[Debichem-devel] Bug#1144175: promod3: FTBFS: Segmentation fault

[Santiago Vila]

Package: src:promod3
Version: 3.6.0+ds-1
Severity: serious
Tags: ftbfs forky sid

Dear maintainer:

During a rebuild of all packages in unstable, this package failed to build.

Below you will find the last part of the build log (probably the most
relevant part, but not necessarily). If required, the full build log
is available here:

https://people.debian.org/~sanvila/build-logs/202608/

About the archive rebuild: The build was made on virtual machines from AWS,
using sbuild and a reduced chroot with only build-essential packages.

If you cannot reproduce the bug please contact me privately, as I
am willing to provide ssh access to a virtual machine where the bug is
fully reproducible.

If this is really a bug in one of the build-depends, please use
reassign and add an affects on src:promod3, so that this is still
visible in the BTS web page for this package.

Thanks.

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[...]
[ 90%] Generating ../../stage/share/promod3/loop_data/torsion_sampler.dat
[ 91%] Generating ../../stage/share/promod3/loop_data/ff_lookup_charmm.dat
cd /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/loop/data && sh -c PYTHONPATH=/usr/lib/python3/dist-packages:/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/stage/lib/python3.14/site-packages/\ /usr/bin/python3\ '/<<PKGBUILDDIR>>/loop/data/convert_binaries.py'\ '/<<PKGBUILDDIR>>/loop/data/portable_ff_lookup_charmm.dat'\ '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/stage/share/promod3/loop_data/ff_lookup_charmm.dat'\ ForcefieldLookup
cd /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/loop/data && sh -c PYTHONPATH=/usr/lib/python3/dist-packages:/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/stage/lib/python3.14/site-packages/\ /usr/bin/python3\ '/<<PKGBUILDDIR>>/loop/data/convert_binaries.py'\ '/<<PKGBUILDDIR>>/loop/data/portable_torsion_sampler.dat'\ '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/stage/share/promod3/loop_data/torsion_sampler.dat'\ TorsionSampler
Segmentation fault
make[3]: *** [loop/data/CMakeFiles/generate_loop_data_torsion_sampler.dat.dir/build.make:78: stage/share/promod3/loop_data/torsion_sampler.dat] Error 139
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
make[2]: *** [CMakeFiles/Makefile2:2051: loop/data/CMakeFiles/generate_loop_data_torsion_sampler.dat.dir/all] Error 2
make[2]: *** Waiting for unfinished jobs....
Segmentation fault
make[3]: *** [loop/data/CMakeFiles/generate_loop_data_ff_lookup_charmm.dat.dir/build.make:78: stage/share/promod3/loop_data/ff_lookup_charmm.dat] Error 139
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
make[2]: *** [CMakeFiles/Makefile2:2267: loop/data/CMakeFiles/generate_loop_data_ff_lookup_charmm.dat.dir/all] Error 2
make[2]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
make[1]: *** [Makefile:139: all] Error 2
make[1]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
dh_auto_build: error: cd obj-x86_64-linux-gnu && make -j2 INSTALL="install --strip-program=true" VERBOSE=1 returned exit code 2
make: *** [debian/rules:4: binary] Error 25
dpkg-buildpackage: error: debian/rules binary subprocess failed with exit status 2
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