Emma Pierce-Hoffman
Activity overview
Latest activity by Emma Pierce-Hoffman
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Emma Pierce-Hoffman commented,
Hi Qiushi, I'm part of the GATK-SV team looking into your issue. We noticed that a number of inputs to the workflow are missing in the submission you linked, including genome_tracks, which is an in...
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Emma Pierce-Hoffman commented,
+1 - we've asked for this before, it's really necessary. Agreed that the version tag & commit hash is what I'd like to see. Currently we have to record the version manually in the submission commen...
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- 1 vote
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Emma Pierce-Hoffman commented,
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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Emma Pierce-Hoffman commented,
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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Emma Pierce-Hoffman commented,
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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Emma Pierce-Hoffman created a post,
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 I am asking for that policy to be repealed and for users with comp...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
- 4 followers
- 2 comments
- 3 votes
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Emma Pierce-Hoffman created a post,
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
- 2 followers
- 1 comment
- 1 vote
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Emma Pierce-Hoffman commented,
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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Emma Pierce-Hoffman commented,
Totally agree with this request! The "Delete intermediate outputs" functionality has been very helpful to prevent the accumulation of storage! There is still a need for easier workspace cleanup fun...
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- Edited
- 3 votes