aryee ✭
About
- Username
- aryee
- Joined
- Visits
- 16
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- Member, Broadie
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Related to this I found this VM active in the Cloud Console, even though my workspace reports no running workflows: ggp-18245640090132164171 I assume it's running up costs but I don't have permission to stop it. Any advice on how to kill it? (Im…
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I now see in the Google Cloud Console for the "aryeelab-epigenomics" project that we have the default quota of only 24 CPUs and 500GB SSD. We're planning on using about ~500 cores so I will email [email protected] to get these increased.…
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I tried requesting 16 cores and get the same failure message: "message: Task preprocess_hic.hicpro_align:NA:1 failed. JES error code 9. Message: Quota CPUS exceeded in region us-central1". It does work when I only request 8 cores, however…
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I just wanted to report that this seems to be resolved. I tried creating a new billing project today (exactly as I did on Oct 20), and it was successful.
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Thanks @Tiffany_at_Broad and @esalinas! We're now successfully using Tiffany's split task. We pass an input String containing a comma-separated list of files. The split task turns this into an array of Files that's then used as the input for the nex…
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Instead of using the unmapped_bams_file_of_file_names as a first input, could I instead use a string? e.g. String unmapped_bam_file_names where unmapped_bam_file_names = "gs://bucket/file1.bam,gs://bucket/file2.bam" Is there a way to sp…
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We still have six workflows stuck in the "aborting" state. The workspace is now shared with [email protected] Thanks for looking into it! (Image)
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I aborted the 4 remaining "Submitted" workflows yesterday. They are now in the "Aborting" state and the workspace status is "Running". The workflows that were aborted back in July are also still in the "Aborting&qu…
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I'm actually an owner myself. I just realized that I need to use the "Share" button to give the necessary permissions. I was looking for something called "permissions"... Sorry to bother you!
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The only ones stuck in this state were from 2+ months ago. Everything we've run since then has gracefully completed or failed. Nothing is currently running.
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Is there a way to get them to switch to the "Done" state so that the status page no longer shows them as running?: (Image)
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Yes - That's right.
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Just wanted to confirm that the workflow now runs successfully (after removing the "./" from the file path) Thanks for the help!!
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This workflow is still stuck in the submitted state in Firecloud (7 days later) but appears to have stopped. I was able to submit a dummy workflow ("sleep 3") and this did complete successfully.
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I have shared the workspace (broad-firecloud-methylation/Methylation_Pipeline) with [email protected] The workflow submission ID is eb96b3cd-d635-4e3e-b43e-7163aae5a9fb
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This particular workflow (above) has been stuck in the running state for 24 hours since the second task produced its outputs, without moving on to the next task. We have previously had it in this state for several days.