Ran Tophat 5X on same data set that worked 2 days ago… Is Tophat down? I have deadlines to meet…
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.
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.
Thank you for addressing the mapping issue. Looks like it is working fine.
Super, thanks for letting us know