User

Martin Aryee

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Total activity 28
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Recent activity by Martin Aryee

  • Can a (demultiplexing) workflow create new (sample) entities?

    We are building a demultiplexing workflow that takes as input a set of FASTQs and a sample sheet from a sequencing run. Each sequencing run is an entity in a "Sequencing Runs" table. The workflow c...

    • 3 followers
    • 8 comments
    • 0 votes

  • Zombie machines from failed tasks running up costs

    (I also submitted a note through Contact Us but figured this may be a better forum since other users should probably be aware) One of our submissions failed 6 days ago because of file permissions p...

    • 2 followers
    • 1 comment
    • 0 votes

  • How do I tell what machine type was used for a task?

    In Firecloud I can access an operation log to get details on the machine type used for a specific task (e.g. n1-standard-8). Is this visible in Terra too?

    • 2 followers
    • 2 comments
    • 0 votes
    • Completed

  • GPU task error: "Could not load UVM kernel module. Is nvidia-modprobe installed?"

    I am trying to run a task that uses a GPU. The docker image is based off "nvidia/cuda:9.0-cudnn7-devel-ubuntu16.04" and the runtime block looks like this: runtime {  docker: "quay.io/aryeelab/gupp...

    • 6 followers
    • 19 comments
    • 0 votes

  • Multiple versions of a workflow from dockstore?

    Is it possible to import multiple versions of the same workflow from the dockstore as different tools? I would like to have mytool:v1.0 and mytool:v2.0 for example. (These correspond to different t...

    • 2 followers
    • 3 comments
    • 0 votes