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?
Kind regards
Andreas.
[1]
https://buildd.debian.org/status/fetch.php?pkg=jellyfish&arch=mips64el&ver=2.3.0-7&stamp=1607005711&raw=0
-- System Information:
Debian Release: bullseye/sid
APT prefers unstable
APT policy: (500, 'unstable'), (500, 'testing'), (50, 'buildd-unstable'), (1,
'experimental')
Architecture: amd64 (x86_64)
Kernel: Linux 5.9.0-3-amd64 (SMP w/4 CPU threads)
Locale: LANG=de_DE.UTF-8, LC_CTYPE=de_DE.UTF-8 (charmap=UTF-8), LANGUAGE not set
Shell: /bin/sh linked to /usr/bin/dash
Init: systemd (via /run/systemd/system)
LSM: AppArmor: enabled
Versions of packages jellyfish depends on:
ii libc6 2.31-4
ii libgcc-s1 10.2.0-19
ii libhts3 1.11-2
ii libjellyfish-2.0-2 2.3.0-7
ii libstdc++6 10.2.0-19
jellyfish recommends no packages.
jellyfish suggests no packages.
-- no debconf information
