User

Daniel Boiarsky

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Total activity 13
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Activity overview

Latest activity by Daniel Boiarsky

  • Daniel Boiarsky created a post,

    Workflow submissions not finishing

    Hi,   I have this workflow https://portal.firecloud.org/?return=firecloud#methods/neoantigen_prediction/run_prediction/27 in vanallen-firecloud-dfci/CR_NV_WES_IO_Meta and it seem like some of my su...

    • Daniel Boiarsky
    • 2 followers
    • 2 comments
    • 0 votes
  • Daniel Boiarsky commented,
    1. Community
    2. General Discussion
    3. signal 11 (SEGV) (core dumped) issue

    Hi Jason, So I just tried running this on both centos and opensuse and still encountered the same issue. Is there something about terra that could be causing this to happen on this platform? I've s...

  • Daniel Boiarsky created a post,

    signal 11 (SEGV) (core dumped) issue

    Hi, I'm getting the following error message when running a workflow: (ERR): bowtie2-align died with signal 11 (SEGV) (core dumped) It seems like this error happens specifically on ubuntu (https://s...

    • Daniel Boiarsky
    • Edited
    • 2 followers
    • 5 comments
    • 0 votes
  • Daniel Boiarsky commented,
    1. Community
    2. General Discussion
    3. Papi Error Code 13

    Hi Jason, Thanks for looking into this issue in coordination with google. Before reaching out to you and your team I had tried to resolve the issue by significantly increasing the memory but that d...

  • Daniel Boiarsky commented,
    1. Community
    2. General Discussion
    3. Papi Error Code 13

    I ran the workflow without the monitoring script and still received the error: https://job-manager.dsde-prod.broadinstitute.org/jobs/96773e8f-c668-495e-8192-8e4be5304458

  • Daniel Boiarsky commented,
    1. Community
    2. General Discussion
    3. Papi Error Code 13

    Actually, that didn't solve the problem. See below:   https://job-manager.dsde-prod.broadinstitute.org/jobs/9d3ddde9-8be0-4660-9474-5cd2dd02e312

  • Daniel Boiarsky commented,
    1. Community
    2. General Discussion
    3. Papi Error Code 13

    That worked! Thank you very much for the help!

  • Daniel Boiarsky commented,
    1. Community
    2. General Discussion
    3. Papi Error Code 13

    just shared with you. thanks!

  • Daniel Boiarsky commented,
    1. Community
    2. General Discussion
    3. Papi Error Code 13

    Hi,   Thanks for getting back to me.    The workspace is https://firecloud.terra.bio/#workspaces/vanallen-firecloud-dfci/CR_NV_WES_IO_Meta   Submissions ID: 24fc71d4-57af-4a05-810f-e61b900a9a75 W...

  • Daniel Boiarsky created a post,

    Papi Error Code 13

    Hi, Looking for some direction as to how to address the error below. Thanks for the help! The job was stopped before the command finished. PAPI error code 13. Execution failed: generic::internal: a...

    • Daniel Boiarsky
    • 5 followers
    • 39 comments
    • 0 votes