Commits · eedeeeeb740f0fe7286f1a63450f1502c935a96b · Mirrors / biopet.biopet

Aug 18, 2015
- Fix output file · eedeeeeb
  Peter van 't Hof authored 9 years ago
  
  (cherry picked from commit fb2fc695)
  eedeeeeb
Aug 17, 2015
- Fix inversion · 92ae5a49
  Peter van 't Hof authored 9 years ago
  
  92ae5a49
- Style fix · 5a765da5
  Peter van 't Hof authored 9 years ago
  
  5a765da5
- Added reference trait for tophat · 2765ff0c
  Peter van 't Hof authored 9 years ago
  
  (cherry picked from commit 73990f01)
  2765ff0c
Aug 15, 2015
- Skipping parts of report when they are skipped in the pipeline · e07267db
  Peter van 't Hof authored 9 years ago
  
  e07267db
Aug 12, 2015
- Review refactor · d55c2684
  Peter van 't Hof authored 9 years ago
  
  d55c2684
- Added a better error handling on a missing reference. · 002dd1c3
  Peter van 't Hof authored 9 years ago
  
  002dd1c3
- Added unit test for #186. Unit test passes. · 8829cb1b
  Sander Bollen authored 9 years ago
  
  8829cb1b
Aug 06, 2015
- Changed dependency · a9fbdf3f
  Peter van 't Hof authored 9 years ago
  
  a9fbdf3f
- VcfFilter addition for musthavegenotypes. See #186. · 1bbf15aa
  Sander Bollen authored 9 years ago
  
  Ended up using HTSJDK nomenclature for genotype types I.e: HET, HOM_REF, HOM_VAR, MIXED, NO_CALL and UNAVAILABLE
  1bbf15aa
Aug 04, 2015
- Upgrade shade plugin version · 35b7f2ee
  Peter van 't Hof authored 9 years ago
  
  35b7f2ee
Aug 03, 2015
- Fix gears in executables · 9d3bdc2a
  Peter van 't Hof authored 9 years ago
  
  9d3bdc2a
- Review changes · e667ee49
  Peter van 't Hof authored 9 years ago
  
  e667ee49
- Fix for #184 · 2196bd9d
  Peter van 't Hof authored 9 years ago
  
  2196bd9d
- Removed the trait, no need for it · bc53f7e3
  Peter van 't Hof authored 9 years ago
  
  bc53f7e3
- Review changes to kraken · 11f01f92
  Peter van 't Hof authored 9 years ago
  
  11f01f92
Aug 01, 2015
- Fix unit test · d05d08f9
  Peter van 't Hof authored 9 years ago
  
  d05d08f9
- Improved unit test · 7f682612
  Peter van 't Hof authored 9 years ago
  
  7f682612
- Fix unit test · 93080450
  Peter van 't Hof authored 9 years ago
  
  93080450
- Fix inspection warnings · 9b8e7dd8
  Peter van 't Hof authored 9 years ago
  
  9b8e7dd8
- Adding exac annotation step · 046d7d2b
  Peter van 't Hof authored 9 years ago
  
  046d7d2b
- Adding gonl annotation step · 4459b837
  Peter van 't Hof authored 9 years ago
  
  4459b837
- Change List[File] to File · 61926852
  Peter van 't Hof authored 9 years ago
  
  61926852
- Changed name · 3e3cbed9
  Peter van 't Hof authored 9 years ago
  
  3e3cbed9
- Adding biopet extension for VcfWithVcf tool · 53782d96
  Peter van 't Hof authored 9 years ago
  
  53782d96
- Adding toucan to shiva · 8e606123
  Peter van 't Hof authored 9 years ago
  
  8e606123
- Changing error text · d7efc98b
  Peter van 't Hof authored 9 years ago
  
  d7efc98b
- Name fix · 69a3c90f
  Peter van 't Hof authored 9 years ago
  
  69a3c90f
- Add summary to toucan · 2fe05703
  Peter van 't Hof authored 9 years ago
  
  2fe05703
- Saver execution order · 3584a778
  Peter van 't Hof authored 9 years ago
  
  3584a778
- Fix flag default · f95a231c
  Peter van 't Hof authored 9 years ago
  
  f95a231c
- Replace getChr for getContig · ab759337
  Peter van 't Hof authored 9 years ago
  
  ab759337
- Replace getSequence for getContig · 8360ae8d
  Peter van 't Hof authored 9 years ago
  
  8360ae8d
- Fix executing class · fa935dce
  Peter van 't Hof authored 9 years ago
  
  fa935dce
- Fix method · 57cf8d95
  Peter van 't Hof authored 9 years ago
  
  57cf8d95
- Upgrade to Queue 3.4 · a0364182
  Peter van 't Hof authored 9 years ago
  
  a0364182
Jul 30, 2015
- Bumb version to 0.5.0-DEV · c3b83b90
  Peter van 't Hof authored 9 years ago
  
  c3b83b90
- Bumb version to 0.4.0 · 6186881d
  Peter van 't Hof authored 9 years ago
  
  6186881d
- Fix bug on log file · 002e9052
  Peter van 't Hof authored 9 years ago
  
  002e9052
Jul 28, 2015
- Remove some defaults · bc2a511c
  Peter van 't Hof authored 9 years ago
  
  bc2a511c