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benedictpaten / marginPhase

MIT License
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Getting generic error while running #17

Open gf777 opened 5 years ago

gf777 commented 5 years ago

Hi Benedict,

I have been trying to run the software. Apparently everything works well (compiling, etc.) but if try to run it after a while that the tool is running I get this error:

Set log level to INFO

Parsing model parameters from file: /rugpfs/fs0/vgl/store/gformenti/bin/marginPhase/params/params.pacbio.json Parsing input reads from file: ../pb_aligned/all_sorted.bam /var/spool/slurmd/job9041593/slurm_script: line 3: 62563 Killed marginPhase ../pb_aligned/all_sorted.bam ../GCA_003692655.1_Chelidonia_genomic.fna /rugpfs/fs0/vgl/store/gformenti/bin/marginPhase/params/params.pacbio.json

And no further detail.

Thank you in advance for your help.

Best,

Giulio

lachlancoin commented 2 years ago

Hi Benedict, We are running into a similar problem, the job is killed without any further information. Any tips would be useful. We don't think its a memory issue, we have 200Gb RAM, and just doing a single chromosome.