Cromwell configuration problem: "No configuration setting found for key 'job-id-regex'"

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Joel Wallenius

• May 02, 2022 10:38

a) Cromwell version used: 78
b) Exact command used: https://pastebin.com/70ebMVE5
c) Entire program log: https://pastebin.com/hQ8U3f86
d) Configuration file contents: https://pastebin.com/veDikew7

I tried adding the missing key, as you can see in the configuration file (ctrl+F "concurrent-job"), it changes the error to https://pastebin.com/dxDHrKdk

I have asked the developer of MoChA already, he says he can't give Cromwell support, so I ask here. I hope I submitted this question to the correct forum...

 

Have a nice day and thanks in advance for your help!

 

PS. If I don't specify a configuration file, the workflow works fine, BUT it uses all the cores and memory it can which slows my system to a crawl which isn't great.

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  Genevieve Brandt (she/her)

  • May 03, 2022 19:16

  Thank you for your post, Joel Wallenius! This is the correct location on the forum for these posts. 

  Our support team is not able to provide Cromwell support, so for these questions we encourage other users to help each other find solutions. You can also look at these resources for more information:

  • Bioinformatics Stack Exchange
  • Cromwell slack organization: cromwellhq.slack.com
  • Cromwell Documentation

  You can see our support policy here.

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