Vardict Chunk 4 Task Hitting Wall-Time for Genomes

tgen / tempe

A container focused and streamlined iteration of the Phoenix pipeline

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Vardict Chunk 4 Task Hitting Wall-Time for Genomes #65

Closed denriquez closed 7 months ago

denriquez commented 9 months ago

Tempe Version: 1.2.1

Task Name: vardict_[pair-name]_4

Issue: We are experiencing failures due to hitting the wall time specifically for genome samples. We had no issues with any exome data. I have tested 12 different projects and they all encountered this issue.

bryce-turner commented 9 months ago

Staged as part of #64 - currently debating on if additional regions should be modified since we will need to recompute anyway.

PedalheadPHX commented 9 months ago

Can we get a count comparison for samples ran on the 6000 vs X, I'm worried this is a two fold issue, bad genome region AND an event that is worse on the X than the 6000. There are a few genomes where the same library was done on both for TSCA, should be GM12878 replicates also but likely not the same library

PedalheadPHX commented 9 months ago

might want to copy the pull request documentation here @bryce-turner