Source: snp-sites
Version: 2.0.1-1
Severity: serious
Justification: fails to build from source
User: reproducible-bui...@lists.alioth.debian.org
Usertags: ftbfs
X-Debbugs-Cc: reproducible-bui...@lists.alioth.debian.org
Dear Maintainer,
snp-sites fails to build from source in unstable/amd64:
[..]
/bin/bash ../libtool --tag=CC --mode=link gcc -I../tests -g -O2
-fstack-protector-strong -Wformat -Werror=format-security
-Wl,-z,relro -o run-all-tests run_all_tests-check-snp-sites.o
run_all_tests-check-vcf.o run_all_tests-helper-methods.o
run_all_tests-run-all-tests.o -lm -lcheck libsnp-sites.la -lz
-lpthread -lrt
libtool: link: gcc -I../tests -g -O2 -fstack-protector-strong -Wformat
-Werror=format-security -Wl,-z -Wl,relro -o .libs/run-all-tests
run_all_tests-check-snp-sites.o run_all_tests-check-vcf.o
run_all_tests-helper-methods.o run_all_tests-run-all-tests.o -lm
-lcheck ./.libs/libsnp-sites.so -lz -lpthread -lrt
/usr/lib/gcc/x86_64-linux-gnu/5/../../../x86_64-linux-gnu/libcheck.a(check_log.o):
In function `subunit_lfun':
(.text+0x584): undefined reference to `subunit_test_start'
/usr/lib/gcc/x86_64-linux-gnu/5/../../../x86_64-linux-gnu/libcheck.a(check_log.o):
In function `subunit_lfun':
(.text+0x63f): undefined reference to `subunit_test_fail'
/usr/lib/gcc/x86_64-linux-gnu/5/../../../x86_64-linux-gnu/libcheck.a(check_log.o):
In function `subunit_lfun':
(.text+0x654): undefined reference to `subunit_test_pass'
/usr/lib/gcc/x86_64-linux-gnu/5/../../../x86_64-linux-gnu/libcheck.a(check_log.o):
In function `subunit_lfun':
(.text+0x66f): undefined reference to `subunit_test_error'
collect2: error: ld returned 1 exit status
Makefile:688: recipe for target 'run-all-tests' failed
make[3]: *** [run-all-tests] Error 1
make[3]: Leaving directory '/tmp/buildd/snp-sites-2.0.1/src'
Makefile:1064: recipe for target 'check-am' failed
make[2]: *** [check-am] Error 2
make[2]: Leaving directory '/tmp/buildd/snp-sites-2.0.1/src'
Makefile:399: recipe for target 'check-recursive' failed
make[1]: *** [check-recursive] Error 1
make[1]: Leaving directory '/tmp/buildd/snp-sites-2.0.1'
dh_auto_test: make -j1 check returned exit code 2
debian/rules:12: recipe for target 'build' failed
make: *** [build] Error 2
dpkg-buildpackage: error: debian/rules build gave error exit status 2
[..]
The full build log is attached or can be viewed here:
https://reproducible.debian.net/logs/unstable/amd64/snp-sites_2.0.1-1.build1.log.gz
Regards,
--
,''`.
: :' : Chris Lamb
`. `'` la...@debian.org / chris-lamb.co.uk
`-
I: using fakeroot in build.
I: pbuilder: network access will be disabled during build
I: Current time: Mon Sep 14 14:06:41 GMT+12 2015
I: pbuilder-time-stamp: 1442282801
I: Building the build Environment
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I: Installing the build-deps
-> Attempting to satisfy build-dependencies
-> Creating pbuilder-satisfydepends-dummy package
Package: pbuilder-satisfydepends-dummy
Version: 0.invalid.0
Architecture: amd64
Maintainer: Debian Pbuilder Team <pbuilder-ma...@lists.alioth.debian.org>
Description: Dummy package to satisfy dependencies with aptitude - created by
pbuilder
This package was created automatically by pbuilder to satisfy the
build-dependencies of the package being currently built.
Depends: debhelper (>= 9.0.0), autotools-dev, zlib1g-dev, check, dh-autoreconf,
d-shlibs, libxml2-utils, docbook, docbook-xsl, xsltproc, asciidoc
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dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring
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pbuilder-satisf
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The following NEW packages will be installed:
asciidoc{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a}
check{a} d-shlibs{a} dh-autoreconf{a} docbook{a} docbook-xsl{a}
libexpat1{a} libpython-stdlib{a} libpython2.7-minimal{a}
libpython2.7-stdlib{a} libsigsegv2{a} libssl1.0.0{a} libsubunit-dev{a}
libsubunit0{a} libtool{a} libxml2-utils{a} libxslt1.1{a} m4{a}
mime-support{a} python{a} python-minimal{a} python2.7{a}
python2.7-minimal{a} sgml-base{a} sgml-data{a} xml-core{a} xsltproc{a}
zlib1g-dev{a}
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I: Copying source file
I: copying [snp-sites_2.0.1-1.dsc]
I: copying [./snp-sites_2.0.1.orig.tar.gz]
I: copying [./snp-sites_2.0.1-1.debian.tar.xz]
I: Extracting source
gpgv: keyblock resource `/tmp/buildd/.gnupg/trustedkeys.gpg': file open error
gpgv: Signature made Mon Jul 27 06:02:08 2015 GMT+12 using RSA key ID D1C646D1
gpgv: Can't check signature: public key not found
dpkg-source: warning: failed to verify signature on ./snp-sites_2.0.1-1.dsc
dpkg-source: info: extracting snp-sites in snp-sites-2.0.1
dpkg-source: info: unpacking snp-sites_2.0.1.orig.tar.gz
dpkg-source: info: unpacking snp-sites_2.0.1-1.debian.tar.xz
I: Building the package
I: Running cd tmp/buildd/*/ && env
PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" dpkg-buildpackage -us -uc -b
-rfakeroot
dpkg-buildpackage: source package snp-sites
dpkg-buildpackage: source version 2.0.1-1
dpkg-buildpackage: source distribution unstable
dpkg-buildpackage: source changed by Andreas Tille <ti...@debian.org>
dpkg-source --before-build snp-sites-2.0.1
dpkg-buildpackage: host architecture amd64
fakeroot debian/rules clean
dh clean --with autoreconf
dh_testdir
dh_auto_clean
dh_autoreconf_clean
dh_clean
debian/rules build
dh build --with autoreconf
dh_testdir
dh_autoreconf
libtoolize: putting auxiliary files in `.'.
libtoolize: copying file `./ltmain.sh'
libtoolize: putting macros in AC_CONFIG_MACRO_DIR, `m4'.
libtoolize: copying file `m4/libtool.m4'
libtoolize: copying file `m4/ltoptions.m4'
libtoolize: copying file `m4/ltsugar.m4'
libtoolize: copying file `m4/ltversion.m4'
libtoolize: copying file `m4/lt~obsolete.m4'
configure.ac:7: installing './compile'
configure.ac:7: installing './config.guess'
configure.ac:7: installing './config.sub'
configure.ac:2: installing './install-sh'
configure.ac:2: installing './missing'
src/Makefile.am:26: warning: source file '../tests/check-snp-sites.c' is in a
subdirectory,
src/Makefile.am:26: but option 'subdir-objects' is disabled
automake: warning: possible forward-incompatibility.
automake: At least a source file is in a subdirectory, but the 'subdir-objects'
automake: automake option hasn't been enabled. For now, the corresponding
output
automake: object file(s) will be placed in the top-level directory. However,
automake: this behaviour will change in future Automake versions: they will
automake: unconditionally cause object files to be placed in the same
subdirectory
automake: of the corresponding sources.
automake: You are advised to start using 'subdir-objects' option throughout your
automake: project, to avoid future incompatibilities.
src/Makefile.am:26: warning: source file '../tests/check-vcf.c' is in a
subdirectory,
src/Makefile.am:26: but option 'subdir-objects' is disabled
src/Makefile.am:26: warning: source file '../tests/helper-methods.c' is in a
subdirectory,
src/Makefile.am:26: but option 'subdir-objects' is disabled
src/Makefile.am:26: warning: source file '../tests/run-all-tests.c' is in a
subdirectory,
src/Makefile.am:26: but option 'subdir-objects' is disabled
src/Makefile.am: installing './depcomp'
parallel-tests: installing './test-driver'
dh_auto_configure
./configure --build=x86_64-linux-gnu --prefix=/usr
--includedir=\${prefix}/include --mandir=\${prefix}/share/man
--infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var
--disable-silent-rules --libdir=\${prefix}/lib/x86_64-linux-gnu
--libexecdir=\${prefix}/lib/x86_64-linux-gnu --disable-maintainer-mode
--disable-dependency-tracking
configure: WARNING: unrecognized options: --disable-maintainer-mode
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... /bin/mkdir -p
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checking for mawk... mawk
checking whether make sets $(MAKE)... yes
checking whether make supports nested variables... yes
checking build system type... x86_64-pc-linux-gnu
checking host system type... x86_64-pc-linux-gnu
checking how to print strings... printf
checking for style of include used by make... GNU
checking for gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking whether gcc understands -c and -o together... yes
checking dependency style of gcc... none
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checking the name lister (/usr/bin/nm -B) interface... BSD nm
checking whether ln -s works... yes
checking the maximum length of command line arguments... 1572864
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checking whether the shell understands "+="... yes
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format... func_convert_file_noop
checking how to convert x86_64-pc-linux-gnu file names to toolchain format...
func_convert_file_noop
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checking how to recognize dependent libraries... pass_all
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checking how to associate runtime and link libraries... printf %s\n
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checking for archiver @FILE support... @
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checking for ranlib... ranlib
checking command to parse /usr/bin/nm -B output from gcc object... ok
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checking how to run the C preprocessor... gcc -E
checking for ANSI C header files... yes
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checking if gcc supports -c -o file.o... yes
checking if gcc supports -c -o file.o... (cached) yes
checking whether the gcc linker (/usr/bin/ld -m elf_x86_64) supports shared
libraries... yes
checking whether -lc should be explicitly linked in... no
checking dynamic linker characteristics... GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
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checking for ld used by g++... /usr/bin/ld -m elf_x86_64
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libraries... yes
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configure: creating ./config.status
config.status: creating Makefile
config.status: creating src/Makefile
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config.status: executing depfiles commands
config.status: executing libtool commands
configure: WARNING: unrecognized options: --disable-maintainer-mode
checking zlib.h usability... yes
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dh_auto_build
make -j1
make[1]: Entering directory '/tmp/buildd/snp-sites-2.0.1'
make all-recursive
make[2]: Entering directory '/tmp/buildd/snp-sites-2.0.1'
Making all in src
make[3]: Entering directory '/tmp/buildd/snp-sites-2.0.1/src'
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I..
-Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat
-Werror=format-security -c -o alignment-file.lo alignment-file.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2
-g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c
alignment-file.c -fPIC -DPIC -o .libs/alignment-file.o
alignment-file.c: In function 'get_bases_for_each_snp':
alignment-file.c:91:20: warning: format '%d' expects argument of type 'int',
but argument 4 has type 'size_t {aka long unsigned int}' [-Wformat=]
fprintf(stderr, "Alignment %s contains sequences of unequal length.
Expected length is %d but got %d in sequence %s\n\n",filename,
length_of_genome_found, seq->seq.l,seq->name.s);
^
alignment-file.c:91:20: warning: format '%d' expects argument of type 'int',
but argument 5 has type 'size_t {aka long unsigned int}' [-Wformat=]
alignment-file.c: In function 'read_line':
alignment-file.c:229:8: warning: implicit declaration of function
'size_of_string' [-Wimplicit-function-declaration]
if(size_of_string(sequence) > 0)
^
alignment-file.c:233:5: warning: implicit declaration of function
'concat_strings_created_with_malloc' [-Wimplicit-function-declaration]
concat_strings_created_with_malloc(sequence,current_line_buffer);
^
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2
-g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c
alignment-file.c -o alignment-file.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I..
-Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat
-Werror=format-security -c -o vcf.lo vcf.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2
-g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c vcf.c
-fPIC -DPIC -o .libs/vcf.o
vcf.c: In function 'output_vcf_header':
vcf.c:58:29: warning: format '%i' expects argument of type 'int', but argument
3 has type 'size_t {aka long unsigned int}' [-Wformat=]
fprintf( vcf_file_pointer, "##contig=<ID=1,length=%i>\n", length_of_genome );
^
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2
-g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c vcf.c -o
vcf.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I..
-Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat
-Werror=format-security -c -o phylib-of-snp-sites.lo phylib-of-snp-sites.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2
-g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c
phylib-of-snp-sites.c -fPIC -DPIC -o .libs/phylib-of-snp-sites.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2
-g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c
phylib-of-snp-sites.c -o phylib-of-snp-sites.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I..
-Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat
-Werror=format-security -c -o snp-sites.lo snp-sites.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2
-g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c snp-sites.c
-fPIC -DPIC -o .libs/snp-sites.o
snp-sites.c: In function 'generate_snp_sites':
snp-sites.c:139:4: warning: implicit declaration of function
'create_fasta_of_snp_sites' [-Wimplicit-function-declaration]
create_fasta_of_snp_sites(multi_fasta_output_filename, number_of_snps,
bases_for_snps, sequence_names, number_of_samples);
^
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2
-g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c snp-sites.c
-o snp-sites.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I..
-Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat
-Werror=format-security -c -o fasta-of-snp-sites.lo fasta-of-snp-sites.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2
-g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c
fasta-of-snp-sites.c -fPIC -DPIC -o .libs/fasta-of-snp-sites.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2
-g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c
fasta-of-snp-sites.c -o fasta-of-snp-sites.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I..
-Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat
-Werror=format-security -c -o parse-phylip.lo parse-phylip.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2
-g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c
parse-phylip.c -fPIC -DPIC -o .libs/parse-phylip.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2
-g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c
parse-phylip.c -o parse-phylip.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I..
-Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat
-Werror=format-security -c -o string-cat.lo string-cat.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2
-g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c
string-cat.c -fPIC -DPIC -o .libs/string-cat.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2
-g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c
string-cat.c -o string-cat.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CC --mode=link gcc -g -O2
-fstack-protector-strong -Wformat -Werror=format-security -version-info 1:0
-Wl,-z,relro -o libsnp-sites.la -rpath /usr/lib/x86_64-linux-gnu
alignment-file.lo vcf.lo phylib-of-snp-sites.lo snp-sites.lo
fasta-of-snp-sites.lo parse-phylip.lo string-cat.lo
libtool: link: gcc -shared -fPIC -DPIC .libs/alignment-file.o .libs/vcf.o
.libs/phylib-of-snp-sites.o .libs/snp-sites.o .libs/fasta-of-snp-sites.o
.libs/parse-phylip.o .libs/string-cat.o -O2 -Wl,-z -Wl,relro -Wl,-soname
-Wl,libsnp-sites.so.1 -o .libs/libsnp-sites.so.1.0.0
libtool: link: (cd ".libs" && rm -f "libsnp-sites.so.1" && ln -s
"libsnp-sites.so.1.0.0" "libsnp-sites.so.1")
libtool: link: (cd ".libs" && rm -f "libsnp-sites.so" && ln -s
"libsnp-sites.so.1.0.0" "libsnp-sites.so")
libtool: link: ar cru .libs/libsnp-sites.a alignment-file.o vcf.o
phylib-of-snp-sites.o snp-sites.o fasta-of-snp-sites.o parse-phylip.o
string-cat.o
ar: `u' modifier ignored since `D' is the default (see `U')
libtool: link: ranlib .libs/libsnp-sites.a
libtool: link: ( cd ".libs" && rm -f "libsnp-sites.la" && ln -s
"../libsnp-sites.la" "libsnp-sites.la" )
gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2
-fstack-protector-strong -Wformat -Werror=format-security -c -o main.o main.c
/bin/bash ../libtool --tag=CC --mode=link gcc -g -O2
-fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -o
snp-sites main.o -lm libsnp-sites.la -lz -lpthread -lrt
libtool: link: gcc -g -O2 -fstack-protector-strong -Wformat
-Werror=format-security -Wl,-z -Wl,relro -o .libs/snp-sites main.o -lm
./.libs/libsnp-sites.so -lz -lpthread -lrt
make[3]: Leaving directory '/tmp/buildd/snp-sites-2.0.1/src'
make[3]: Entering directory '/tmp/buildd/snp-sites-2.0.1'
make[3]: Leaving directory '/tmp/buildd/snp-sites-2.0.1'
make[2]: Leaving directory '/tmp/buildd/snp-sites-2.0.1'
make[1]: Leaving directory '/tmp/buildd/snp-sites-2.0.1'
dh_auto_test
make -j1 check
make[1]: Entering directory '/tmp/buildd/snp-sites-2.0.1'
Making check in src
make[2]: Entering directory '/tmp/buildd/snp-sites-2.0.1/src'
make run-all-tests
make[3]: Entering directory '/tmp/buildd/snp-sites-2.0.1/src'
gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I../tests -g
-O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o
run_all_tests-check-snp-sites.o `test -f '../tests/check-snp-sites.c' || echo
'./'`../tests/check-snp-sites.c
gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I../tests -g
-O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o
run_all_tests-check-vcf.o `test -f '../tests/check-vcf.c' || echo
'./'`../tests/check-vcf.c
gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I../tests -g
-O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o
run_all_tests-helper-methods.o `test -f '../tests/helper-methods.c' || echo
'./'`../tests/helper-methods.c
gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I../tests -g
-O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o
run_all_tests-run-all-tests.o `test -f '../tests/run-all-tests.c' || echo
'./'`../tests/run-all-tests.c
/bin/bash ../libtool --tag=CC --mode=link gcc -I../tests -g -O2
-fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -o
run-all-tests run_all_tests-check-snp-sites.o run_all_tests-check-vcf.o
run_all_tests-helper-methods.o run_all_tests-run-all-tests.o -lm -lcheck
libsnp-sites.la -lz -lpthread -lrt
libtool: link: gcc -I../tests -g -O2 -fstack-protector-strong -Wformat
-Werror=format-security -Wl,-z -Wl,relro -o .libs/run-all-tests
run_all_tests-check-snp-sites.o run_all_tests-check-vcf.o
run_all_tests-helper-methods.o run_all_tests-run-all-tests.o -lm -lcheck
./.libs/libsnp-sites.so -lz -lpthread -lrt
/usr/lib/gcc/x86_64-linux-gnu/5/../../../x86_64-linux-gnu/libcheck.a(check_log.o):
In function `subunit_lfun':
(.text+0x584): undefined reference to `subunit_test_start'
/usr/lib/gcc/x86_64-linux-gnu/5/../../../x86_64-linux-gnu/libcheck.a(check_log.o):
In function `subunit_lfun':
(.text+0x63f): undefined reference to `subunit_test_fail'
/usr/lib/gcc/x86_64-linux-gnu/5/../../../x86_64-linux-gnu/libcheck.a(check_log.o):
In function `subunit_lfun':
(.text+0x654): undefined reference to `subunit_test_pass'
/usr/lib/gcc/x86_64-linux-gnu/5/../../../x86_64-linux-gnu/libcheck.a(check_log.o):
In function `subunit_lfun':
(.text+0x66f): undefined reference to `subunit_test_error'
collect2: error: ld returned 1 exit status
Makefile:688: recipe for target 'run-all-tests' failed
make[3]: *** [run-all-tests] Error 1
make[3]: Leaving directory '/tmp/buildd/snp-sites-2.0.1/src'
Makefile:1064: recipe for target 'check-am' failed
make[2]: *** [check-am] Error 2
make[2]: Leaving directory '/tmp/buildd/snp-sites-2.0.1/src'
Makefile:399: recipe for target 'check-recursive' failed
make[1]: *** [check-recursive] Error 1
make[1]: Leaving directory '/tmp/buildd/snp-sites-2.0.1'
dh_auto_test: make -j1 check returned exit code 2
debian/rules:12: recipe for target 'build' failed
make: *** [build] Error 2
dpkg-buildpackage: error: debian/rules build gave error exit status 2
E: Failed autobuilding of package
I: unmounting /sys filesystem
I: unmounting /dev/shm filesystem
I: unmounting dev/pts filesystem
I: unmounting run/shm filesystem
I: unmounting proc filesystem
I: cleaning the build env
I: removing directory /var/cache/pbuilder/build//17753 and its subdirectories
