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Question: RNA STAR is taking hours to start to run
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gravatar for anamabrantesc
6 months ago by
anamabrantesc • 0
anamabrantesc • 0 wrote:

I am trying to use RNA STAR but I have been waiting for hours and it is still queued, no sign of a start. Any problem with it?
rna-seq queue concurrently job quota • 303 views
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modified 6 months ago by Jennifer Hillman Jackson ♦ 25k • written 6 months ago by anamabrantesc • 0
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gravatar for Jennifer Hillman Jackson
6 months ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

Please leave jobs queued and avoid deleting/restarting. If you rerun, any new job is placed back at the end of the queue, extending wait time. https://galaxyproject.org/support/how-jobs-execute/

What I checked (so that you'll know what to check next time a job is seems queued for a bit longer than usual):

  • Check if all of the inputs are in a success (green) state, actually contain content, and do not have metadata warnings. Your data inputs are fine. https://galaxyproject.org/support/#datasets-and-histories
  • Count up how many larger jobs were started/queued concurrently. You started several mapping jobs up, a batch ran through, the others were queued, more will eventually run and complete, etcetera. Galaxy Main's resources are designed to be equally distributed among all users, meaning: jobs are run as server resources become available within the concurrency limits per account. https://galaxyproject.org/main/

Thanks! Jen, Galaxy team
ADD COMMENT • link written 6 months ago by Jennifer Hillman Jackson ♦ 25k

Jen: Thanks for your response. Unfortunately, as it was taking too long, I deleted the file and as it was still running, I undeleted it. Must have lost out several positions in the Q. Now I will wait. Meanwhile I have opened an AWS account. I still do not know howto use it and will attempt to use it and download Galaxy tools in it, when I get more time to learn the hows.

Thanks again With Best Regards Vasudevan

ADD REPLY • link written 6 months ago by vasumk1953 • 0
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