Hi this is concerning the workflow: https://github.com/gatk-workflows/gatk4-somatic-snvs-indels
Not sure where to ask but I thought I try here first. I'm trying to run the example in the json locally. All files have been donwloaded locally and using cromwell-49.jar. However the last merging step seem to have this error I cannot dicipher and wondering if someone can help or point me to the right direction?
the error is this:
cromwell.backend.standard.StandardAsyncExecutionActor$$anon$2: Failed to evaluate job outputs:
Bad output 'M2.tumor_sample': Failed to read_string("tumor_name.txt") (reason 1 of 1): Futures timed out after [60 seconds]
Bad output 'M2.normal_sample': Failed to read_string("normal_name.txt") (reason 1 of 1): Futures timed out after [60 seconds]
so its strange because the "tumor_name.txt" is literally a string and in each sub directory I can clearly see that there are these files. Anyone know what is going on here? thanks.
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