User

Ash O'Farrell

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Total activity 97
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Recent activity by Ash O'Farrell

  • Show how many files are in data section in UI

    It's me, the BDC guy again. I uploaded 3000 files to a Terra workspace while testing a script that will programmatically generate TSV files from user-uploaded data. Now, to be clear, I don't expect...

    • 3 followers
    • 3 comments
    • 1 vote

  • Terra workspace deleted itself?!

    I was working on in a workspace's notebook section, using FISS to attempt to upload a TSV file to Terra. While testing, but without changing any of my FISS commands (ie, I didn't use accidentally u...

    • 2 followers
    • 5 comments
    • 0 votes

  • DRS appears to have stopped working; erroring out

    I'm working with Beth at UCSC on a template workspace involving a GWAS. I can't share this with support as it has controlled access data.  Therein lies the problem: I think Gen3 access may be havin...

    • 2 followers
    • 10 comments
    • 0 votes

  • Error accessing controlled access data that worked fine earlier

    I have a few workspaces with controlled access data (ie, tables of DRS URIs from Gen3). Suddenly I cannot run workflows on this data anymore, even though I am running the exact same workflows with ...

    • 2 followers
    • 9 comments
    • 0 votes

  • Job has been aborting for over a week

    I'm back with more issues with the TOPMed Alignment workspace I'm drafting for BDC go-live. This problem is not blocking me but it might be draining my credit account... One of my jobs has been "ab...

    • 2 followers
    • 3 comments
    • 0 votes

  • How to index a CRAM file on Terra with samtools?

    I'm the UCSC guy making a featured workspace involving the TOPMed aligner prior to go-live. I'm testing it by having it run on the 1000 Genomes data available on Terra. That data has CRAM files but...

    • 3 followers
    • 10 comments
    • 0 votes

  • Several issues with 2019_ASHG_Reproducible_GWAS workflow and notebook

    Hi there, I'm having several issues with the featured workspace involving a reproducible GWAS. The WDL script fails for me, whether you use data you generated yourself from the notebook or the prov...

    • Edited
    • 3 followers
    • 4 comments
    • 0 votes