Commits · e5cca642a04efc1c8eb69d4082751c32ab3e65d1 · Mirrors / biopet.biopet

10 Sep, 2015 8 commits
- Generate new module · e5cca642
  Peter van 't Hof authored Sep 10, 2015
  
  e5cca642
- Move executable classes out of the core · 3327c0c8
  Peter van 't Hof authored Sep 10, 2015
  
  3327c0c8
- Merge branch 'tooltests' into 'develop' · b7ae99c2
  Wai Yi Leung authored Sep 10, 2015
```
Tooltests

Fixes #188, #196  and #200 

See merge request !224
```
  b7ae99c2
- Adding -o option to hide output from stdout · 9c9edf13
  Peter van 't Hof authored Sep 10, 2015
  
  9c9edf13
- Capture stderr · 5f0b7d9a
  Peter van 't Hof authored Sep 10, 2015
  
  5f0b7d9a
- Redirecting output to a file · e683889c
  Peter van 't Hof authored Sep 10, 2015
  
  e683889c
- Redirecting output to a file · 7c3a9d09
  Peter van 't Hof authored Sep 10, 2015
  
  7c3a9d09
- Added -o option · a386583c
  Peter van 't Hof authored Sep 10, 2015
  
  a386583c
09 Sep, 2015 16 commits
- More compact help text · cb3dfee1
  Peter van 't Hof authored Sep 09, 2015
  
  cb3dfee1
- Adding output file, output not to stdout anymore · d0887e43
  Peter van 't Hof authored Sep 09, 2015
  
  d0887e43
- Output to a file, no output to stdout anymore · cf11d4ac
  Peter van 't Hof authored Sep 09, 2015
  
  cf11d4ac
- Style changes · 07d09eb4
  Peter van 't Hof authored Sep 09, 2015
  
  07d09eb4
- Add output arg to sampletsvtojson · 3265843e
  Peter van 't Hof authored Sep 09, 2015
  
  3265843e
- Add output arg to biopet flagstat · 6a83d167
  Peter van 't Hof authored Sep 09, 2015
  
  6a83d167
- Fixed arg · f2d40822
  Peter van 't Hof authored Sep 09, 2015
  
  f2d40822
- Simplify method · 0ed7ca34
  Peter van 't Hof authored Sep 09, 2015
  
  0ed7ca34
- Adding more AnyVal for better support for other types · 7d6eb6fb
  Peter van 't Hof authored Sep 09, 2015
  
  7d6eb6fb
- Possible to change output of seqstat to a file instead of stdout · ed7e9588
  Peter van 't Hof authored Sep 09, 2015
  
  ed7e9588
- Change vars to vals, possible because method 'addTagresultToTaglib' is now changed · 1c155c9b
  Peter van 't Hof authored Sep 09, 2015
  
  1c155c9b
- Change logging to logger.info · 9b465609
  Peter van 't Hof authored Sep 09, 2015
  
  9b465609
- Fix ode style · a32bc102
  Peter van 't Hof authored Sep 09, 2015
  
  a32bc102
- Auto style fixes · 782140f5
  Sander Bollen authored Sep 09, 2015
  
  782140f5
- finishing up VcfStatsTEst · e8b087a1
  Sander Bollen authored Sep 09, 2015
  
  e8b087a1
- add testCheckGeneral · 74a7b056
  Sander Bollen authored Sep 09, 2015
  
  74a7b056
08 Sep, 2015 7 commits
- sort test · e119b397
  Sander Bollen authored Sep 08, 2015
  
  e119b397
- validation of wiggle track options · 9a5d5343
  Sander Bollen authored Sep 08, 2015
  
  9a5d5343
- testing main and valuefromtsv · 9a9f6f66
  Sander Bollen authored Sep 08, 2015
  
  9a9f6f66
- testing map mergers · 6a21310f
  Sander Bollen authored Sep 08, 2015
  
  6a21310f
- create test stubs · 1dae06f5
  Sander Bollen authored Sep 08, 2015
  
  1dae06f5
- Validations and text messages for VcfStats optparser · d5b713e0
  Sander Bollen authored Sep 08, 2015
  
  d5b713e0
- fix for #200 · af8d9983
  Sander Bollen authored Sep 08, 2015
  
  af8d9983
07 Sep, 2015 8 commits
- SageCreateTagCountsTest · 895a1f22
  Sander Bollen authored Sep 07, 2015
  
  895a1f22
- fix SageCreateTagCounts · 6d2b737a
  Sander Bollen authored Sep 07, 2015
  
  6d2b737a
- Merge branch 'fix-dependencies' into 'develop' · 00ca8854
  Sander Bollen authored Sep 07, 2015
```
Resolved small dependency problems

See subject

See merge request !231
```
  00ca8854
- autostyle fixes · fed29c72
  Sander Bollen authored Sep 07, 2015
  
  fed29c72
- SageCreateLibraryTest · dca51f45
  Sander Bollen authored Sep 07, 2015
  
  dca51f45
- fixing SageCreateLibrary · ea4e9d7e
  Sander Bollen authored Sep 07, 2015
  
  ea4e9d7e
- Reverted version change · a2eed490
  Peter van 't Hof authored Sep 07, 2015
  
  a2eed490
- Merge branch 'fix-dev_to_snapshot' into 'develop' · 31ddb075
  Sander Bollen authored Sep 07, 2015
```
Changing to SNAPSHOT version, this is following the maven convention

This merge request conflict with !227, please do this merge request first, then I need to change !227 to work with this.

See merge request !232
```
  31ddb075
04 Sep, 2015 1 commit
- Changing to SNAPSHOT version, this is following the maven convention · f550b637
  Peter van 't Hof authored Sep 04, 2015
  
  f550b637