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nf-core_modules/modules/picard
History
Lucpen f434d0c671
Adding stubs to PicardLiftovervcf, GATK4_mergevcfs and filterMutectCalls (#1621) 
* feat added stubs to picard_liftovervcf

* feat adding stubs to gatk4_mergevcfs

* feat adding stubs to gatk4_filtermutectcalls

* fix tests

* fix output name filtermutectcalls

* fix test

* fix added missing [

* Update tests/modules/gatk4/mergevcfs/test.yml

Co-authored-by: Ramprasad Neethiraj <20065894+ramprasadn@users.noreply.github.com>

* Update tests/modules/gatk4/filtermutectcalls/test.yml

Co-authored-by: Ramprasad Neethiraj <20065894+ramprasadn@users.noreply.github.com>

* Update tests/modules/picard/liftovervcf/test.yml

Co-authored-by: Ramprasad Neethiraj <20065894+ramprasadn@users.noreply.github.com>

* Update modules/gatk4/filtermutectcalls/main.nf

Co-authored-by: Ramprasad Neethiraj <20065894+ramprasadn@users.noreply.github.com>

* Update modules/gatk4/filtermutectcalls/main.nf

Co-authored-by: Ramprasad Neethiraj <20065894+ramprasadn@users.noreply.github.com>

* Update modules/gatk4/mergevcfs/main.nf

Co-authored-by: Ramprasad Neethiraj <20065894+ramprasadn@users.noreply.github.com>

* Update modules/gatk4/mergevcfs/main.nf

Co-authored-by: Ramprasad Neethiraj <20065894+ramprasadn@users.noreply.github.com>

* Update modules/picard/liftovervcf/main.nf

Co-authored-by: Ramprasad Neethiraj <20065894+ramprasadn@users.noreply.github.com>

* Trying something on picard_liftovervcf

* fix adding test data for stubs

* fix added bracket and unindented workflow

* fix picard 2.27.1 -> 2.27.0 to solve PaddingError

* Update main.nf

fix added tbi to stub

Co-authored-by: Ramprasad Neethiraj <20065894+ramprasadn@users.noreply.github.com>
Co-authored-by: Matthieu Muffato <mm49@sanger.ac.uk>
 		2 years ago
..
addorreplacereadgroups add stub to picard/addorreplacereadgroups (#2057) 2 years ago
cleansam Bump tool versions for modules required in viralrecon (#1859) 2 years ago
collecthsmetrics Bump tool versions for modules required in viralrecon (#1859) 2 years ago
collectmultiplemetrics Bump tool versions for modules required in viralrecon (#1859) 2 years ago
collectwgsmetrics add stub for picard/collectwgsmtrics (#1945) 2 years ago
createsequencedictionary Bump tool versions for modules required in viralrecon (#1859) 2 years ago
crosscheckfingerprints Bump tool versions for modules required in viralrecon (#1859) 2 years ago
fastqtosam new module: Picard/fastqtosam (#1911) 2 years ago
filtersamreads Bump tool versions for modules required in viralrecon (#1859) 2 years ago
fixmateinformation Bump tool versions for modules required in viralrecon (#1859) 2 years ago
liftovervcf Adding stubs to PicardLiftovervcf, GATK4_mergevcfs and filterMutectCalls (#1621) 2 years ago
markduplicates Bump tool versions for modules required in viralrecon (#1859) 2 years ago
mergesamfiles Bump tool versions for modules required in viralrecon (#1859) 2 years ago
sortsam Bump tool versions for modules required in viralrecon (#1859) 2 years ago
sortvcf Bump tool versions for modules required in viralrecon (#1859) 2 years ago