Commits · bb9217dc32975440cf70eac3a479bcde98ad8fd5 · biowdl / tasks

Sep 04, 2019

Combined outputDirPath and outputPrefix to outputPrefix and changed optional... · bb9217dc

JB authored 5 years ago

Combined outputDirPath and outputPrefix to outputPrefix and changed optional inputs with a default value to non optional

bb9217dc

Sep 03, 2019
- Changed Sj (SpliceJunction) occurences to SJ for style purposes · 0cc88f84
  JB authored 5 years ago
  
  0cc88f84
- Another small adjustment · c99305f9
  JB authored 5 years ago
  
  c99305f9
- Updated WDL file according to BioWDL style guide · 33d0e1b0
  JB authored 5 years ago
  
  33d0e1b0
Aug 22, 2019
- Updated CHANGELOG for new TranscriptClean task · 5b9fbd20
  JB authored 5 years ago
  
  5b9fbd20
- Add WDL task for TranscriptClean · 9dde7d50
  JB authored 5 years ago
  
  9dde7d50
Aug 16, 2019
- Merge pull request #133 from biowdl/BIOWDL-302 · 47457416
  Ruben Vorderman authored 5 years ago
  
  Simplify cutadapt.
  47457416
- check all wdls · 5badadc6
  Ruben Vorderman authored 5 years ago
  
  5badadc6
- womtool validate with newest version thanks to conda · 7711c79b
  Ruben Vorderman authored 5 years ago
  
  7711c79b
- add comment · 61b586f4
  Ruben Vorderman authored 5 years ago
  
  61b586f4
- update changelog · eed1d6f8
  Ruben Vorderman authored 5 years ago
  
  eed1d6f8
- simplify cutadapt interface · 8e3e8a5f
  Ruben Vorderman authored 5 years ago
  
  8e3e8a5f
- Merge pull request #132 from biowdl/BIOWDL-302 · 2bb092c9
  Cats authored 5 years ago
  
  remove default adapter for cutadapt.
  2bb092c9
Aug 15, 2019
- update changelog · 05977e60
  Ruben Vorderman authored 5 years ago
  
  05977e60
- account for big vmem usage in mutect · 73aded29
  Ruben Vorderman authored 5 years ago
  
  73aded29
- remove default adapter for cutadapt · a9d987c3
  Ruben Vorderman authored 5 years ago
  
  a9d987c3
- remove default adapter · a5dc8e68
  Ruben Vorderman authored 5 years ago
  
  a5dc8e68
Aug 13, 2019
- Merge pull request #129 from biowdl/BIOWDL-292 · bee1944b
  Ruben Vorderman authored 5 years ago
  
  Update picard
  bee1944b
- Merge branch 'develop' into BIOWDL-292 · 293ab12c
  Ruben Vorderman authored 5 years ago
  
  293ab12c
Aug 12, 2019
- Merge pull request #131 from biowdl/JasperBoom-patch-dockerImage · 1114d853
  Cats authored 5 years ago
  
  Update dockerTag to dockerImage for common.wdl
  1114d853
- Merge branch 'develop' into JasperBoom-patch-dockerImage · 2e91b7c5
  JB authored 5 years ago
  
  2e91b7c5
- Merge pull request #130 from Amfgcp/fixes-run-shark · 195cb0ed
  Cats authored 5 years ago
  
  update to run in Shark: memory values and no "-o pipefail"
  195cb0ed
- Add update dockerTag to dockerImage to CHANGELOG.md · b37a58d7
  JB authored 5 years ago
  
  b37a58d7
- Update dockerTag to dockerImage · a008c17d
  JB authored 5 years ago
  
  a008c17d
- update to run in Shark: memory values and no "-o pipefail" · 0ca15e1e
  António Paulo authored 5 years ago
  
  0ca15e1e
- update changelog · c75f6204
  Ruben Vorderman authored 5 years ago
  
  c75f6204
- update fastqsplitter · a8b78294
  Ruben Vorderman authored 5 years ago
  
  a8b78294
- unify picard · 28344638
  Ruben Vorderman authored 5 years ago
  
  28344638
Aug 06, 2019
- Merge pull request #128 from Amfgcp/m2-gatk4.1.2.0-updates · 36f8f808
  Cats authored 5 years ago
  
  M2 gatk4.1.2.0 updates, CombineVariants and Strelka GT modifying
  36f8f808
- Merge branch 'm2-gatk4.1.2.0-updates' of https://github.com/Amfgcp/tasks into... · a334fd88
  António Paulo authored 5 years ago
  
  Merge branch 'm2-gatk4.1.2.0-updates' of https://github.com/Amfgcp/tasks into m2-gatk4.1.2.0-updates
  a334fd88
- update legibility for the CombineVariants command · 6221290f
  António Paulo authored 5 years ago
  
  6221290f
- Merge branch 'develop' into m2-gatk4.1.2.0-updates · ed801654
  António Paulo authored 5 years ago
  
  ed801654
Aug 05, 2019
- update changelog · 05fda96f
  António Paulo authored 5 years ago
  
  05fda96f
- fix FilterMutectCalls not creating expected output folder · f3888236
  António Paulo authored 5 years ago
  
  f3888236
- fix command according to style guideline · ed6d2cf2
  António Paulo authored 5 years ago
  
  add comment
  ed6d2cf2
- add GATK3 CombineVariants as a task · 03232d6a
  António Paulo authored 5 years ago
  
  03232d6a
- update ModifyStrelka to also add "GT" header · 007ef29d
  António Paulo authored 5 years ago
  
  007ef29d
Aug 04, 2019
- add modify_Strelka as task · 3565efa4
  António Paulo authored 5 years ago
  
  3565efa4
- update changelog · d1522b25
  António Paulo authored 5 years ago
  
  d1522b25
- add GATK FilterMutectCalls as a task · 70ae489e
  António Paulo authored 5 years ago
  
  70ae489e