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hpeter0803 / viromes

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Missing CRISPRCas prediction rule #8

Open susheelbhanu opened 2 years ago

susheelbhanu commented 2 years ago

The rule for spacepharer is setup based on the exisiting SLURM script, however, I think we're missing a rule for the crisprcas prediction needed for this tool.

@michoug Did you run minced or something else?

File in reference: https://github.com/hpeter0803/viromes/blob/main/workflow/rules/spacepharer.smk

michoug commented 2 years ago

Yes, forgot to push the updated scriptSpacePharer file, will update the rule

susheelbhanu commented 2 years ago

Yes, forgot to push the updated scriptSpacePharer file, will update the rule

Thank you!!

susheelbhanu commented 1 year ago

Spacepharer failing to run through. See https://github.com/soedinglab/spacepharer/issues/8

PHIST failing with the following error:

Traceback (most recent call last):
  File "/mnt/irisgpfs/projects/nomis/assemblies/viromes/workflow/rules/../../deps/phist/phist.py", line 78, in <module>
    oh = open(lst_path, 'w')
FileNotFoundError: [Errno 2] No such file or directory: '/mnt/irisgpfs/projects/nomis/assemblies/virome_results/phist/vir.list'

See https://github.com/refresh-bio/PHIST/issues/9