Emma Pierce-Hoffman

1. Community
2. General Discussion
3. VCF error in GATK-SV joint-calling terra pipeline, 18-SVConcordance step

For any future users encountering this issue, it was addressed in the comment thread here https://gatk.broadinstitute.org/hc/en-us/community/posts/33681801704347-Error-in-GATK-SV-joint-calling-terr...

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• April 03, 2025 20:09
• 0 votes

1. Community
2. General Discussion
3. Error in GATK-SV terra pipeline, 07-FilterBatchSites step

For future users who encounter this issue, this error was the result of running FilterBatchSites on fewer than 100 samples. The cohort mode of GATK-SV is designed for processing at least 100 sample...

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• April 03, 2025 20:00
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1. Community
2. General Discussion
3. Error Report(rawls... 400 Bad Request) when accessing some Sample Sets while others are unaffected

I just encountered this issue too. A colleague confirmed my fear: the length of the input JSON was too long for Terra to be able to submit the job (which fits with your observation that the error w...

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• March 21, 2024 20:48
• 0 votes

Allow users with compute access to request quota increases

Terra Support's policy around quota increases recently changed to require the billing project owner to request the quota increase. I am asking for that policy to be repealed and for users with comp...

• Emma Pierce-Hoffman
• November 18, 2022 16:41
• 4 followers
• 2 comments
• 3 votes

Make workspace.tsv format edit-friendly & git-friendly

The workspace.tsv format is difficult to edit and does not play well with GitHub. My group maintains workspace.tsv templates in our GitHub repo to keep our workspaces up to date, but since all the ...

• Emma Pierce-Hoffman
• October 03, 2022 18:58
• 2 followers
• 1 comment
• 1 vote

1. Community
2. Active Feature Requests
3. Opt Out/In to Submission Notifications for All Workspaces

Strongly agree! I am in the same position where it would take me hours to go through all my workspaces and opt out individually, and I am running thousands of workflows so I really want to avoid ge...

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• September 16, 2022 18:43
• 0 votes