Tophat not working???

Ran Tophat 5X on same data set that worked 2 days ago… Is Tophat down? I have deadlines to meet…

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hi @rpotens007

Are you working at Galaxy Main https://usegalaxy.org?

If yes, then there are known issues with some mapping jobs. Choosing a specific cluster to run the jobs on will help until the issues are fully resolved.

Ticket about the problem (will close out once fixed): https://github.com/galaxyproject/usegalaxy-playbook/issues/257

Workaround with details about how to target the proper cluster is linked from that ticket above, but here is the post directly: HISAT2 Not working

This is a priority correction and we expect a full resolution soon.

Update: Fixed

Note to all end users running mapping: Using all defaults for the “Job Resources” parameter is a good choice now again. No need to target a particular cluster anymore. Allowing Galaxy to choose the target cluster based on the currently available resources, at the time of job submission, is the fastest way to run tools.

Ticket: https://github.com/galaxyproject/usegalaxy-playbook/issues/257#issuecomment-540676708

Hi Jennifer,

Thank you for addressing the mapping issue. Looks like it is working fine.

Renee

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Super, thanks for letting us know :slight_smile: