Control: tags -1 help Hi,
as it can be seen on the recent build log of clustalo on mips[1] the build fails with # Run additional test from python-biopython package to verify that # this will work as well src/clustalo -i debian/tests/biopython_testdata/f002 --guidetree-out temp_test.dnd -o temp_test.aln --outfmt clustal --force make[1]: *** [debian/rules:25: override_dh_auto_test-arch] Bus error I injected that extra test since this very test failed inside the python-biopython package. To track it down I logged in to eller.debian.org tried to build the package and was able to reproduce the error. Thus I fired up gdb in this session and got: (sid_mipsel-dchroot)tille@eller:~/clustalo-1.2.4$ gdb --args src/clustalo -i debian/tests/biopython_testdata/f002 --guidetree-out temp_test.dnd -o temp_test.aln --outfmt clustal --force GNU gdb (Debian 9.1-3) 9.1 ... Reading symbols from src/clustalo... (gdb) run Starting program: /home/tille/clustalo-1.2.4/src/clustalo -i debian/tests/biopython_testdata/f002 --guidetree-out temp_test.dnd -o temp_test.aln --outfmt clustal --force [Thread debugging using libthread_db enabled] Using host libthread_db library "/lib/mipsel-linux-gnu/libthread_db.so.1". Program received signal SIGBUS, Bus error. 0x5556a188 in PairDistances (distmat=0x7fff278c, mseq=0x55692a38, pairdist_type=<optimized out>, bPercID=<optimized out>, istart=0, iend=3, jstart=0, jend=3, fdist_in=0x0, fdist_out=0x0) at pair_dist.c:346 346 NewProgress(&prProgress, LogGetFP(&rLog, LOG_INFO), (gdb) So it seems the bus error occures somehow here: https://salsa.debian.org/med-team/clustalo/-/blob/master/src/clustal/pair_dist.c#L346 I have no idea how to continue from here. I'm hoping that someone with some more detailed knowledge might have a clue how to fix this issue on mipsel. Otherwise I personally do not see any better solution than to remove clustalo from mipsel architecture. Kind regards Andreas. [1] https://buildd.debian.org/status/fetch.php?pkg=clustalo&arch=mipsel&ver=1.2.4-5&stamp=1586883766&raw=0 -- http://fam-tille.de
