --get CPPFLAGS)" \
  LDFLAGS="$(dpkg-buildflags --get LDFLAGS)" \
# re-try later	  LDLIBS=-lhts \
	make -j4 "CFLAGS=-g -O2 -fstack-protector-strong -Wformat -Werror=format-security" "CPPFLAGS=-I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2" LDFLAGS=-Wl,-z,relro
make[2]: Entering directory '/«PKGBUILDDIR»'
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o kfunc.o kfunc.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o knetfile.o knetfile.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o kstring.o kstring.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o bgzf.o bgzf.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o faidx.o faidx.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o hfile.o hfile.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o hfile_net.o hfile_net.c
echo '#define HTS_VERSION "1.1"' > version.h
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o sam.o sam.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o synced_bcf_reader.o synced_bcf_reader.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o vcf_sweep.o vcf_sweep.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o tbx.o tbx.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o vcf.o vcf.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o vcfutils.o vcfutils.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o cram/cram_codecs.o cram/cram_codecs.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o cram/cram_decode.o cram/cram_decode.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o cram/cram_encode.o cram/cram_encode.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o cram/cram_index.o cram/cram_index.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o cram/cram_io.o cram/cram_io.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o cram/cram_samtools.o cram/cram_samtools.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o cram/cram_stats.o cram/cram_stats.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o cram/files.o cram/files.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o cram/mFILE.o cram/mFILE.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o cram/md5.o cram/md5.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o cram/open_trace_file.o cram/open_trace_file.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o cram/pooled_alloc.o cram/pooled_alloc.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o cram/sam_header.o cram/sam_header.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o cram/string_alloc.o cram/string_alloc.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o cram/thread_pool.o cram/thread_pool.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o cram/vlen.o cram/vlen.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o cram/zfio.o cram/zfio.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o kfunc.pico kfunc.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o knetfile.pico knetfile.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o kstring.pico kstring.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o bgzf.pico bgzf.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o faidx.pico faidx.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o hfile.pico hfile.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o hfile_net.pico hfile_net.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o hts.pico hts.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o sam.pico sam.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o synced_bcf_reader.pico synced_bcf_reader.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o vcf_sweep.pico vcf_sweep.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o tbx.pico tbx.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o vcf.pico vcf.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o vcfutils.pico vcfutils.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o cram/cram_codecs.pico cram/cram_codecs.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o cram/cram_decode.pico cram/cram_decode.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o cram/cram_encode.pico cram/cram_encode.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o cram/cram_index.pico cram/cram_index.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o cram/cram_io.pico cram/cram_io.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o cram/cram_samtools.pico cram/cram_samtools.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o cram/cram_stats.pico cram/cram_stats.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o cram/files.pico cram/files.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o cram/mFILE.pico cram/mFILE.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o cram/md5.pico cram/md5.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o cram/open_trace_file.pico cram/open_trace_file.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o cram/pooled_alloc.pico cram/pooled_alloc.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o cram/sam_header.pico cram/sam_header.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o cram/string_alloc.pico cram/string_alloc.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o cram/thread_pool.pico cram/thread_pool.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o cram/vlen.pico cram/vlen.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o cram/zfio.pico cram/zfio.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o bgzip.o bgzip.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o tabix.o tabix.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o test/fieldarith.o test/fieldarith.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o test/hfile.o test/hfile.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o test/sam.o test/sam.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o test/test_view.o test/test_view.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o test/test-vcf-api.o test/test-vcf-api.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o test/test-vcf-sweep.o test/test-vcf-sweep.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o hts.o hts.c
gcc -shared -Wl,-soname,libhts.so.1 -pthread -Wl,-z,relro -o libhts.so kfunc.pico knetfile.pico kstring.pico bgzf.pico faidx.pico hfile.pico hfile_net.pico hts.pico sam.pico synced_bcf_reader.pico vcf_sweep.pico tbx.pico vcf.pico vcfutils.pico cram/cram_codecs.pico cram/cram_decode.pico cram/cram_encode.pico cram/cram_index.pico cram/cram_io.pico cram/cram_samtools.pico cram/cram_stats.pico cram/files.pico cram/mFILE.pico cram/md5.pico cram/open_trace_file.pico cram/pooled_alloc.pico cram/sam_header.pico cram/string_alloc.pico cram/thread_pool.pico cram/vlen.pico cram/zfio.pico  -lz -lm
ln -sf libhts.so libhts.so.1
ar -rc libhts.a kfunc.o knetfile.o kstring.o bgzf.o faidx.o hfile.o hfile_net.o hts.o sam.o synced_bcf_reader.o vcf_sweep.o tbx.o vcf.o vcfutils.o cram/cram_codecs.o cram/cram_decode.o cram/cram_encode.o cram/cram_index.o cram/cram_io.o cram/cram_samtools.o cram/cram_stats.o cram/files.o cram/mFILE.o cram/md5.o cram/open_trace_file.o cram/pooled_alloc.o cram/sam_header.o cram/string_alloc.o cram/thread_pool.o cram/vlen.o cram/zfio.o
ranlib libhts.a
gcc -pthread -Wl,-z,relro -o bgzip bgzip.o libhts.a  -lz
gcc -pthread -Wl,-z,relro -o tabix tabix.o libhts.a  -lz
gcc -pthread -Wl,-z,relro -o test/fieldarith test/fieldarith.o libhts.a  -lz
gcc -Wl,-z,relro -o test/hfile test/hfile.o libhts.a  -lz
gcc -pthread -Wl,-z,relro -o test/sam test/sam.o libhts.a  -lz
gcc -pthread -Wl,-z,relro -o test/test_view test/test_view.o libhts.a  -lz
gcc -pthread -Wl,-z,relro -o test/test-vcf-api test/test-vcf-api.o libhts.a  -lz
gcc -pthread -Wl,-z,relro -o test/test-vcf-sweep test/test-vcf-sweep.o libhts.a  -lz
make[2]: Leaving directory '/«PKGBUILDDIR»'
make[1]: Leaving directory '/«PKGBUILDDIR»'
   debian/rules override_dh_auto_test
make[1]: Entering directory '/«PKGBUILDDIR»'
	make -j4 test
make[2]: Entering directory '/«PKGBUILDDIR»'
test/fieldarith test/fieldarith.sam
Makefile:240: recipe for target 'test' failed
make[2]: *** [test] Bus error
make[2]: Leaving directory '/«PKGBUILDDIR»'
dh_auto_test: make -j4 test returned exit code 2
make[1]: *** [override_dh_auto_test] Error 2
debian/rules:10: recipe for target 'override_dh_auto_test' failed
make[1]: Leaving directory '/«PKGBUILDDIR»'
make: *** [build-arch] Error 2
dpkg-buildpackage: error: debian/rules build-arch gave error exit status 2
debian/rules:7: recipe for target 'build-arch' failed
Build finished at 20141127-0215


E: Build failure (dpkg-buildpackage died)

│ Cleanup                                                                      │

Purging /«BUILDDIR»
Not cleaning session: cloned chroot in use

│ Summary                                                                      │

Build Architecture: armhf
Build-Space: 22580
Build-Time: 126
Distribution: jessie-staging
Fail-Stage: build
Host Architecture: armhf
Install-Time: 162
Job: htslib_1.1-1
Machine Architecture: armhf
Package: htslib
Package-Time: 341
Source-Version: 1.1-1
Space: 22580
Status: attempted
Version: 1.1-1
Finished at 20141127-0215
Build needed 00:05:41, 22580k disc space