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Cromwell-on-Azure #6

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byoo wants to merge 2 commits into PacificBiosciences:main from byoo:main

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byoo commented May 30, 2024

These changes were what I needed to make to run typical samples using Cromwell-on-Azure.
Remaining items in my wish list are

We had a test sample that didn't have any passing Severus call. So, I'd appreciate if you consider handling the case where there is no passing calls to prioritize or annotate.
With the aligned input, could handle input that's already phased as HiPhase fails due to preexisting tags.

Additionally, I noticed that the merge BAM task runs all cases and wonder if it can handle single BAM case more efficiently.

Thank you!

byoo added 2 commits

May 25, 2024 07:07


          For Cromwell-on-Azure compatibility, remove . in the output and chang…

44ceb3a

…e disk space format in runtime


          increase more disk space for hiphase_with_somatic

2c5ffbd

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