On Wed, 2022-12-07 at 14:07 +0200, Andrius Merkys wrote: > Hello, > > On 2022-12-07 10:02, olivier sallou wrote:> Is it really failing ? > [1] > link only shows failure due to max execution > > time in CI and job was killed by CI. > > seqan2 indeed builds (it takes many hours on single CPU on > barriere.d.o), but fails most of its tests with the following: > > a bytes-like object is required, not 'str' <class 'TypeError'>
this is a classic error when switching from python2 to python3... so tests should be updated to work with python3... or be dropped as python2 only.... > > I gave a quick glance at 'app_test_yara': > > $ /usr/bin/python3 > "/home/merkys/seqan2-2.4.0+dfsg/apps/yara/tests/run_tests.py" > "/home/merkys/seqan2-2.4.0+dfsg" > "/home/merkys/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu" > Executing test for Yara > ============================== > > /home/merkys/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/yara_indexer > /home/merkys/seqan2-2.4.0+dfsg/apps/yara/tests/input/adeno-genome.fa > -o > /tmp/tmpb51ofmfz/adeno-genome OK > Error when trying to compare > /home/merkys/seqan2-2.4.0+dfsg/apps/yara/tests/gold/adeno- > reads_1.t1.sam > to /tmp/tmpb51ofmfz/adeno-reads_1.t1.sam: a bytes-like object is > required, not 'str' <class 'TypeError'> > /home/merkys/seqan2-2.4.0+dfsg/obj-x86_64-linux-gnu/bin/yara_mapper > /home/merkys/seqan2-2.4.0+dfsg/apps/yara/tests/gold/adeno-genome > /home/merkys/seqan2-2.4.0+dfsg/apps/yara/tests/input/adeno-reads_1.fa > -o > /tmp/tmpb51ofmfz/adeno-reads_1.t1.sam --threads 1 FAILED > DELETING TEMP DIR /tmp/tmpb51ofmfz > ============================== > total tests: 2 > failed tests: 1 > successful tests: 1 > ============================== > > It seems that one of the required output files is not produced. Any > idea > why? > > Andrius > > > [1]https://salsa.debian.org/med-team/seqan2/-/jobs/3622896 > -- Olivier Sallou Univ Rennes, Inria, CNRS, IRISA Irisa, Campus de Beaulieu F-35042 RENNES - FRANCE Tel: 02.99.84.71.95 gpg key id: 4096R/326D8438 (keyring.debian.org) Key fingerprint = 5FB4 6F83 D3B9 5204 6335 D26D 78DC 68DB 326D 8438
