'list' object has no attribute 'finalize'
Closed this issue · 2 comments
francicco commented
Hi,
running mikado pick I'm getting this error:
Traceback (most recent call last):
File "/sw/lang/anaconda.3.8-2020.07/lib/python3.8/multiprocessing/process.py", line 315, in _bootstrap
self.run()
File "/work/tk19812/software/mikado-2.3.0/venv/lib/python3.8/site-packages/Mikado/picking/loci_processer.py", line 492, in run
stranded_loci = self.analyse_locus(slocus, counter)
File "/work/tk19812/software/mikado-2.3.0/venv/lib/python3.8/site-packages/Mikado/picking/loci_processer.py", line 270, in analyse_locus
stranded_locus.define_loci()
File "/work/tk19812/software/mikado-2.3.0/venv/lib/python3.8/site-packages/Mikado/loci/superlocus.py", line 1168, in define_loci
self.define_alternative_splicing()
File "/work/tk19812/software/mikado-2.3.0/venv/lib/python3.8/site-packages/Mikado/loci/superlocus.py", line 1311, in define_alternative_splicing
self.loci[lid].add_transcript_to_locus(self.transcripts[tid])
File "/work/tk19812/software/mikado-2.3.0/venv/lib/python3.8/site-packages/Mikado/loci/locus.py", line 543, in add_transcript_to_locus
is_alternative, ccode, _ = self.is_alternative_splicing(transcript)
File "/work/tk19812/software/mikado-2.3.0/venv/lib/python3.8/site-packages/Mikado/loci/locus.py", line 881, in is_alternative_splicing
main_result, _ = Assigner.compare(other._selected_orf_transcript,
File "/work/tk19812/software/mikado-2.3.0/venv/lib/python3.8/site-packages/Mikado/scales/assignment/assigner.py", line 819, in compare
return c_compare(prediction,
File "Mikado/scales/contrast.pyx", line 239, in Mikado.scales.contrast.compare
File "Mikado/scales/contrast.pyx", line 288, in Mikado.scales.contrast.compare
AttributeError: 'list' object has no attribute 'finalize'
Is there a problem with the installation?
Cheers
F
ljyanesm commented
Dear @francicco,
It does not seem to be an issue with the installation but with some internal workings in Mikado.
Could extract a minimal reproducible example of this behaviour so I can have a look?
Many thanks
francicco commented
I think it was my mistake. I fixed it
Cheers
F