Package: src:libseqlib
Version: 1.1.2+dfsg-2
Severity: serious
Tags: ftbfs
Hello Andreas et al.
I tried to build this package in buster but it failed:
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[...]
debian/rules build-arch
dh build-arch
dh_update_autotools_config -a
dh_autoreconf -a
libtoolize: putting auxiliary files in '.'.
libtoolize: copying file './ltmain.sh'
libtoolize: Consider adding 'AC_CONFIG_MACRO_DIRS([m4])' to configure.ac,
libtoolize: and rerunning libtoolize and aclocal.
libtoolize: Consider adding '-I m4' to ACLOCAL_AMFLAGS in Makefile.am.
libtoolize: 'AC_PROG_RANLIB' is rendered obsolete by 'LT_INIT'
configure.ac:17: installing './compile'
configure.ac:19: installing './config.guess'
configure.ac:19: installing './config.sub'
configure.ac:4: installing './missing'
src/Makefile.am: installing './depcomp'
dh_auto_configure -a
./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 --runstatedir=/run
--disable-maintainer-mode --disable-dependency-tracking
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 to enable maintainer-specific portions of Makefiles... no
checking for g++... g++
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 g++ accepts -g... yes
checking whether make supports the include directive... yes (GNU style)
checking dependency style of g++... none
checking for gcc... gcc
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 ranlib... ranlib
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 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 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... (cached) ranlib
checking command to parse /usr/bin/nm -B output from gcc object... ok
checking for sysroot... no
checking for a working dd... /bin/dd
checking how to truncate binary pipes... /bin/dd bs=4096 count=1
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 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 zlib.h usability... yes
checking zlib.h presence... yes
checking for zlib.h... yes
checking for library containing gzopen... -lz
checking for library containing clock_gettime... none required
checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating Makefile
config.status: creating src/Makefile
config.status: creating src/seqtools/Makefile
config.status: creating libseqlib.pc
config.status: creating config.h
config.status: executing depfiles commands
config.status: executing libtool commands
dh_auto_build -a
make -j1
make[1]: Entering directory '/<<BUILDDIR>>/libseqlib-1.1.2+dfsg'
make all-recursive
make[2]: Entering directory '/<<BUILDDIR>>/libseqlib-1.1.2+dfsg'
Making all in src
make[3]: Entering directory '/<<BUILDDIR>>/libseqlib-1.1.2+dfsg/src'
/bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I..
-I/usr/include -I/usr/include/htslib -I/usr/include/fml `pkg-config --cflags
jsoncpp` -Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g
-Wno-unknown-pragmas -g -O2
-fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c -o
libseqlib_la-FastqReader.lo `test -f 'FastqReader.cpp' || echo
'./'`FastqReader.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include
-I/usr/include/htslib -I/usr/include/fml -I/usr/include/jsoncpp
-Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wno-unknown-pragmas -g
-O2 -fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c FastqReader.cpp
-fPIC -DPIC -o .libs/libseqlib_la-FastqReader.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include
-I/usr/include/htslib -I/usr/include/fml -I/usr/include/jsoncpp
-Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wno-unknown-pragmas -g
-O2 -fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c FastqReader.cpp -o
libseqlib_la-FastqReader.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I..
-I/usr/include -I/usr/include/htslib -I/usr/include/fml `pkg-config --cflags
jsoncpp` -Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g
-Wno-unknown-pragmas -g -O2
-fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c -o
libseqlib_la-BFC.lo `test -f 'BFC.cpp' || echo './'`BFC.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include
-I/usr/include/htslib -I/usr/include/fml -I/usr/include/jsoncpp
-Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wno-unknown-pragmas -g
-O2 -fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c BFC.cpp -fPIC
-DPIC -o .libs/libseqlib_la-BFC.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include
-I/usr/include/htslib -I/usr/include/fml -I/usr/include/jsoncpp
-Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wno-unknown-pragmas -g
-O2 -fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c BFC.cpp -o
libseqlib_la-BFC.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I..
-I/usr/include -I/usr/include/htslib -I/usr/include/fml `pkg-config --cflags
jsoncpp` -Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g
-Wno-unknown-pragmas -g -O2
-fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c -o
libseqlib_la-ReadFilter.lo `test -f 'ReadFilter.cpp' || echo './'`ReadFilter.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include
-I/usr/include/htslib -I/usr/include/fml -I/usr/include/jsoncpp
-Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wno-unknown-pragmas -g
-O2 -fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c ReadFilter.cpp
-fPIC -DPIC -o .libs/libseqlib_la-ReadFilter.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include
-I/usr/include/htslib -I/usr/include/fml -I/usr/include/jsoncpp
-Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wno-unknown-pragmas -g
-O2 -fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c ReadFilter.cpp -o
libseqlib_la-ReadFilter.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I..
-I/usr/include -I/usr/include/htslib -I/usr/include/fml `pkg-config --cflags
jsoncpp` -Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g
-Wno-unknown-pragmas -g -O2
-fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c -o
libseqlib_la-SeqPlot.lo `test -f 'SeqPlot.cpp' || echo './'`SeqPlot.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include
-I/usr/include/htslib -I/usr/include/fml -I/usr/include/jsoncpp
-Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wno-unknown-pragmas -g
-O2 -fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c SeqPlot.cpp -fPIC
-DPIC -o .libs/libseqlib_la-SeqPlot.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include
-I/usr/include/htslib -I/usr/include/fml -I/usr/include/jsoncpp
-Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wno-unknown-pragmas -g
-O2 -fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c SeqPlot.cpp -o
libseqlib_la-SeqPlot.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I..
-I/usr/include -I/usr/include/htslib -I/usr/include/fml `pkg-config --cflags
jsoncpp` -Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g
-Wno-unknown-pragmas -g -O2
-fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c -o
libseqlib_la-GenomicRegion.lo `test -f 'GenomicRegion.cpp' || echo
'./'`GenomicRegion.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include
-I/usr/include/htslib -I/usr/include/fml -I/usr/include/jsoncpp
-Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wno-unknown-pragmas -g
-O2 -fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c GenomicRegion.cpp
-fPIC -DPIC -o .libs/libseqlib_la-GenomicRegion.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include
-I/usr/include/htslib -I/usr/include/fml -I/usr/include/jsoncpp
-Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wno-unknown-pragmas -g
-O2 -fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c GenomicRegion.cpp
-o libseqlib_la-GenomicRegion.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I..
-I/usr/include -I/usr/include/htslib -I/usr/include/fml `pkg-config --cflags
jsoncpp` -Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g
-Wno-unknown-pragmas -g -O2
-fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c -o
libseqlib_la-RefGenome.lo `test -f 'RefGenome.cpp' || echo './'`RefGenome.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include
-I/usr/include/htslib -I/usr/include/fml -I/usr/include/jsoncpp
-Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wno-unknown-pragmas -g
-O2 -fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c RefGenome.cpp
-fPIC -DPIC -o .libs/libseqlib_la-RefGenome.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include
-I/usr/include/htslib -I/usr/include/fml -I/usr/include/jsoncpp
-Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wno-unknown-pragmas -g
-O2 -fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c RefGenome.cpp -o
libseqlib_la-RefGenome.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I..
-I/usr/include -I/usr/include/htslib -I/usr/include/fml `pkg-config --cflags
jsoncpp` -Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g
-Wno-unknown-pragmas -g -O2
-fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c -o
libseqlib_la-BamWriter.lo `test -f 'BamWriter.cpp' || echo './'`BamWriter.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include
-I/usr/include/htslib -I/usr/include/fml -I/usr/include/jsoncpp
-Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wno-unknown-pragmas -g
-O2 -fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c BamWriter.cpp
-fPIC -DPIC -o .libs/libseqlib_la-BamWriter.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include
-I/usr/include/htslib -I/usr/include/fml -I/usr/include/jsoncpp
-Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wno-unknown-pragmas -g
-O2 -fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c BamWriter.cpp -o
libseqlib_la-BamWriter.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I..
-I/usr/include -I/usr/include/htslib -I/usr/include/fml `pkg-config --cflags
jsoncpp` -Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g
-Wno-unknown-pragmas -g -O2
-fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c -o
libseqlib_la-BamReader.lo `test -f 'BamReader.cpp' || echo './'`BamReader.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include
-I/usr/include/htslib -I/usr/include/fml -I/usr/include/jsoncpp
-Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wno-unknown-pragmas -g
-O2 -fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c BamReader.cpp
-fPIC -DPIC -o .libs/libseqlib_la-BamReader.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include
-I/usr/include/htslib -I/usr/include/fml -I/usr/include/jsoncpp
-Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wno-unknown-pragmas -g
-O2 -fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c BamReader.cpp -o
libseqlib_la-BamReader.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I..
-I/usr/include -I/usr/include/htslib -I/usr/include/fml `pkg-config --cflags
jsoncpp` -Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g
-Wno-unknown-pragmas -g -O2
-fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c -o
libseqlib_la-BWAWrapper.lo `test -f 'BWAWrapper.cpp' || echo './'`BWAWrapper.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include
-I/usr/include/htslib -I/usr/include/fml -I/usr/include/jsoncpp
-Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wno-unknown-pragmas -g
-O2 -fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c BWAWrapper.cpp
-fPIC -DPIC -o .libs/libseqlib_la-BWAWrapper.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include
-I/usr/include/htslib -I/usr/include/fml -I/usr/include/jsoncpp
-Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wno-unknown-pragmas -g
-O2 -fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c BWAWrapper.cpp -o
libseqlib_la-BWAWrapper.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I..
-I/usr/include -I/usr/include/htslib -I/usr/include/fml `pkg-config --cflags
jsoncpp` -Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g
-Wno-unknown-pragmas -g -O2
-fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c -o
libseqlib_la-BamRecord.lo `test -f 'BamRecord.cpp' || echo './'`BamRecord.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include
-I/usr/include/htslib -I/usr/include/fml -I/usr/include/jsoncpp
-Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wno-unknown-pragmas -g
-O2 -fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c BamRecord.cpp
-fPIC -DPIC -o .libs/libseqlib_la-BamRecord.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include
-I/usr/include/htslib -I/usr/include/fml -I/usr/include/jsoncpp
-Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wno-unknown-pragmas -g
-O2 -fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c BamRecord.cpp -o
libseqlib_la-BamRecord.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I..
-I/usr/include -I/usr/include/htslib -I/usr/include/fml `pkg-config --cflags
jsoncpp` -Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g
-Wno-unknown-pragmas -g -O2
-fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c -o
libseqlib_la-FermiAssembler.lo `test -f 'FermiAssembler.cpp' || echo
'./'`FermiAssembler.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include
-I/usr/include/htslib -I/usr/include/fml -I/usr/include/jsoncpp
-Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wno-unknown-pragmas -g
-O2 -fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c FermiAssembler.cpp
-fPIC -DPIC -o .libs/libseqlib_la-FermiAssembler.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include
-I/usr/include/htslib -I/usr/include/fml -I/usr/include/jsoncpp
-Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wno-unknown-pragmas -g
-O2 -fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c FermiAssembler.cpp
-o libseqlib_la-FermiAssembler.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I..
-I/usr/include -I/usr/include/htslib -I/usr/include/fml `pkg-config --cflags
jsoncpp` -Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g
-Wno-unknown-pragmas -g -O2
-fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c -o
libseqlib_la-BamHeader.lo `test -f 'BamHeader.cpp' || echo './'`BamHeader.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include
-I/usr/include/htslib -I/usr/include/fml -I/usr/include/jsoncpp
-Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wno-unknown-pragmas -g
-O2 -fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c BamHeader.cpp
-fPIC -DPIC -o .libs/libseqlib_la-BamHeader.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I/usr/include
-I/usr/include/htslib -I/usr/include/fml -I/usr/include/jsoncpp
-Wno-sign-compare -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wno-unknown-pragmas -g
-O2 -fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -c BamHeader.cpp -o
libseqlib_la-BamHeader.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CXX --mode=link g++ -g -Wno-unknown-pragmas -g
-O2 -fdebug-prefix-map=/<<BUILDDIR>>/libseqlib-1.1.2+dfsg=.
-fstack-protector-strong -Wformat -Werror=format-security -version-info 1:0
-Wl,-z,relro -Wl,-z,now -o libseqlib.la -rpath /usr/lib/x86_64-linux-gnu
libseqlib_la-FastqReader.lo libseqlib_la-BFC.lo libseqlib_la-ReadFilter.lo
libseqlib_la-SeqPlot.lo libseqlib_la-GenomicRegion.lo libseqlib_la-RefGenome.lo
libseqlib_la-BamWriter.lo libseqlib_la-BamReader.lo libseqlib_la-BWAWrapper.lo
libseqlib_la-BamRecord.lo libseqlib_la-FermiAssembler.lo
libseqlib_la-BamHeader.lo -lz -pthread
libtool: link: g++ -fPIC -DPIC -shared -nostdlib
/usr/lib/gcc/x86_64-linux-gnu/8/../../../x86_64-linux-gnu/crti.o
/usr/lib/gcc/x86_64-linux-gnu/8/crtbeginS.o .libs/libseqlib_la-FastqReader.o
.libs/libseqlib_la-BFC.o .libs/libseqlib_la-ReadFilter.o
.libs/libseqlib_la-SeqPlot.o .libs/libseqlib_la-GenomicRegion.o
.libs/libseqlib_la-RefGenome.o .libs/libseqlib_la-BamWriter.o
.libs/libseqlib_la-BamReader.o .libs/libseqlib_la-BWAWrapper.o
.libs/libseqlib_la-BamRecord.o .libs/libseqlib_la-FermiAssembler.o
.libs/libseqlib_la-BamHeader.o -lz -L/usr/lib/gcc/x86_64-linux-gnu/8
-L/usr/lib/gcc/x86_64-linux-gnu/8/../../../x86_64-linux-gnu
-L/usr/lib/gcc/x86_64-linux-gnu/8/../../../../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/8/../../.. -lstdc++ -lm -lc -lgcc_s
/usr/lib/gcc/x86_64-linux-gnu/8/crtendS.o
/usr/lib/gcc/x86_64-linux-gnu/8/../../../x86_64-linux-gnu/crtn.o -g -g -O2
-fstack-protector-strong -Wl,-z -Wl,relro
-Wl,-z -Wl,now -pthread -pthread -Wl,-soname -Wl,libseqlib.so.1 -o
.libs/libseqlib.so.1.0.0
libtool: link: (cd ".libs" && rm -f "libseqlib.so.1" && ln -s
"libseqlib.so.1.0.0" "libseqlib.so.1")
libtool: link: (cd ".libs" && rm -f "libseqlib.so" && ln -s
"libseqlib.so.1.0.0" "libseqlib.so")
libtool: link: ar cru .libs/libseqlib.a libseqlib_la-FastqReader.o
libseqlib_la-BFC.o libseqlib_la-ReadFilter.o libseqlib_la-SeqPlot.o
libseqlib_la-GenomicRegion.o libseqlib_la-RefGenome.o libseqlib_la-BamWriter.o
libseqlib_la-BamReader.o libseqlib_la-BWAWrapper.o libseqlib_la-BamRecord.o
libseqlib_la-FermiAssembler.o libseqlib_la-BamHeader.o
ar: `u' modifier ignored since `D' is the default (see `U')
libtool: link: ranlib .libs/libseqlib.a
libtool: link: ( cd ".libs" && rm -f "libseqlib.la" && ln -s "../libseqlib.la"
"libseqlib.la" )
make[3]: Leaving directory '/<<BUILDDIR>>/libseqlib-1.1.2+dfsg/src'
make[3]: Entering directory '/<<BUILDDIR>>/libseqlib-1.1.2+dfsg'
make[3]: Leaving directory '/<<BUILDDIR>>/libseqlib-1.1.2+dfsg'
make[2]: Leaving directory '/<<BUILDDIR>>/libseqlib-1.1.2+dfsg'
make[1]: Leaving directory '/<<BUILDDIR>>/libseqlib-1.1.2+dfsg'
dh_auto_test -a
make -j1 check VERBOSE=1
make[1]: Entering directory '/<<BUILDDIR>>/libseqlib-1.1.2+dfsg'
Making check in src
make[2]: Entering directory '/<<BUILDDIR>>/libseqlib-1.1.2+dfsg/src'
make[2]: Nothing to be done for 'check'.
make[2]: Leaving directory '/<<BUILDDIR>>/libseqlib-1.1.2+dfsg/src'
make[2]: Entering directory '/<<BUILDDIR>>/libseqlib-1.1.2+dfsg'
make[2]: Leaving directory '/<<BUILDDIR>>/libseqlib-1.1.2+dfsg'
make[1]: Leaving directory '/<<BUILDDIR>>/libseqlib-1.1.2+dfsg'
create-stamp debian/debhelper-build-stamp
fakeroot debian/rules binary-arch
dh binary-arch
dh_testroot -a
dh_prep -a
dh_auto_install -a
make -j1 install DESTDIR=/<<BUILDDIR>>/libseqlib-1.1.2\+dfsg/debian/tmp
AM_UPDATE_INFO_DIR=no
make[1]: Entering directory '/<<BUILDDIR>>/libseqlib-1.1.2+dfsg'
echo "mkdir -p bin && cp src/libseqlib.a fermi-lite/libfml.a bwa/libbwa.a
htslib/libhts.a bin"
mkdir -p bin && cp src/libseqlib.a fermi-lite/libfml.a bwa/libbwa.a
htslib/libhts.a bin
make[1]: Leaving directory '/<<BUILDDIR>>/libseqlib-1.1.2+dfsg'
debian/rules override_dh_install
make[1]: Entering directory '/<<BUILDDIR>>/libseqlib-1.1.2+dfsg'
dh_install
# Trick to get also headers moved by d-shlibmove
cp -a SeqLib debian # note: also GenomicRegionCollection.cpp is really needed
by freebayes
d-shlibmove --commit \
--multiarch \
--devunversioned \
--exclude-la \
--movedev debian/SeqLib usr/include \
src/.libs/libseqlib.so
Library package automatic movement utility
--> zlib1g-dev package exists.
set -e
install -d -m 755 debian/libseqlib-dev/usr/lib/x86_64-linux-gnu
install -d -m 755 debian/libseqlib1/usr/lib/x86_64-linux-gnu
mv src/.libs/libseqlib.a debian/libseqlib-dev/usr/lib/x86_64-linux-gnu
mv src/.libs/libseqlib.so debian/libseqlib-dev/usr/lib/x86_64-linux-gnu
mv /<<BUILDDIR>>/libseqlib-1.1.2+dfsg/src/.libs/libseqlib.so.1
debian/libseqlib1/usr/lib/x86_64-linux-gnu
mv /<<BUILDDIR>>/libseqlib-1.1.2+dfsg/src/.libs/libseqlib.so.1.0.0
debian/libseqlib1/usr/lib/x86_64-linux-gnu
PKGDEV=libseqlib-dev
PKGSHL=libseqlib1
install -d -m 755 debian/libseqlib-dev/usr/include
mv debian/SeqLib debian/libseqlib-dev/usr/include
mkdir -p
/<<BUILDDIR>>/libseqlib-1.1.2+dfsg/debian/libseqlib-dev/usr/lib/x86_64-linux-gnu/pkgconfig
mv libseqlib.pc
/<<BUILDDIR>>/libseqlib-1.1.2+dfsg/debian/libseqlib-dev/usr/lib/x86_64-linux-gnu/pkgconfig
make[1]: Leaving directory '/<<BUILDDIR>>/libseqlib-1.1.2+dfsg'
dh_installdocs -a
dh_installchangelogs -a
dh_perl -a
dh_link -a
dh_strip_nondeterminism -a
dh_compress -a
dh_fixperms -a
dh_missing -a
dh_strip -a
dh_makeshlibs -a
dpkg-gensymbols: warning: some new symbols appeared in the symbols file: see
diff output below
dpkg-gensymbols: error: some symbols or patterns disappeared in the symbols
file: see diff output below
dpkg-gensymbols: warning: debian/libseqlib1/DEBIAN/symbols doesn't match
completely debian/libseqlib1.symbols
--- debian/libseqlib1.symbols (libseqlib1_1.1.2+dfsg-2_amd64)
+++ dpkg-gensymbols768fxC 2019-02-26 19:47:16.636319594 +0000
@@ -108,8 +108,8 @@
_ZN6SeqLib6Filter10ReadFilterD1Ev@Base 1.1.1+dfsg
_ZN6SeqLib6Filter10ReadFilterD2Ev@Base 1.1.1+dfsg
_ZN6SeqLib6Filter11AhoCorasick12TrieFromFileERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEE@Base
1.1.1+dfsg
- _ZN6SeqLib6Filter11AhoCorasickD1Ev@Base 1.1.1+dfsg
- _ZN6SeqLib6Filter11AhoCorasickD2Ev@Base 1.1.1+dfsg
+#MISSING: 1.1.2+dfsg-2# _ZN6SeqLib6Filter11AhoCorasickD1Ev@Base 1.1.1+dfsg
+#MISSING: 1.1.2+dfsg-2# _ZN6SeqLib6Filter11AhoCorasickD2Ev@Base 1.1.1+dfsg
_ZN6SeqLib6Filter12AbstractRule12addMotifRuleERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEb@Base
1.1.1+dfsg
_ZN6SeqLib6Filter12AbstractRule12parseSeqLineERKN4Json5ValueE@Base 1.1.1+dfsg
_ZN6SeqLib6Filter12AbstractRule12parseSubLineERKN4Json5ValueE@Base 1.1.1+dfsg
@@ -235,9 +235,9 @@
_ZNK6SeqLib9BamRecord11CountNBasesEv@Base 1.1.1+dfsg
_ZNK6SeqLib9BamRecord11PositionEndEv@Base 1.1.2+dfsg
_ZNK6SeqLib9BamRecord14GetSmartIntTagERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEE@Base
1.1.1+dfsg
-#MISSING: 1.1.2+dfsg-1# _ZNK6SeqLib9BamRecord14ParseReadGroupB5cxx11Ev@Base
1.1.1+dfsg
+ _ZNK6SeqLib9BamRecord14ParseReadGroupB5cxx11Ev@Base 1.1.2+dfsg-2
_ZNK6SeqLib9BamRecord15AsGenomicRegionEv@Base 1.1.1+dfsg
-#MISSING: 1.1.2+dfsg-1# _ZNK6SeqLib9BamRecord15PairOrientationEv@Base
1.1.1+dfsg
+ _ZNK6SeqLib9BamRecord15PairOrientationEv@Base 1.1.2+dfsg-2
_ZNK6SeqLib9BamRecord15PositionEndMateEv@Base 1.1.2+dfsg
_ZNK6SeqLib9BamRecord15QualitySequenceB5cxx11Ev@Base 1.1.1+dfsg
_ZNK6SeqLib9BamRecord17GetSmartDoubleTagERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEE@Base
1.1.1+dfsg
@@ -259,6 +259,7 @@
_ZNKSt10_HashtableINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESt4pairIKS5_N6SeqLib4_BamEESaISA_ENSt8__detail10_Select1stESt8equal_toIS5_ESt4hashIS5_ENSC_18_Mod_range_hashingENSC_20_Default_ranged_hashENSC_20_Prime_rehash_policyENSC_17_Hashtable_traitsILb1ELb0ELb1EEEE5countERS7_@Base
1.1.1+dfsg
_ZNKSt10_HashtableINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESt4pairIKS5_iESaIS8_ENSt8__detail10_Select1stESt8equal_toIS5_ESt4hashIS5_ENSA_18_Mod_range_hashingENSA_20_Default_ranged_hashENSA_20_Prime_rehash_policyENSA_17_Hashtable_traitsILb1ELb0ELb1EEEE19_M_find_before_nodeEmRS7_m@Base
1.1.1+dfsg
_ZNKSt5ctypeIcE8do_widenEc@Base 1.1.1+dfsg
+ _ZNKSt6vectorIN6SeqLib13GenomicRegionESaIS1_EE12_M_check_lenEmPKc@Base
1.1.2+dfsg-2
_ZNSt10_HashtableINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESt4pairIKS5_N6SeqLib4_BamEESaISA_ENSt8__detail10_Select1stESt8equal_toIS5_ESt4hashIS5_ENSC_18_Mod_range_hashingENSC_20_Default_ranged_hashENSC_20_Prime_rehash_policyENSC_17_Hashtable_traitsILb1ELb0ELb1EEEE10_M_emplaceIJS6_IS5_S9_EEEES6_INSC_14_Node_iteratorISA_Lb0ELb1EEEbESt17integral_constantIbLb1EEDpOT_@Base
1.1.1+dfsg
#MISSING: 1.1.2+dfsg-1#
_ZNSt10_HashtableINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESt4pairIKS5_N6SeqLib4_BamEESaISA_ENSt8__detail10_Select1stESt8equal_toIS5_ESt4hashIS5_ENSC_18_Mod_range_hashingENSC_20_Default_ranged_hashENSC_20_Prime_rehash_policyENSC_17_Hashtable_traitsILb1ELb0ELb1EEEE21_M_insert_unique_nodeEmmPNSC_10_Hash_nodeISA_Lb1EEE@Base
1.1.1+dfsg
_ZNSt10_HashtableINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESt4pairIKS5_N6SeqLib4_BamEESaISA_ENSt8__detail10_Select1stESt8equal_toIS5_ESt4hashIS5_ENSC_18_Mod_range_hashingENSC_20_Default_ranged_hashENSC_20_Prime_rehash_policyENSC_17_Hashtable_traitsILb1ELb0ELb1EEEE21_M_insert_unique_nodeEmmPNSC_10_Hash_nodeISA_Lb1EEEm@Base
1.1.2+dfsg
@@ -270,11 +271,13 @@
_ZNSt10_HashtableINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESt4pairIKS5_iESaIS8_ENSt8__detail10_Select1stESt8equal_toIS5_ESt4hashIS5_ENSA_18_Mod_range_hashingENSA_20_Default_ranged_hashENSA_20_Prime_rehash_policyENSA_17_Hashtable_traitsILb1ELb0ELb1EEEED2Ev@Base
1.1.1+dfsg
_ZNSt10_HashtableIiSt4pairIKiN6SeqLib13TIntervalTreeIimEEESaIS5_ENSt8__detail10_Select1stESt8equal_toIiESt4hashIiENS7_18_Mod_range_hashingENS7_20_Default_ranged_hashENS7_20_Prime_rehash_policyENS7_17_Hashtable_traitsILb0ELb0ELb1EEEE10_M_emplaceIJS0_IiS4_EEEES0_INS7_14_Node_iteratorIS5_Lb0ELb0EEEbESt17integral_constantIbLb1EEDpOT_@Base
1.1.2+dfsg
#MISSING: 1.1.2+dfsg-1#
_ZNSt10_HashtableIiSt4pairIKiN6SeqLib13TIntervalTreeIimEEESaIS5_ENSt8__detail10_Select1stESt8equal_toIiESt4hashIiENS7_18_Mod_range_hashingENS7_20_Default_ranged_hashENS7_20_Prime_rehash_policyENS7_17_Hashtable_traitsILb0ELb0ELb1EEEE21_M_insert_unique_nodeEmmPNS7_10_Hash_nodeIS5_Lb0EEE@Base
1.1.1+dfsg
+
_ZNSt10_HashtableIiSt4pairIKiN6SeqLib13TIntervalTreeIimEEESaIS5_ENSt8__detail10_Select1stESt8equal_toIiESt4hashIiENS7_18_Mod_range_hashingENS7_20_Default_ranged_hashENS7_20_Prime_rehash_policyENS7_17_Hashtable_traitsILb0ELb0ELb1EEEE21_M_insert_unique_nodeEmmPNS7_10_Hash_nodeIS5_Lb0EEEm@Base
1.1.2+dfsg-2
_ZNSt10_HashtableIiSt4pairIKiN6SeqLib13TIntervalTreeIimEEESaIS5_ENSt8__detail10_Select1stESt8equal_toIiESt4hashIiENS7_18_Mod_range_hashingENS7_20_Default_ranged_hashENS7_20_Prime_rehash_policyENS7_17_Hashtable_traitsILb0ELb0ELb1EEEE5clearEv@Base
1.1.1+dfsg
_ZNSt10_HashtableIiSt4pairIKiN6SeqLib13TIntervalTreeIimEEESaIS5_ENSt8__detail10_Select1stESt8equal_toIiESt4hashIiENS7_18_Mod_range_hashingENS7_20_Default_ranged_hashENS7_20_Prime_rehash_policyENS7_17_Hashtable_traitsILb0ELb0ELb1EEEE9_M_rehashEmRKm@Base
1.1.1+dfsg
_ZNSt10_HashtableIiSt4pairIKiN6SeqLib13TIntervalTreeIimEEESaIS5_ENSt8__detail10_Select1stESt8equal_toIiESt4hashIiENS7_18_Mod_range_hashingENS7_20_Default_ranged_hashENS7_20_Prime_rehash_policyENS7_17_Hashtable_traitsILb0ELb0ELb1EEEED1Ev@Base
1.1.1+dfsg
_ZNSt10_HashtableIiSt4pairIKiN6SeqLib13TIntervalTreeIimEEESaIS5_ENSt8__detail10_Select1stESt8equal_toIiESt4hashIiENS7_18_Mod_range_hashingENS7_20_Default_ranged_hashENS7_20_Prime_rehash_policyENS7_17_Hashtable_traitsILb0ELb0ELb1EEEED2Ev@Base
1.1.1+dfsg
#MISSING: 1.1.2+dfsg-1#
_ZNSt10_HashtableIiSt4pairIKiSt6vectorIN6SeqLib9TIntervalIimEESaIS5_EEESaIS8_ENSt8__detail10_Select1stESt8equal_toIiESt4hashIiENSA_18_Mod_range_hashingENSA_20_Default_ranged_hashENSA_20_Prime_rehash_policyENSA_17_Hashtable_traitsILb0ELb0ELb1EEEE21_M_insert_unique_nodeEmmPNSA_10_Hash_nodeIS8_Lb0EEE@Base
1.1.1+dfsg
+
_ZNSt10_HashtableIiSt4pairIKiSt6vectorIN6SeqLib9TIntervalIimEESaIS5_EEESaIS8_ENSt8__detail10_Select1stESt8equal_toIiESt4hashIiENSA_18_Mod_range_hashingENSA_20_Default_ranged_hashENSA_20_Prime_rehash_policyENSA_17_Hashtable_traitsILb0ELb0ELb1EEEE21_M_insert_unique_nodeEmmPNSA_10_Hash_nodeIS8_Lb0EEEm@Base
1.1.2+dfsg-2
_ZNSt10_HashtableIiSt4pairIKiSt6vectorIN6SeqLib9TIntervalIimEESaIS5_EEESaIS8_ENSt8__detail10_Select1stESt8equal_toIiESt4hashIiENSA_18_Mod_range_hashingENSA_20_Default_ranged_hashENSA_20_Prime_rehash_policyENSA_17_Hashtable_traitsILb0ELb0ELb1EEEE9_M_rehashEmRKm@Base
1.1.1+dfsg
_ZNSt10_HashtableIiSt4pairIKiSt6vectorIN6SeqLib9TIntervalIimEESaIS5_EEESaIS8_ENSt8__detail10_Select1stESt8equal_toIiESt4hashIiENSA_18_Mod_range_hashingENSA_20_Default_ranged_hashENSA_20_Prime_rehash_policyENSA_17_Hashtable_traitsILb0ELb0ELb1EEEED1Ev@Base
1.1.1+dfsg
_ZNSt10_HashtableIiSt4pairIKiSt6vectorIN6SeqLib9TIntervalIimEESaIS5_EEESaIS8_ENSt8__detail10_Select1stESt8equal_toIiESt4hashIiENSA_18_Mod_range_hashingENSA_20_Default_ranged_hashENSA_20_Prime_rehash_policyENSA_17_Hashtable_traitsILb0ELb0ELb1EEEED2Ev@Base
1.1.1+dfsg
@@ -343,7 +346,7 @@
_ZNSt4pairINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEN6SeqLib4_BamEED2Ev@Base
1.1.1+dfsg
_ZNSt5dequeIPN12aho_corasick5stateIcEESaIS3_EE16_M_push_back_auxIJRKS3_EEEvDpOT_@Base
1.1.1+dfsg
_ZNSt6vectorIN12aho_corasick7ahoemitIcEESaIS2_EE17_M_realloc_insertIJRKS2_EEEvN9__gnu_cxx17__normal_iteratorIPS2_S4_EEDpOT_@Base
1.1.1+dfsg
-
_ZNSt6vectorIN12aho_corasick7ahoemitIcEESaIS2_EE17_M_realloc_insertIJS2_EEEvN9__gnu_cxx17__normal_iteratorIPS2_S4_EEDpOT_@Base
1.1.2+dfsg
+#MISSING: 1.1.2+dfsg-2#
_ZNSt6vectorIN12aho_corasick7ahoemitIcEESaIS2_EE17_M_realloc_insertIJS2_EEEvN9__gnu_cxx17__normal_iteratorIPS2_S4_EEDpOT_@Base
1.1.2+dfsg
_ZNSt6vectorIN12aho_corasick7ahoemitIcEESaIS2_EE8_M_eraseEN9__gnu_cxx17__normal_iteratorIPS2_S4_EE@Base
1.1.1+dfsg
_ZNSt6vectorIN12aho_corasick7ahoemitIcEESaIS2_EE9push_backERKS2_@Base
1.1.1+dfsg
_ZNSt6vectorIN12aho_corasick7ahoemitIcEESaIS2_EEC1ERKS4_@Base 1.1.1+dfsg
@@ -364,7 +367,7 @@
_ZNSt6vectorIN6SeqLib6Filter12AbstractRuleESaIS2_EE17_M_realloc_insertIJRKS2_EEEvN9__gnu_cxx17__normal_iteratorIPS2_S4_EEDpOT_@Base
1.1.1+dfsg
_ZNSt6vectorIN6SeqLib9BamRecordESaIS1_EE17_M_realloc_insertIJRKS1_EEEvN9__gnu_cxx17__normal_iteratorIPS1_S3_EEDpOT_@Base
1.1.1+dfsg
_ZNSt6vectorIN6SeqLib9TIntervalIimEESaIS2_EE17_M_realloc_insertIJRKS2_EEEvN9__gnu_cxx17__normal_iteratorIPS2_S4_EEDpOT_@Base
1.1.1+dfsg
-
_ZNSt6vectorIN6SeqLib9TIntervalIimEESaIS2_EE17_M_realloc_insertIJS2_EEEvN9__gnu_cxx17__normal_iteratorIPS2_S4_EEDpOT_@Base
1.1.2+dfsg
+#MISSING: 1.1.2+dfsg-2#
_ZNSt6vectorIN6SeqLib9TIntervalIimEESaIS2_EE17_M_realloc_insertIJS2_EEEvN9__gnu_cxx17__normal_iteratorIPS2_S4_EEDpOT_@Base
1.1.2+dfsg
_ZNSt6vectorIN6SeqLib9TIntervalIimEESaIS2_EEaSERKS4_@Base 1.1.1+dfsg
_ZNSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EE12emplace_backIJS5_EEEvDpOT_@Base
1.1.1+dfsg
_ZNSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EE17_M_realloc_insertIJRKS5_EEEvN9__gnu_cxx17__normal_iteratorIPS5_S7_EEDpOT_@Base
1.1.1+dfsg
@@ -387,7 +390,7 @@
_ZNSt7__cxx1115basic_stringbufIcSt11char_traitsIcESaIcEED2Ev@Base 1.1.1+dfsg
_ZNSt7__cxx114listIN6SeqLib13GenomicRegionESaIS2_EE4sortEv@Base 1.1.1+dfsg
_ZNSt7__cxx114listIN6SeqLib13GenomicRegionESaIS2_EE5mergeEOS4_@Base 1.1.1+dfsg
-
_ZNSt8_Rb_treeIN12aho_corasick7ahoemitIcEES2_St9_IdentityIS2_ESt4lessIS2_ESaIS2_EE16_M_insert_uniqueIRKS2_EESt4pairISt17_Rb_tree_iteratorIS2_EbEOT_@Base
1.1.2+dfsg
+#MISSING: 1.1.2+dfsg-2#
_ZNSt8_Rb_treeIN12aho_corasick7ahoemitIcEES2_St9_IdentityIS2_ESt4lessIS2_ESaIS2_EE16_M_insert_uniqueIRKS2_EESt4pairISt17_Rb_tree_iteratorIS2_EbEOT_@Base
1.1.2+dfsg
_ZNSt8_Rb_treeIN12aho_corasick7ahoemitIcEES2_St9_IdentityIS2_ESt4lessIS2_ESaIS2_EE8_M_eraseEPSt13_Rb_tree_nodeIS2_E@Base
1.1.1+dfsg
_ZNSt8_Rb_treeINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEES5_St9_IdentityIS5_ESt4lessIS5_ESaIS5_EE16_M_insert_uniqueIRKS5_EESt4pairISt17_Rb_tree_iteratorIS5_EbEOT_@Base
1.1.1+dfsg
_ZNSt8_Rb_treeINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEES5_St9_IdentityIS5_ESt4lessIS5_ESaIS5_EE7_M_copyINSB_11_Alloc_nodeEEEPSt13_Rb_tree_nodeIS5_EPKSF_PSt18_Rb_tree_node_baseRT_@Base
1.1.1+dfsg
@@ -406,7 +409,7 @@
_ZSt13__adjust_heapIN9__gnu_cxx17__normal_iteratorIPN6SeqLib11PlottedReadESt6vectorIS3_SaIS3_EEEElS3_NS0_5__ops15_Iter_less_iterEEvT_T0_SC_T1_T2_@Base
1.1.1+dfsg
_ZSt13__adjust_heapIN9__gnu_cxx17__normal_iteratorIPN6SeqLib13GenomicRegionESt6vectorIS3_SaIS3_EEEElS3_NS0_5__ops15_Iter_less_iterEEvT_T0_SC_T1_T2_@Base
1.1.1+dfsg
_ZSt13__adjust_heapIN9__gnu_cxx17__normal_iteratorIPN6SeqLib9TIntervalIimEESt6vectorIS4_SaIS4_EEEElS4_NS0_5__ops15_Iter_comp_iterINS2_19IntervalStartSorterIimEEEEEvT_T0_SG_T1_T2_@Base
1.1.1+dfsg
-
_ZSt13__heap_selectIN9__gnu_cxx17__normal_iteratorIPN6SeqLib13GenomicRegionESt6vectorIS3_SaIS3_EEEENS0_5__ops15_Iter_less_iterEEvT_SB_SB_T0_@Base
1.1.2+dfsg
+#MISSING: 1.1.2+dfsg-2#
_ZSt13__heap_selectIN9__gnu_cxx17__normal_iteratorIPN6SeqLib13GenomicRegionESt6vectorIS3_SaIS3_EEEENS0_5__ops15_Iter_less_iterEEvT_SB_SB_T0_@Base
1.1.2+dfsg
_ZSt16__insertion_sortIN9__gnu_cxx17__normal_iteratorIPN12aho_corasick7ahoemitIcEESt6vectorIS4_SaIS4_EEEENS0_5__ops15_Iter_comp_iterIZNS2_13interval_treeIS4_E15remove_overlapsERKS8_EUlRKS4_SH_E0_EEEvT_SK_T0_@Base
1.1.1+dfsg
_ZSt16__insertion_sortIN9__gnu_cxx17__normal_iteratorIPN12aho_corasick7ahoemitIcEESt6vectorIS4_SaIS4_EEEENS0_5__ops15_Iter_comp_iterIZNS2_13interval_treeIS4_E15remove_overlapsERKS8_EUlRKS4_SH_E_EEEvT_SK_T0_@Base
1.1.1+dfsg
_ZSt16__insertion_sortIN9__gnu_cxx17__normal_iteratorIPN6SeqLib11PlottedReadESt6vectorIS3_SaIS3_EEEENS0_5__ops15_Iter_less_iterEEvT_SB_T0_@Base
1.1.1+dfsg
dh_makeshlibs: failing due to earlier errors
make: *** [debian/rules:10: binary-arch] Error 2
dpkg-buildpackage: error: fakeroot debian/rules binary-arch subprocess returned
exit status 2
--------------------------------------------------------------------------------
The build was made in my autobuilder with "dpkg-buildpackage -B"
and it also fails here:
https://tests.reproducible-builds.org/debian/rb-pkg/unstable/amd64/libseqlib.html
If this is really a bug in one of the build-depends, please use reassign and
affects,
so that this is still visible in the BTS web page for this package.
Thanks.
