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This issue has come up here before, but I can't figure out what the problem might be. Any help would be much appreciated.
[2025-01-19 17:52:23.499] [svc] [info] Processing contig: k121_43
[2025-01-19 17:52:23.499] [svc] [info] Getting per-read characteristics
Traceback (most recent call last):
File "/usr/local/bin/resmico", line 10, in <module>
sys.exit(main())
File "/usr/local/lib/python3.10/site-packages/resmico/__main__.py", line 52, in main
args.func(args)
File "/usr/local/lib/python3.10/site-packages/resmico/commands/bam2feat.py", line 80, in main
bam2feat.main(args)
File "/usr/local/lib/python3.10/site-packages/resmico/bam2feat.py", line 277, in main
feat_files = run_bam2feat(bam_fasta, exe, args)
File "/usr/local/lib/python3.10/site-packages/resmico/bam2feat.py", line 250, in run_bam2feat
return [x for x in res]
File "/usr/local/lib/python3.10/site-packages/resmico/bam2feat.py", line 250, in <listcomp>
return [x for x in res]
File "/usr/local/lib/python3.10/site-packages/resmico/bam2feat.py", line 222, in _run_bam2feat
bam2feat(bam_sub, ref_tmp, outdir_feat, exe['bam2feat'], args)
File "/usr/local/lib/python3.10/site-packages/resmico/bam2feat.py", line 186, in bam2feat
run_cmd(cmd)
File "/usr/local/lib/python3.10/site-packages/resmico/bam2feat.py", line 102, in run_cmd
raise ValueError('Return code: {}'.format(rc))
ValueError: Return code: -11
I checked contig k121_43 and there are no weird characters in it (no Ns, nothing besides As, Gs, Cs and Ts).
What could be causing this error?
P.S. I'm using version 1.1.1 from Docker, because the image for version 1.2.2 is missing Samtools and won't run without it (as reported here). More specifically, I'm using the following Docker image tag: 1.1.1--py310hc8f18ef_0 from Quay.io: https://quay.io/repository/biocontainers/resmico?tab=tags.
The text was updated successfully, but these errors were encountered:
This issue has come up here before, but I can't figure out what the problem might be. Any help would be much appreciated.
I checked contig
k121_43
and there are no weird characters in it (no Ns, nothing besides As, Gs, Cs and Ts).What could be causing this error?
P.S. I'm using version
1.1.1
from Docker, because the image for version1.2.2
is missing Samtools and won't run without it (as reported here). More specifically, I'm using the following Docker image tag:1.1.1--py310hc8f18ef_0
from Quay.io: https://quay.io/repository/biocontainers/resmico?tab=tags.The text was updated successfully, but these errors were encountered: