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Removed usage of service account from WDLs

Open gbggrant opened this issue 2 years ago • 2 comments

Removed usage of service account from: GvsAssignIds.wdl GvsImportGenomes.wdl GvsCreateAltAllele.wdl GvsCreateFilterSet.wdl GvsWithdrawSamples.wdl GvsCreateAltAllele.wdl GvsPrepareRangesCallset.wdl GvsExtractCallset.wdl GvsExtractCohortFromSampleNames.wdl GvsUnified.wdl GvsJointVariantCalling.wdl GvsAoUReblockGvcf.wdl GvsBenchmarkExtractTask.wdl GvsRescatterCallsetInterval.wdl

gbggrant avatar Aug 10 '22 21:08 gbggrant

In order to test this, I created a small (10 sample) test set using all of us data. That is here Here are successful runs of the following wdls: GvsAssignIds GvsImportGenomes GvsCreateAltAllele GvsCreateFilterSet GvsPrepareRangesCallSet GvsExtractCallSet GvsCreateVAT GvsValidateVAT GvsUnified GvsJointVariantCalling GvsRescatterCallsetInterval - Failed but got beyond the point where it would need the service account. GvsBenchmarkExtractTest - Failed, but got beyond the point where it would need the service account. GvsCallsetCost (unaffected, but tested anyway) GvsAoUReblockGvcf - Tested by Morgan GVSCacluatedPrecisionAndSensitivity (unaffected) GvsJointVariantCallingCallsetCost (unaffected) GvsQuickstartIntegration (unaffected)

gbggrant avatar Aug 10 '22 21:08 gbggrant

Codecov Report

:exclamation: No coverage uploaded for pull request base (ah_var_store@42a9382). Click here to learn what that means. The diff coverage is n/a.

@@               Coverage Diff                @@
##             ah_var_store     #7985   +/-   ##
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  Coverage                ?   86.243%           
  Complexity              ?     35203           
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  Files                   ?      2173           
  Lines                   ?    165016           
  Branches                ?     17792           
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  Hits                    ?    142315           
  Misses                  ?     16376           
  Partials                ?      6325           

codecov[bot] avatar Aug 10 '22 21:08 codecov[bot]

Confirmed that GvsAoUReblockGvcf.wdl works 👍

mmorgantaylor avatar Aug 15 '22 21:08 mmorgantaylor