Source: jellyfish
Version: 2.2.3-1
Severity: serious
Justification: fails to build from source
User: reproducible-builds@lists.alioth.debian.org
Usertags: ftbfs
X-Debbugs-Cc: reproducible-builds@lists.alioth.debian.org
Dear Maintainer,
jellyfish fails to build from source on unstable/amd64:
[..]
g++ -DHAVE_CONFIG_H -I. -Dprotected=public -Dprivate=public
-DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g
-O3 -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include
-std=c++0x -g -O2 -fstack-protector-strong -Wformat
-Werror=format-security -c -o unit_tests/bin_test_all-test_main.o
`test -f 'unit_tests/test_main.cc' || echo
'./'`unit_tests/test_main.cc
In file included from ./unit_tests/gtest/gtest.h:308:0,
from unit_tests/test_main.cc:20:
/usr/include/c++/5/sstream:300:7: error: 'struct
std::__cxx11::basic_stringbuf<_CharT, _Traits,
_Alloc>::__xfer_bufptrs' redeclared with different access
struct __xfer_bufptrs
^
Makefile:1369: recipe for target 'unit_tests/bin_test_all-test_main.o'
failed
make[4]: *** [unit_tests/bin_test_all-test_main.o] Error 1
make[4]: Leaving directory '/tmp/buildd/jellyfish-2.2.3'
Makefile:2319: recipe for target 'check-am' failed
make[3]: *** [check-am] Error 2
make[3]: Leaving directory '/tmp/buildd/jellyfish-2.2.3'
Makefile:1875: recipe for target 'check-recursive' failed
make[2]: *** [check-recursive] Error 1
make[2]: Leaving directory '/tmp/buildd/jellyfish-2.2.3'
Makefile:2322: recipe for target 'check' failed
make[1]: *** [check] Error 2
make[1]: Leaving directory '/tmp/buildd/jellyfish-2.2.3'
dh_auto_test: make -j1 check returned exit code 2
debian/rules:8: 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/jellyfish_2.2.3-1.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 Aug 10 14:59:19 GMT+12 2015
I: pbuilder-time-stamp: 1439261959
I: Building the build Environment
I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz]
I: creating local configuration
I: copying local configuration
I: mounting /proc filesystem
I: mounting /run/shm filesystem
I: mounting /dev/pts filesystem
I: Mounting /dev/shm
I: Mounting /sys
I: policy-rc.d already exists
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), dh-autoreconf, d-shlibs, yaggo, pkg-config, bc,
time, procps, valgrind
dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in
'/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'.
Selecting previously unselected package pbuilder-satisfydepends-dummy.
(Reading database ... 20247 files and directories currently installed.)
Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ...
Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ...
dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring
anyway as you requested:
pbuilder-satisfydepends-dummy depends on dh-autoreconf; however:
Package dh-autoreconf is not installed.
pbuilder-satisfydepends-dummy depends on d-shlibs; however:
Package d-shlibs is not installed.
pbuilder-satisfydepends-dummy depends on yaggo; however:
Package yaggo is not installed.
pbuilder-satisfydepends-dummy depends on pkg-config; however:
Package pkg-config is not installed.
pbuilder-satisfydepends-dummy depends on bc; however:
Package bc is not installed.
pbuilder-satisfydepends-dummy depends on time; however:
Package time is not installed.
pbuilder-satisfydepends-dummy depends on valgrind; however:
Package valgrind is not installed.
Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ...
Reading package lists...
Building dependency tree...
Reading state information...
Initializing package states...
Writing extended state information...
Building tag database...
The following NEW packages will be installed:
autoconf{a} automake{a} autopoint{a} autotools-dev{a} bc{a}
ca-certificates{a} d-shlibs{a} dh-autoreconf{a} libc6-dbg{a}
libruby2.1{a} libsigsegv2{a} libssl1.0.0{a} libtool{a} libyaml-0-2{a}
m4{a} openssl{a} pkg-config{a} ruby{a} ruby2.1{a} rubygems-integration{a}
time{a} valgrind{a} yaggo{a}
0 packages upgraded, 23 newly installed, 0 to remove and 0 not upgraded.
Need to get 28.5 MB of archives. After unpacking 154 MB will be used.
Writing extended state information...
Get: 1 http://ftp.de.debian.org/debian/ unstable/main libsigsegv2 amd64
2.10-4+b1 [29.2 kB]
Get: 2 http://ftp.de.debian.org/debian/ unstable/main libyaml-0-2 amd64 0.1.6-3
[50.4 kB]
Get: 3 http://ftp.de.debian.org/debian/ unstable/main libssl1.0.0 amd64
1.0.2d-1 [1274 kB]
Get: 4 http://reproducible.alioth.debian.org/debian/ ./ autopoint
0.19.5.1-1.0~reproducible1 [426 kB]
Get: 5 http://ftp.de.debian.org/debian/ unstable/main bc amd64 1.06.95-9 [103
kB]
Get: 6 http://ftp.de.debian.org/debian/ unstable/main m4 amd64 1.4.17-4 [254 kB]
Get: 7 http://ftp.de.debian.org/debian/ unstable/main time amd64 1.7-25.1 [31.0
kB]
Get: 8 http://ftp.de.debian.org/debian/ unstable/main autoconf all 2.69-8 [340
kB]
Get: 9 http://ftp.de.debian.org/debian/ unstable/main autotools-dev all
20140911.1 [70.5 kB]
Get: 10 http://ftp.de.debian.org/debian/ unstable/main automake all 1:1.15-2
[735 kB]
Get: 11 http://ftp.de.debian.org/debian/ unstable/main openssl amd64 1.0.2d-1
[695 kB]
Get: 12 http://ftp.de.debian.org/debian/ unstable/main ca-certificates all
20150426 [208 kB]
Get: 13 http://ftp.de.debian.org/debian/ unstable/main d-shlibs all 0.62 [16.9
kB]
Get: 14 http://ftp.de.debian.org/debian/ unstable/main libtool all 2.4.2-1.11
[190 kB]
Get: 15 http://ftp.de.debian.org/debian/ unstable/main dh-autoreconf all 10
[15.2 kB]
Get: 16 http://ftp.de.debian.org/debian/ unstable/main pkg-config amd64 0.28-1
[57.5 kB]
Get: 17 http://ftp.de.debian.org/debian/ unstable/main rubygems-integration all
1.9 [4754 B]
Get: 18 http://ftp.de.debian.org/debian/ unstable/main libruby2.1 amd64 2.1.5-4
[3280 kB]
Get: 19 http://ftp.de.debian.org/debian/ unstable/main ruby2.1 amd64 2.1.5-4
[276 kB]
Get: 20 http://ftp.de.debian.org/debian/ unstable/main ruby all 1:2.1.5.1 [9756
B]
Get: 21 http://ftp.de.debian.org/debian/ unstable/main libc6-dbg amd64 2.19-19
[3438 kB]
Get: 22 http://ftp.de.debian.org/debian/ unstable/main valgrind amd64
1:3.10.1-4 [17.0 MB]
Get: 23 http://ftp.de.debian.org/debian/ unstable/main yaggo all 1.5.4-1 [17.6
kB]
Fetched 28.5 MB in 1s (20.1 MB/s)
debconf: delaying package configuration, since apt-utils is not installed
Selecting previously unselected package libsigsegv2:amd64.
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Processing triggers for man-db (2.7.0.2-5) ...
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Setting up bc (1.06.95-9) ...
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Setting up time (1.7-25.1) ...
Setting up autoconf (2.69-8) ...
Setting up autotools-dev (20140911.1) ...
Setting up automake (1:1.15-2) ...
update-alternatives: using /usr/bin/automake-1.15 to provide /usr/bin/automake
(automake) in auto mode
Setting up autopoint (0.19.5.1-1.0~reproducible1) ...
Setting up openssl (1.0.2d-1) ...
Setting up ca-certificates (20150426) ...
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Processing triggers for libc-bin (2.19-19) ...
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Updating certificates in /etc/ssl/certs...
180 added, 0 removed; done.
Running hooks in /etc/ca-certificates/update.d...
done.
Reading package lists...
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-> Finished parsing the build-deps
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fakeroot is already the newest version.
0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
I: Copying source file
I: copying [jellyfish_2.2.3-1.dsc]
I: copying [./jellyfish_2.2.3.orig.tar.gz]
I: copying [./jellyfish_2.2.3-1.debian.tar.xz]
I: Extracting source
gpgv: keyblock resource `/tmp/buildd/.gnupg/trustedkeys.gpg': file open error
gpgv: Signature made Fri Jul 3 06:12:49 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 ./jellyfish_2.2.3-1.dsc
dpkg-source: info: extracting jellyfish in jellyfish-2.2.3
dpkg-source: info: unpacking jellyfish_2.2.3.orig.tar.gz
dpkg-source: info: unpacking jellyfish_2.2.3-1.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 jellyfish
dpkg-buildpackage: source version 2.2.3-1
dpkg-buildpackage: source distribution unstable
dpkg-buildpackage: source changed by Andreas Tille <ti...@debian.org>
dpkg-source --before-build jellyfish-2.2.3
dpkg-buildpackage: host architecture amd64
fakeroot debian/rules clean
dh clean --with autoreconf
dh_testdir
dh_auto_clean
dh_autoreconf_clean
debian/rules override_dh_clean
make[1]: Entering directory '/tmp/buildd/jellyfish-2.2.3'
dh_clean
if [ -d debian/tmp_save_tests ] ; then \
mv debian/tmp_save_tests/* tests ; \
rmdir debian/tmp_save_tests ; \
fi
rm -f tests/compat.sh
make[1]: Leaving directory '/tmp/buildd/jellyfish-2.2.3'
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:8: installing './compile'
configure.ac:2: installing './config.guess'
configure.ac:2: installing './config.sub'
configure.ac:4: installing './install-sh'
configure.ac:4: installing './missing'
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 build system type... x86_64-pc-linux-gnu
checking host system type... x86_64-pc-linux-gnu
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... /bin/mkdir -p
checking for gawk... no
checking for mawk... mawk
checking whether make sets $(MAKE)... yes
checking whether make supports nested variables... yes
checking whether make supports nested variables... (cached) yes
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
checking for a sed that does not truncate output... /bin/sed
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for fgrep... /bin/grep -F
checking for ld used by gcc... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
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
checking whether the shell understands some XSI constructs... yes
checking whether the shell understands "+="... yes
checking how to convert x86_64-pc-linux-gnu file names to x86_64-pc-linux-gnu
format... func_convert_file_noop
checking how to convert x86_64-pc-linux-gnu file names to toolchain format...
func_convert_file_noop
checking for /usr/bin/ld option to reload object files... -r
checking for objdump... objdump
checking how to recognize dependent libraries... pass_all
checking for dlltool... no
checking how to associate runtime and link libraries... printf %s\n
checking for ar... ar
checking for archiver @FILE support... @
checking for strip... strip
checking for ranlib... ranlib
checking command to parse /usr/bin/nm -B output from gcc object... ok
checking for sysroot... no
checking for mt... no
checking if : is a manifest tool... no
checking how to run the C preprocessor... gcc -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking for dlfcn.h... yes
checking for objdir... .libs
checking if gcc supports -fno-rtti -fno-exceptions... no
checking for gcc option to produce PIC... -fPIC -DPIC
checking if gcc PIC flag -fPIC -DPIC works... yes
checking if gcc static flag -static works... yes
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
checking whether stripping libraries is possible... yes
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... yes
checking whether to build static libraries... yes
checking for g++... g++
checking whether we are using the GNU C++ compiler... yes
checking whether g++ accepts -g... yes
checking dependency style of g++... none
checking how to run the C++ preprocessor... g++ -E
checking for ld used by g++... /usr/bin/ld -m elf_x86_64
checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes
checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared
libraries... yes
checking for g++ option to produce PIC... -fPIC -DPIC
checking if g++ PIC flag -fPIC -DPIC works... yes
checking if g++ static flag -static works... yes
checking if g++ supports -c -o file.o... yes
checking if g++ supports -c -o file.o... (cached) yes
checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared
libraries... yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking for md5sum... md5sum
checking for yaggo... /usr/bin/yaggo
checking for pkg-config... /usr/bin/pkg-config
checking pkg-config is at least version 0.9.0... yes
checking for __int128... yes
checking for std::numeric_limits<__int128>... no
checking for _NSGetExecutablePath... no
checking for execinfo.h... yes
checking for ext/stdio_filebuf.h... yes
checking for siginfo_t.si_int... yes
checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating Makefile
config.status: creating tests/compat.sh
config.status: creating jellyfish-2.0.pc
config.status: creating config.h
config.status: executing depfiles commands
config.status: executing libtool commands
configure: WARNING: unrecognized options: --disable-maintainer-mode
debian/rules override_dh_auto_build
make[1]: Entering directory '/tmp/buildd/jellyfish-2.2.3'
mkdir -p debian/tmp_save_tests
cp -a tests/* debian/tmp_save_tests
dh_auto_build
make -j1
make[2]: Entering directory '/tmp/buildd/jellyfish-2.2.3'
/usr/bin/yaggo --license ./header-license -o
sub_commands/count_main_cmdline.hpp sub_commands/count_main_cmdline.yaggo
/usr/bin/yaggo --license ./header-license -o sub_commands/info_main_cmdline.hpp
sub_commands/info_main_cmdline.yaggo
/usr/bin/yaggo --license ./header-license -o sub_commands/dump_main_cmdline.hpp
sub_commands/dump_main_cmdline.yaggo
/usr/bin/yaggo --license ./header-license -o
sub_commands/histo_main_cmdline.hpp sub_commands/histo_main_cmdline.yaggo
/usr/bin/yaggo --license ./header-license -o
sub_commands/stats_main_cmdline.hpp sub_commands/stats_main_cmdline.yaggo
/usr/bin/yaggo --license ./header-license -o
sub_commands/merge_main_cmdline.hpp sub_commands/merge_main_cmdline.yaggo
/usr/bin/yaggo --license ./header-license -o sub_commands/bc_main_cmdline.hpp
sub_commands/bc_main_cmdline.yaggo
/usr/bin/yaggo --license ./header-license -o
sub_commands/query_main_cmdline.hpp sub_commands/query_main_cmdline.yaggo
/usr/bin/yaggo --license ./header-license -o sub_commands/cite_main_cmdline.hpp
sub_commands/cite_main_cmdline.yaggo
/usr/bin/yaggo --license ./header-license -o sub_commands/mem_main_cmdline.hpp
sub_commands/mem_main_cmdline.yaggo
/usr/bin/yaggo --license ./header-license -o
jellyfish/generate_sequence_cmdline.hpp
jellyfish/generate_sequence_cmdline.yaggo
/usr/bin/yaggo --license ./header-license -o unit_tests/test_main_cmdline.hpp
unit_tests/test_main_cmdline.yaggo
make all-recursive
make[3]: Entering directory '/tmp/buildd/jellyfish-2.2.3'
Making all in .
make[4]: Entering directory '/tmp/buildd/jellyfish-2.2.3'
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wall
-Wnon-virtual-dtor -I. -I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2
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-Werror=format-security -c -o lib/rectangular_binary_matrix.lo
lib/rectangular_binary_matrix.cc
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I.
-I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror
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lib/rectangular_binary_matrix.cc -fPIC -DPIC -o
lib/.libs/rectangular_binary_matrix.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I.
-I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror
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lib/rectangular_binary_matrix.cc -o lib/rectangular_binary_matrix.o >/dev/null
2>&1
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-Wnon-virtual-dtor -I. -I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2
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libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I.
-I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror
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lib/mer_dna.cc -fPIC -DPIC -o lib/.libs/mer_dna.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I.
-I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror
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lib/mer_dna.cc -o lib/mer_dna.o >/dev/null 2>&1
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wall
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-Werror=format-security -c -o lib/storage.lo lib/storage.cc
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I.
-I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror
-std=c++0x -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c
lib/storage.cc -fPIC -DPIC -o lib/.libs/storage.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I.
-I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror
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lib/storage.cc -o lib/storage.o >/dev/null 2>&1
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-Wnon-virtual-dtor -I. -I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2
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libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I.
-I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror
-std=c++0x -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c
lib/allocators_mmap.cc -fPIC -DPIC -o lib/.libs/allocators_mmap.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I.
-I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror
-std=c++0x -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c
lib/allocators_mmap.cc -o lib/allocators_mmap.o >/dev/null 2>&1
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-std=c++0x -g -O3 -Werror -std=c++0x -g -O2 -fstack-protector-strong -Wformat
-Werror=format-security -c -o lib/misc.lo lib/misc.cc
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I.
-I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror
-std=c++0x -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c
lib/misc.cc -fPIC -DPIC -o lib/.libs/misc.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I.
-I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror
-std=c++0x -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c
lib/misc.cc -o lib/misc.o >/dev/null 2>&1
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wall
-Wnon-virtual-dtor -I. -I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2
-std=c++0x -g -O3 -Werror -std=c++0x -g -O2 -fstack-protector-strong -Wformat
-Werror=format-security -c -o lib/int128.lo lib/int128.cc
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I.
-I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror
-std=c++0x -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c
lib/int128.cc -fPIC -DPIC -o lib/.libs/int128.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I.
-I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror
-std=c++0x -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c
lib/int128.cc -o lib/int128.o >/dev/null 2>&1
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wall
-Wnon-virtual-dtor -I. -I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2
-std=c++0x -g -O3 -Werror -std=c++0x -g -O2 -fstack-protector-strong -Wformat
-Werror=format-security -c -o lib/thread_exec.lo lib/thread_exec.cc
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I.
-I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror
-std=c++0x -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c
lib/thread_exec.cc -fPIC -DPIC -o lib/.libs/thread_exec.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I.
-I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror
-std=c++0x -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c
lib/thread_exec.cc -o lib/thread_exec.o >/dev/null 2>&1
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wall
-Wnon-virtual-dtor -I. -I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2
-std=c++0x -g -O3 -Werror -std=c++0x -g -O2 -fstack-protector-strong -Wformat
-Werror=format-security -c -o lib/jsoncpp.lo lib/jsoncpp.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I.
-I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror
-std=c++0x -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c
lib/jsoncpp.cpp -fPIC -DPIC -o lib/.libs/jsoncpp.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I.
-I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror
-std=c++0x -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c
lib/jsoncpp.cpp -o lib/jsoncpp.o >/dev/null 2>&1
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wall
-Wnon-virtual-dtor -I. -I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2
-std=c++0x -g -O3 -Werror -std=c++0x -g -O2 -fstack-protector-strong -Wformat
-Werror=format-security -c -o lib/time.lo lib/time.cc
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I.
-I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror
-std=c++0x -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c
lib/time.cc -fPIC -DPIC -o lib/.libs/time.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I.
-I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror
-std=c++0x -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c
lib/time.cc -o lib/time.o >/dev/null 2>&1
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wall
-Wnon-virtual-dtor -I. -I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2
-std=c++0x -g -O3 -Werror -std=c++0x -g -O2 -fstack-protector-strong -Wformat
-Werror=format-security -c -o lib/generator_manager.lo lib/generator_manager.cc
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I.
-I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror
-std=c++0x -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c
lib/generator_manager.cc -fPIC -DPIC -o lib/.libs/generator_manager.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I.
-I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror
-std=c++0x -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -c
lib/generator_manager.cc -o lib/generator_manager.o >/dev/null 2>&1
/bin/bash ./libtool --tag=CXX --mode=link g++ -std=c++0x -g -O3 -Werror
-std=c++0x -g -O2 -fstack-protector-strong -Wformat -Werror=format-security
-version-info 2:0:0 -Wl,-z,relro -o libjellyfish-2.0.la -rpath
/usr/lib/x86_64-linux-gnu lib/rectangular_binary_matrix.lo lib/mer_dna.lo
lib/storage.lo lib/allocators_mmap.lo lib/misc.lo lib/int128.lo
lib/thread_exec.lo lib/jsoncpp.lo lib/time.lo lib/generator_manager.lo
libtool: link: g++ -fPIC -DPIC -shared -nostdlib
/usr/lib/gcc/x86_64-linux-gnu/5/../../../x86_64-linux-gnu/crti.o
/usr/lib/gcc/x86_64-linux-gnu/5/crtbeginS.o
lib/.libs/rectangular_binary_matrix.o lib/.libs/mer_dna.o lib/.libs/storage.o
lib/.libs/allocators_mmap.o lib/.libs/misc.o lib/.libs/int128.o
lib/.libs/thread_exec.o lib/.libs/jsoncpp.o lib/.libs/time.o
lib/.libs/generator_manager.o -L/usr/lib/gcc/x86_64-linux-gnu/5
-L/usr/lib/gcc/x86_64-linux-gnu/5/../../../x86_64-linux-gnu
-L/usr/lib/gcc/x86_64-linux-gnu/5/../../../../lib -L/lib/x86_64-linux-gnu
-L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib
-L/usr/lib/gcc/x86_64-linux-gnu/5/../../.. -lstdc++ -lm -lc -lgcc_s
/usr/lib/gcc/x86_64-linux-gnu/5/crtendS.o
/usr/lib/gcc/x86_64-linux-gnu/5/../../../x86_64-linux-gnu/crtn.o -O3 -O2
-Wl,-z -Wl,relro -Wl,-soname -Wl,libjellyfish-2.0.so.2 -o
.libs/libjellyfish-2.0.so.2.0.0
libtool: link: (cd ".libs" && rm -f "libjellyfish-2.0.so.2" && ln -s
"libjellyfish-2.0.so.2.0.0" "libjellyfish-2.0.so.2")
libtool: link: (cd ".libs" && rm -f "libjellyfish-2.0.so" && ln -s
"libjellyfish-2.0.so.2.0.0" "libjellyfish-2.0.so")
libtool: link: ar cru .libs/libjellyfish-2.0.a lib/rectangular_binary_matrix.o
lib/mer_dna.o lib/storage.o lib/allocators_mmap.o lib/misc.o lib/int128.o
lib/thread_exec.o lib/jsoncpp.o lib/time.o lib/generator_manager.o
ar: `u' modifier ignored since `D' is the default (see `U')
libtool: link: ranlib .libs/libjellyfish-2.0.a
libtool: link: ( cd ".libs" && rm -f "libjellyfish-2.0.la" && ln -s
"../libjellyfish-2.0.la" "libjellyfish-2.0.la" )
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -g -O3
-Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror -std=c++0x -g -O2
-fstack-protector-strong -Wformat -Werror=format-security -c -o
sub_commands/jellyfish.o sub_commands/jellyfish.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -g -O3
-Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror -std=c++0x -g -O2
-fstack-protector-strong -Wformat -Werror=format-security -c -o
sub_commands/count_main.o sub_commands/count_main.cc
sub_commands/count_main.cc: In function 'int count_main(int, char**)':
sub_commands/count_main.cc:248:8: warning: 'template<class> class
std::auto_ptr' is deprecated [-Wdeprecated-declarations]
std::auto_ptr<jellyfish::dumper_t<mer_array> > dumper;
^
In file included from /usr/include/c++/5/memory:81:0,
from sub_commands/count_main.cc:28:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
template<typename> class auto_ptr;
^
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -g -O3
-Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror -std=c++0x -g -O2
-fstack-protector-strong -Wformat -Werror=format-security -c -o
sub_commands/info_main.o sub_commands/info_main.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -g -O3
-Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror -std=c++0x -g -O2
-fstack-protector-strong -Wformat -Werror=format-security -c -o
sub_commands/dump_main.o sub_commands/dump_main.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -g -O3
-Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror -std=c++0x -g -O2
-fstack-protector-strong -Wformat -Werror=format-security -c -o
sub_commands/histo_main.o sub_commands/histo_main.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -g -O3
-Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror -std=c++0x -g -O2
-fstack-protector-strong -Wformat -Werror=format-security -c -o
sub_commands/stats_main.o sub_commands/stats_main.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -g -O3
-Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror -std=c++0x -g -O2
-fstack-protector-strong -Wformat -Werror=format-security -c -o
sub_commands/merge_main.o sub_commands/merge_main.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -g -O3
-Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror -std=c++0x -g -O2
-fstack-protector-strong -Wformat -Werror=format-security -c -o
sub_commands/bc_main.o sub_commands/bc_main.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -g -O3
-Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror -std=c++0x -g -O2
-fstack-protector-strong -Wformat -Werror=format-security -c -o
sub_commands/query_main.o sub_commands/query_main.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -g -O3
-Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror -std=c++0x -g -O2
-fstack-protector-strong -Wformat -Werror=format-security -c -o
sub_commands/cite_main.o sub_commands/cite_main.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -g -O3
-Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror -std=c++0x -g -O2
-fstack-protector-strong -Wformat -Werror=format-security -c -o
sub_commands/mem_main.o sub_commands/mem_main.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -g -O3
-Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror -std=c++0x -g -O2
-fstack-protector-strong -Wformat -Werror=format-security -c -o
jellyfish/merge_files.o jellyfish/merge_files.cc
jellyfish/merge_files.cc:38:14: warning: 'template<class> class std::auto_ptr'
is deprecated [-Wdeprecated-declarations]
typedef std::auto_ptr<binary_reader> binary_reader_ptr;
^
In file included from /usr/include/c++/5/bits/locale_conv.h:41:0,
from /usr/include/c++/5/locale:43,
from /usr/include/c++/5/iomanip:43,
from ./include/jellyfish/err.hpp:21,
from ./jellyfish/merge_files.hpp:21,
from jellyfish/merge_files.cc:17:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
template<typename> class auto_ptr;
^
jellyfish/merge_files.cc:39:14: warning: 'template<class> class std::auto_ptr'
is deprecated [-Wdeprecated-declarations]
typedef std::auto_ptr<text_reader> text_reader_ptr;
^
In file included from /usr/include/c++/5/bits/locale_conv.h:41:0,
from /usr/include/c++/5/locale:43,
from /usr/include/c++/5/iomanip:43,
from ./include/jellyfish/err.hpp:21,
from ./jellyfish/merge_files.hpp:21,
from jellyfish/merge_files.cc:17:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
template<typename> class auto_ptr;
^
jellyfish/merge_files.cc:50:14: warning: 'template<class> class std::auto_ptr'
is deprecated [-Wdeprecated-declarations]
typedef std::auto_ptr<RectangularBinaryMatrix> matrix_ptr;
^
In file included from /usr/include/c++/5/bits/locale_conv.h:41:0,
from /usr/include/c++/5/locale:43,
from /usr/include/c++/5/iomanip:43,
from ./include/jellyfish/err.hpp:21,
from ./jellyfish/merge_files.hpp:21,
from jellyfish/merge_files.cc:17:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
template<typename> class auto_ptr;
^
/bin/bash ./libtool --tag=CXX --mode=link g++ -std=c++0x -g -O3 -Werror
-std=c++0x -g -O2 -fstack-protector-strong -Wformat -Werror=format-security
-lpthread -Wl,-z,relro -o bin/jellyfish sub_commands/jellyfish.o
sub_commands/count_main.o sub_commands/info_main.o sub_commands/dump_main.o
sub_commands/histo_main.o sub_commands/stats_main.o sub_commands/merge_main.o
sub_commands/bc_main.o sub_commands/query_main.o sub_commands/cite_main.o
sub_commands/mem_main.o jellyfish/merge_files.o libjellyfish-2.0.la
libtool: link: g++ -std=c++0x -g -O3 -Werror -std=c++0x -g -O2
-fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -o
bin/.libs/jellyfish sub_commands/jellyfish.o sub_commands/count_main.o
sub_commands/info_main.o sub_commands/dump_main.o sub_commands/histo_main.o
sub_commands/stats_main.o sub_commands/merge_main.o sub_commands/bc_main.o
sub_commands/query_main.o sub_commands/cite_main.o sub_commands/mem_main.o
jellyfish/merge_files.o -lpthread ./.libs/libjellyfish-2.0.so
make[4]: Leaving directory '/tmp/buildd/jellyfish-2.2.3'
make[3]: Leaving directory '/tmp/buildd/jellyfish-2.2.3'
make[2]: Leaving directory '/tmp/buildd/jellyfish-2.2.3'
make[1]: Leaving directory '/tmp/buildd/jellyfish-2.2.3'
dh_auto_test
make -j1 check
make[1]: Entering directory '/tmp/buildd/jellyfish-2.2.3'
make check-recursive
make[2]: Entering directory '/tmp/buildd/jellyfish-2.2.3'
Making check in .
make[3]: Entering directory '/tmp/buildd/jellyfish-2.2.3'
make libgtest.la libgtest_main.la bin/generate_sequence bin/test_all
make[4]: Entering directory '/tmp/buildd/jellyfish-2.2.3'
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wall
-Wnon-virtual-dtor -I. -I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2
-I./unit_tests -std=c++0x -g -O2 -fstack-protector-strong -Wformat
-Werror=format-security -c -o unit_tests/gtest/src/libgtest_la-gtest-all.lo
`test -f 'unit_tests/gtest/src/gtest-all.cc' || echo
'./'`unit_tests/gtest/src/gtest-all.cc
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I.
-I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -I./unit_tests -std=c++0x -g
-O2 -fstack-protector-strong -Wformat -Werror=format-security -c
unit_tests/gtest/src/gtest-all.cc -fPIC -DPIC -o
unit_tests/gtest/src/.libs/libgtest_la-gtest-all.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I.
-I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -I./unit_tests -std=c++0x -g
-O2 -fstack-protector-strong -Wformat -Werror=format-security -c
unit_tests/gtest/src/gtest-all.cc -o
unit_tests/gtest/src/libgtest_la-gtest-all.o >/dev/null 2>&1
/bin/bash ./libtool --tag=CXX --mode=link g++ -I./unit_tests -std=c++0x -g
-O2 -fstack-protector-strong -Wformat -Werror=format-security -lpthread
-Wl,-z,relro -o libgtest.la unit_tests/gtest/src/libgtest_la-gtest-all.lo
libtool: link: ar cru .libs/libgtest.a
unit_tests/gtest/src/.libs/libgtest_la-gtest-all.o
ar: `u' modifier ignored since `D' is the default (see `U')
libtool: link: ranlib .libs/libgtest.a
libtool: link: ( cd ".libs" && rm -f "libgtest.la" && ln -s "../libgtest.la"
"libgtest.la" )
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wall
-Wnon-virtual-dtor -I. -I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2
-I./unit_tests -std=c++0x -g -O2 -fstack-protector-strong -Wformat
-Werror=format-security -c -o
unit_tests/gtest/src/libgtest_main_la-gtest_main.lo `test -f
'unit_tests/gtest/src/gtest_main.cc' || echo
'./'`unit_tests/gtest/src/gtest_main.cc
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I.
-I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -I./unit_tests -std=c++0x -g
-O2 -fstack-protector-strong -Wformat -Werror=format-security -c
unit_tests/gtest/src/gtest_main.cc -fPIC -DPIC -o
unit_tests/gtest/src/.libs/libgtest_main_la-gtest_main.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I.
-I./include -g -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -I./unit_tests -std=c++0x -g
-O2 -fstack-protector-strong -Wformat -Werror=format-security -c
unit_tests/gtest/src/gtest_main.cc -o
unit_tests/gtest/src/libgtest_main_la-gtest_main.o >/dev/null 2>&1
/bin/bash ./libtool --tag=CXX --mode=link g++ -I./unit_tests -std=c++0x -g
-O2 -fstack-protector-strong -Wformat -Werror=format-security -lpthread
-Wl,-z,relro -o libgtest_main.la
unit_tests/gtest/src/libgtest_main_la-gtest_main.lo libgtest.la
libtool: link: (cd .libs/libgtest_main.lax/libgtest.a && ar x
"/tmp/buildd/jellyfish-2.2.3/./.libs/libgtest.a")
libtool: link: ar cru .libs/libgtest_main.a
unit_tests/gtest/src/.libs/libgtest_main_la-gtest_main.o
.libs/libgtest_main.lax/libgtest.a/libgtest_la-gtest-all.o
ar: `u' modifier ignored since `D' is the default (see `U')
libtool: link: ranlib .libs/libgtest_main.a
libtool: link: rm -fr .libs/libgtest_main.lax
libtool: link: ( cd ".libs" && rm -f "libgtest_main.la" && ln -s
"../libgtest_main.la" "libgtest_main.la" )
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -g -O3
-Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror -std=c++0x -g -O2
-fstack-protector-strong -Wformat -Werror=format-security -c -o
jellyfish/generate_sequence.o jellyfish/generate_sequence.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -g -O3
-Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror -std=c++0x -g -O2
-fstack-protector-strong -Wformat -Werror=format-security -c -o
jellyfish/mersenne.o jellyfish/mersenne.cpp
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -g -O3
-Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror -std=c++0x -g -O2
-fstack-protector-strong -Wformat -Werror=format-security -c -o
jellyfish/backtrace.o jellyfish/backtrace.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -g -O3
-Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3 -Werror -std=c++0x -g -O2
-fstack-protector-strong -Wformat -Werror=format-security -c -o jellyfish/dbg.o
jellyfish/dbg.cc
/bin/bash ./libtool --tag=CXX --mode=link g++ -std=c++0x -g -O3 -Werror
-std=c++0x -g -O2 -fstack-protector-strong -Wformat -Werror=format-security
-lpthread -Wl,-z,relro -o bin/generate_sequence jellyfish/generate_sequence.o
jellyfish/mersenne.o jellyfish/backtrace.o jellyfish/dbg.o libjellyfish-2.0.la
libtool: link: g++ -std=c++0x -g -O3 -Werror -std=c++0x -g -O2
-fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -o
bin/.libs/generate_sequence jellyfish/generate_sequence.o jellyfish/mersenne.o
jellyfish/backtrace.o jellyfish/dbg.o -lpthread ./.libs/libjellyfish-2.0.so
g++ -DHAVE_CONFIG_H -I. -Dprotected=public -Dprivate=public
-DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O3
-Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -std=c++0x -g
-O2 -fstack-protector-strong -Wformat -Werror=format-security -c -o
unit_tests/bin_test_all-test_main.o `test -f 'unit_tests/test_main.cc' || echo
'./'`unit_tests/test_main.cc
In file included from ./unit_tests/gtest/gtest.h:308:0,
from unit_tests/test_main.cc:20:
/usr/include/c++/5/sstream:300:7: error: 'struct
std::__cxx11::basic_stringbuf<_CharT, _Traits, _Alloc>::__xfer_bufptrs'
redeclared with different access
struct __xfer_bufptrs
^
Makefile:1369: recipe for target 'unit_tests/bin_test_all-test_main.o' failed
make[4]: *** [unit_tests/bin_test_all-test_main.o] Error 1
make[4]: Leaving directory '/tmp/buildd/jellyfish-2.2.3'
Makefile:2319: recipe for target 'check-am' failed
make[3]: *** [check-am] Error 2
make[3]: Leaving directory '/tmp/buildd/jellyfish-2.2.3'
Makefile:1875: recipe for target 'check-recursive' failed
make[2]: *** [check-recursive] Error 1
make[2]: Leaving directory '/tmp/buildd/jellyfish-2.2.3'
Makefile:2322: recipe for target 'check' failed
make[1]: *** [check] Error 2
make[1]: Leaving directory '/tmp/buildd/jellyfish-2.2.3'
dh_auto_test: make -j1 check returned exit code 2
debian/rules:8: 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//33131 and its subdirectories
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