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Funcotator - update WDL to include exclude annotations #5141

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jonn-smith opened this issue Aug 28, 2018 · 0 comments
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Funcotator - update WDL to include exclude annotations #5141

jonn-smith opened this issue Aug 28, 2018 · 0 comments
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Feature request

Tool(s) or class(es) involved

Funcotator

Description

When the argument to exclude a set of annotations in output is implemented, this must be added as an option in the Funcotator/M2 WDL.
@LeeTL1220 LeeTL1220 mentioned this issue Oct 1, 2018
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LeeTL1220 added a commit that referenced this issue Oct 3, 2018
@LeeTL1220
Added Funcotator excluded fields option explicitly to the M2 WDLs. (#…
e52a2d8 
…5242)

- M2 WDL has explicit optional parameter for a list of fields that should be excluded from the output.
- Both M2 WDL files are updated.

Manually tested mutect2.wdl on local backend.

Closes #5141
EdwardDixon pushed a commit to EdwardDixon/gatk that referenced this issue Nov 9, 2018
@LeeTL1220 @EdwardDixon
Added Funcotator excluded fields option explicitly to the M2 WDLs. (b…
86d7474 
…roadinstitute#5242)

- M2 WDL has explicit optional parameter for a list of fields that should be excluded from the output.
- Both M2 WDL files are updated.

Manually tested mutect2.wdl on local backend.

Closes broadinstitute#5141
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