Commits · cde855dfc4c0dd18a7b928e2d359605fc71d08b5 · Mirrors / biopet.biopet

Feb 19, 2015
- Removing iml files · cde855df
  Sander Bollen authored 10 years ago
  
  cde855df
- Fixing expected info field test values · 3f85d3dc
  Sander Bollen authored 10 years ago
  
  3f85d3dc
- afterGraph was deprecated, now beforeGraph · a6e1f2bc
  Sander Bollen authored 10 years ago
  
  a6e1f2bc
- refactors · 3a8de40e
  Sander Bollen authored 10 years ago
  
  3a8de40e
- fixing missing cutadapt mock values · cb6f9998
  Sander Bollen authored 10 years ago
  
  cb6f9998
- Explode and standard in one function, no longer custom exceptions, CSQ tag by default removed. · a5b9de0f
  Sander Bollen authored 10 years ago
  
  a5b9de0f
Feb 18, 2015
- Fix outputDirs for samtools flagstat · 619ed38a
  Peter van 't Hof authored 10 years ago
  
  619ed38a
Feb 17, 2015
- Fix cryptic pipeline errors caused by using directory as output files · e86f6183
  bow authored 10 years ago
  
  e86f6183
Feb 16, 2015
- Exclude the target from git in bam2wig · 286a975f
  Wai Yi Leung authored 10 years ago
  
  286a975f
- Remove variable IDE files · 50400d8c
  bow authored 10 years ago
  
  50400d8c
- Patch for Fastqsync · 1d22e497
  Wai Yi Leung authored 10 years ago
  
  1d22e497
- Use unique and transient temp directory for each pipeline test · 280f922d
  bow authored 10 years ago
  
  280f922d
- Refactor syncIter logic · a913c55e
  bow authored 10 years ago
  
  a913c55e
- Open and close handlers properly · 922b3949
  bow authored 10 years ago
  
  922b3949
Feb 15, 2015
- Use 5G for minimum default vmem · 074a4fc6
  bow authored 10 years ago
  
  074a4fc6
- Use null explicitly · bdc61e74
  bow authored 10 years ago
  
  bdc61e74
- Fix output stats error · d56e84e3
  bow authored 10 years ago
  
  d56e84e3
- Precompile regex for splitting read IDs · 700bfa35
  bow authored 10 years ago
  
  700bfa35
- Properly close file writers · 20dab674
  bow authored 10 years ago
  
  20dab674
- Fix header typo · 3ced376f
  bow authored 10 years ago
  
  3ced376f
- Update FastqSync tests · 993038f0
  bow authored 10 years ago
  
  993038f0
- Bypass intermediate Stream creation in FastqSync to fix StackOverflowError · bc9b4ce6
  bow authored 10 years ago
  
  bc9b4ce6
Feb 14, 2015
- Added resolveConflict option to mergeMaps · d04c7f03
  Peter van 't Hof authored 10 years ago
  
  d04c7f03
- Added missing executables · 2afb277b
  Peter van 't Hof authored 10 years ago
  
  2afb277b
- Remove .exist, does not work on dry run · 55816a48
  Peter van 't Hof authored 10 years ago
  
  55816a48
- Fix outputDirs · 7b8a06ed
  Peter van 't Hof authored 10 years ago
  
  7b8a06ed
- Fix dependencies · 1926c8f8
  Peter van 't Hof authored 10 years ago
  
  1926c8f8
Feb 13, 2015
- Make better use of the File object, let the file object concat the paths for me · 9123df32
  Wai Yi Leung authored 10 years ago
  
  9123df32
- Rename and use string formatting · df55de18
  Wai Yi Leung authored 10 years ago
  
  df55de18
- Fix output dirs · d5b3661d
  Peter van 't Hof authored 10 years ago
  
  d5b3661d
- Set default vmem to 5G · 6d4fa4c5
  Peter van 't Hof authored 10 years ago
  
  6d4fa4c5
- Add job check to unit tests · b7c5a56c
  Peter van 't Hof authored 10 years ago
  
  b7c5a56c
- remove timestamp · 3152e5fc
  Peter van 't Hof authored 10 years ago
  
  3152e5fc
- Remove unused imports · b5f82222
  Peter van 't Hof authored 10 years ago
  
  b5f82222
- Intial unit test for Carp · 4b011fa8
  Peter van 't Hof authored 10 years ago
  
  4b011fa8
- Added default aligner · 3e1bc47a
  Peter van 't Hof authored 10 years ago
  
  3e1bc47a
- Added test log4j.properties · 64397750
  Peter van 't Hof authored 10 years ago
  
  64397750
Feb 12, 2015
- Convert flexiprep testing to DataProvider · af04710a
  Peter van 't Hof authored 10 years ago
  
  af04710a
- Added star-2pass and stampy to data provider, not having 192 unit tests · 62308c50
  Peter van 't Hof authored 10 years ago
  
  62308c50
- Fix some config values · d70e8930
  Peter van 't Hof authored 10 years ago
  
  d70e8930