Chris Whelan

1. Community
2. Known Issues
3. basename() does not function as expected on DRS URIs

Hi, Is there any update on progress towards finding an alternate solution to this issue? Thanks, Chris

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• April 10, 2024 19:01
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Confusion on how to set up read group-level processing in workspaces

Hi, I am a bit confused about best practices for setting up Terra workspace data models to handle processing samples with multiple read groups. The note on this article suggests that the Whole-Geno...

• Chris Whelan
• March 15, 2024 17:10
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• 1 comment
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1. Community
2. General Discussion
3. Cromwell Retry with More Memory feature false failures

Hi Jason, Thanks! Just to clarify, in my case I didn't have `maxRetries` set in my task runtime definition, so Cromwell didn't attempt an autoretry. However, Cromwell did mark the task, and the wor...

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• July 21, 2021 14:47
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1. Community
2. General Discussion
3. Cromwell Retry with More Memory feature false failures

Hi Jason, This is a general Cromwell question, although I guess it would apply to Terra now that the retry-with-more-memory is available for workflows there. Chris

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• July 20, 2021 16:27
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Cromwell Retry with More Memory feature false failures

I’m working on a WDL task that runs something with very verbose logging. The job appears to run successfully — the script return code is 0 and the outputs are delocalized — but then Cromwell seems ...

• Chris Whelan
• Edited July 20, 2021 14:13
• 2 followers
• 5 comments
• 0 votes

1. Community
2. Completed Feature Requests
3. Importing TSVs that contain arrays

Just to expand on the reason why this is important for my team: We're trying to figure out ways to automatically create example workspaces in Terra when we deploy a new workflow or workflow version...

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• October 19, 2020 19:55
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