Control: reopen -1 Control: tags -1 ftbfs Control: retitle -1 jellyfish FTBFS with -I in builddir
On Thu, Dec 03, 2020 at 05:06:00PM +0100, Andreas Tille wrote: > Package: jellyfish > Version: 2.3.0-7 > Severity: important > > Hi, > > jellyfish does not build on some architectures ( mips64el [1], mipsel, > ppc64el and s390x ): > > mips64el-linux-gnuabi64-gcc -pthread -Wno-unused-result -Wsign-compare > -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat > -Werror=format-security -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. > -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time > -D_FORTIFY_SOURCE=2 -fPIC > -I/build/jellyfishwEbe4/jellyfish-2.3.0/debian/tmp//usr/include/jellyfish-2.3.0 > -I/usr/include/python3.8 -c swig_wrap.cpp -o > build/temp.linux-mips64el-3.8/swig_wrap.o -std=c++0x > swig_wrap.cpp:2826:10: fatal error: jellyfish/mer_dna.hpp: No such file or > directory > 2826 | #include <jellyfish/mer_dna.hpp> > | ^~~~~~~~~~~~~~~~~~~~~~~ > compilation terminated. > error: command 'mips64el-linux-gnuabi64-gcc' failed with exit status 1 > E: pybuild pybuild:353: build: plugin distutils failed with: exit code=1: > /usr/bin/python3.8 setup.py build build_ext -L/<<PKGBUILDDIR>>/.libs > I: pybuild base:232: /usr/bin/python3 setup.py build build_ext > -L/<<PKGBUILDDIR>>/.libs > running build > running build_py > copying dna_jellyfish.py -> > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9_dna_jellyfish/build > running build_ext > building '_dna_jellyfish' extension > creating build/temp.linux-mips64el-3.9 > mips64el-linux-gnuabi64-gcc -pthread -Wno-unused-result -Wsign-compare > -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat > -Werror=format-security -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. > -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time > -D_FORTIFY_SOURCE=2 -fPIC > -I/build/jellyfishwEbe4/jellyfish-2.3.0/debian/tmp//usr/include/jellyfish-2.3.0 > -I/usr/include/python3.9 -c swig_wrap.cpp -o > build/temp.linux-mips64el-3.9/swig_wrap.o -std=c++0x > swig_wrap.cpp:2826:10: fatal error: jellyfish/mer_dna.hpp: No such file or > directory > 2826 | #include <jellyfish/mer_dna.hpp> > | ^~~~~~~~~~~~~~~~~~~~~~~ > compilation terminated. > error: command '/usr/bin/mips64el-linux-gnuabi64-gcc' failed with exit code 1 > > > Any idea what might be wrong here? I: NOTICE: Log filtering will replace 'build/jellyfish-IwEbe4/jellyfish-2.3.0' with '<<PKGBUILDDIR>>' I: NOTICE: Log filtering will replace 'build/jellyfish-IwEbe4' with '<<BUILDDIR>>' Compare with -I/build/jellyfishwEbe4/jellyfish-2.3.0/debian/tmp//usr/include/jellyfish-2.3.0 jellyfish-IwEbe4 -> jellyfishwEbe4 This looks like a variant of the -L problem handled with debian/patches/fix_replacement_of_-L_option.patch > Kind regards > > Andreas. >... cu Adrian