runworkflow.py returns error

Illumina / manta

Structural variant and indel caller for mapped sequencing data

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runworkflow.py returns error #170

Closed shannjiang closed 5 years ago

shannjiang commented 5 years ago

Hi,

I am using manta to call structural variant. ConfigManta.py is working fine but runworkflow.py returns error info as the attached file.

My command for runworkflow.py is in default like this: ${MANTA_ANALYSIS_PATH}/runWorkflow.py -m local -j 8

Manta_runworkflow_error.zip

Could you please help me to resolve the issue?

thanks,

Shan

x-chen commented 5 years ago

The error looks pyflow related. @ctsa might have some insight on it.

ctsa commented 5 years ago

That seems to suggest some kind of filesystem synchronization error -- typically only an issue we would expect for an SGE run. Since this is local, something appears to be wrong with your filesystem: a file written by one process is unavailable to other processes on the same server for over 3 minutes.