Commits · 17ebb979ec24c8faecf74991a172867ad0bb21df · Mirrors / biopet.biopet · GitLab

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Jun 06, 2014
- Added getThreads function · 17ebb979
  Peter van 't Hof authored 10 years ago
  
  17ebb979
- Added merge config · 5a4df715
  Peter van 't Hof authored 10 years ago
  
  5a4df715
- Raise of an error at wrong JSON format · 03e66819
  Peter van 't Hof authored 10 years ago
  
  03e66819
- Merge branch 'master' of git.lumc.nl:biopet/biopet · 82cee4c6
  Peter van 't Hof authored 10 years ago
  
  82cee4c6
Jun 05, 2014
- Raise an error if the JSON file for configs is not properly formatted in JSON · 84c365c7
  wyleung authored 10 years ago
  
  84c365c7
- Changed glogal config to global config · 2cec3511
  sajvanderzeeuw authored 10 years ago
  
  2cec3511
Jun 04, 2014
- Added vmem option and uses by default 4G · f732e3ea
  Peter van 't Hof authored 10 years ago
  
  f732e3ea
- Marked temp files as intermediate · 991903f5
  Peter van 't Hof authored 10 years ago
  
  991903f5
- Added dependencies list · b1a75245
  Peter van 't Hof authored 10 years ago
  
  b1a75245
- Removed Output annotation for stats file · 9a2897d8
  Peter van 't Hof authored 10 years ago
  
  9a2897d8
Jun 03, 2014
- Fixed package name · af1fde3f
  Peter van 't Hof authored 10 years ago
  
  af1fde3f
- Moved to flexiprep maven app · af141f38
  Peter van 't Hof authored 10 years ago
  
  af141f38
- Moved to mapping maven app · 525e2ecc
  Peter van 't Hof authored 10 years ago
  
  525e2ecc
- Merge branch 'master' of git.lumc.nl:biopet/biopet · 2038f3b7
  Peter van 't Hof authored 10 years ago
  
  2038f3b7
- No functional changes · 08a62d84
  Peter van 't Hof authored 10 years ago
  
  08a62d84
- Added dependencies for Flexiprep · d7fd1dad
  Peter van 't Hof authored 10 years ago
  
  d7fd1dad
- Added VariantAnnotator step · 31460c83
  Peter van 't Hof authored 10 years ago
  
  31460c83
- Added shading for framework, Queue is now included in the jar of the framework · d5a50842
  Peter van 't Hof authored 10 years ago
  
  d5a50842
- Changed filenames for compatible summarize script · 171522f4
  Peter van 't Hof authored 10 years ago
  
  171522f4
- Added single QScript for for VariantAnnotator, not used in Gatk pipeline · 73053fa3
  Peter van 't Hof authored 10 years ago
  
  73053fa3
- BiopetQScript is now abstract · 80512eba
  Peter van 't Hof authored 10 years ago
  
  80512eba
- Changed to make it compatible for new file structure · 97fd01f3
  Peter van 't Hof authored 10 years ago
  
  97fd01f3
- Start up readme · 5967d0b9
  Sander van der Zeeuw authored 10 years ago
  
  5967d0b9
- Added Summarize flexiprep wrapper · f9d9430b
  Peter van 't Hof authored 10 years ago
  
  f9d9430b
- Added Seqstat wrapper · a98ad7f7
  Peter van 't Hof authored 10 years ago
  
  a98ad7f7
- Added Sha1sum wrapper · 157d6e8d
  Peter van 't Hof authored 10 years ago
  
  157d6e8d
- Added Ln wrapper · 59459ae6
  Peter van 't Hof authored 10 years ago
  
  59459ae6
May 27, 2014
- Added general trait (BiopetQScript) that now have multisample functions · 09190f82
  Peter van 't Hof authored 10 years ago
  
  09190f82
May 26, 2014
- Moved aligners to own package · 5d0b4fc9
  Peter van 't Hof authored 10 years ago
  
  5d0b4fc9
- Gatk now uses the mapping module · b3553528
  Peter van 't Hof authored 10 years ago
  
  b3553528
- Small changes on config setup · 8d195010
  Peter van 't Hof authored 10 years ago
  
  8d195010
- Added default_clip_mode option · b0317762
  Peter van 't Hof authored 10 years ago
  
  b0317762
- Added scala files to jar and added a main class for each pipeline · 302c6fff
  Peter van 't Hof authored 10 years ago
  
  302c6fff
- Added python parser to buildin python scripts · 2f38f1f1
  Peter van 't Hof authored 10 years ago
  
  2f38f1f1
- Added python scripts to jar file · 9519ee04
  Peter van 't Hof authored 10 years ago
  
  9519ee04
May 21, 2014
- - Standerize config · 2fb73c96
  Peter van 't Hof authored 10 years ago
  
  2fb73c96
- - Fixed output file for star · 30fe43b7
  Peter van 't Hof authored 10 years ago
  
  30fe43b7
- - Fixed output file · bb158f36
  Peter van 't Hof authored 10 years ago
  
  bb158f36
- - Added sub configs for gatk buildin modules · f95148c6
  Peter van 't Hof authored 10 years ago
  
  f95148c6
- - Fixed scattercounts · 31ea0eee
  Peter van 't Hof authored 10 years ago
  
  31ea0eee