Code

313 Cleanup Extract Cohort params#7293

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RoriCremer merged 26 commits intoah_var_storebroadinstitute/gatk:ah_var_storefrom rc-313-cleanup-extract-paramsbroadinstitute/gatk:rc-313-cleanup-extract-paramsCopy head branch name to clipboardJun 24, 2021

+123-84

Commits

Commits on Jun 17, 2021

• clarify warn msg

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  959a1fc

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• remove unused duplicate params

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  ada58dd

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• we are filtering or we are not!

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  97d910f

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• remove gnarly genotyper option

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  d17ae5a

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• remove gnarly from testing

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  b658743

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• add filtering enum

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  9b24bf4

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• add filtering type option to the wdl

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  68f8ea3

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• clarify param name

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  2e3404c

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• remove cruft from test

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  1e42148

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• update more tests

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  2f64b55

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• cleanup

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  ddc2ff6

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• better no filtering gate

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  5ff3e49

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• better validation

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  e8fabb0

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• more tests

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  eac55f5

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• wdl typo

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  b9172aa

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Commits on Jun 18, 2021

• rename

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  b4c32f2

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• rename and pass in a flag

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  d3530ab

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• update flag

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  bac5b0b

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Commits on Jun 23, 2021

• update WDL

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  1d33ba7

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• lowercase

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  9ce72ed

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Commits on Jun 24, 2021

• update testing

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  dafffbc

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• fixup on the right vars

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  f064080

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• simplify enum, ternary

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  b8932da

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• simplify filter table ref logic

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  31512a5

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• fix overzealous cleanup

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  2748c9c

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• does this change the meaning of the test?

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  91767ae

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