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jurhoades

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jurhoades
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  • @SChaluvadi thanks for your response! Just a point of clarification, as far as I know we have never used the notebook feature in FireCloud. My understanding from BITS was that they saw stopped compute engine instances on our GCP project, not FireC…
  • It looks like it did! It must've been a memory issue, even though it didn't complain about running out of memory before. I'll adjust my workflow to give more memory to this task. Thanks for your help!
  • @SChaluvadi I've restarted one of the failed samples here and it is currently running. I tried connecting to the VM but it appears I don't have the right permissions: ERROR: (gcloud.compute.ssh) Could not fetch resource: - Required 'compute.insta…
  • Thanks for looking into this! This task usually runs relatively quickly. On my local machine it ran in an hour. I'm thinking that job timed out because it was stuck and not because it was still doing work, although I can't say for sure. I went t…
  • Sure, it is blood-biopsy/MRD_duplex_bams. This is the original run of one of the samples and this is me trying to rerun it. The specific task that gets stuck is called CollectDuplexSeqMetrics. Thanks!
  • @SChaluvadi Thanks for your response. I'll abort the entire submission.
  • @SChaluvadi I think my question is more about how to abort a single running workflow after launching many workflows at the same time using a sample set and this.samples in the expression field. I want to abort one running workflow but not disturb t…