Commits · 1410432c301b405bcbfe7356c3e5495a9d628883 · Mirrors / biopet.biopet

27 Jan, 2015 1 commit
- Switch to abstract init function · 1410432c
  Peter van 't Hof authored Jan 27, 2015
  
  1410432c
26 Jan, 2015 1 commit
- Moved init of vars · 7911ce0e
  Peter van 't Hof authored Jan 26, 2015
  
  7911ce0e
21 Jan, 2015 4 commits
- Change Sage pipeline for multisample classes · edd629fa
  Peter van 't Hof authored Jan 21, 2015
  
  edd629fa
- Added defaultSample and defaultLibrary · 789bfa8e
  Peter van 't Hof authored Jan 21, 2015
  
  789bfa8e
- Added a template as example · a878479e
  Peter van 't Hof authored Jan 21, 2015
  
  a878479e
- Change sample to var · 55378379
  Peter van 't Hof authored Jan 21, 2015
  
  55378379
20 Jan, 2015 7 commits
- Switch Sage pipeline to new abstract classes · 36c29d93
  Peter van 't Hof authored Jan 20, 2015
  
  36c29d93
- New abstract classes for samples and libraries · f9cef581
  Peter van 't Hof authored Jan 20, 2015
  
  f9cef581
- Fixed nullpointer · 1c6ea1d9
  Peter van 't Hof authored Jan 20, 2015
  
  1c6ea1d9
- Changing pipeline to improved multisampleQScript · 33e6ef14
  Peter van 't Hof authored Jan 20, 2015
  
  33e6ef14
- Simplify multisampleQscript · a5fb226c
  Peter van 't Hof authored Jan 20, 2015
  
  a5fb226c
- Merge branch 'feature-improve_config_report' into 'develop' · 1dc0cde8
  bow authored Jan 20, 2015
```
Feature improve config report

For for #99

Also some preparations for #55

See merge request !71
```
  1dc0cde8
- Added a TODO to change files and strings · 96557540
  Peter van 't Hof authored Jan 20, 2015
  
  96557540
19 Jan, 2015 2 commits
- Fix on md5 check · d7c60cc3
  Peter van 't Hof authored Jan 19, 2015
  
  d7c60cc3
- Remove unused vars · b3ae6caf
  Peter van 't Hof authored Jan 19, 2015
  
  b3ae6caf
16 Jan, 2015 18 commits
- make aln/sampe/samse jobs intermediate · 8e8b825e
  Peter van 't Hof authored Jan 16, 2015
  
  8e8b825e
- Added bwa aln to mapping pipeline · bdc6999e
  Peter van 't Hof authored Jan 16, 2015
  
  bdc6999e
- AddedOutput not required · 43955884
  Peter van 't Hof authored Jan 16, 2015
  
  43955884
- Added sampe · ff81ebd3
  Peter van 't Hof authored Jan 16, 2015
  
  ff81ebd3
- Added samse · 1f867d68
  Peter van 't Hof authored Jan 16, 2015
  
  1f867d68
- Added bwa aln extension · 7bea64ef
  Peter van 't Hof authored Jan 16, 2015
  
  7bea64ef
- Make new package for bwa · 36e763df
  Peter van 't Hof authored Jan 16, 2015
  
  36e763df
- Move aligners to nl.lumc.sasc.biopet.exetensions · 695650c2
  Peter van 't Hof authored Jan 16, 2015
  
  695650c2
- Fix unit testing · 14e2e355
  Peter van 't Hof authored Jan 16, 2015
  
  14e2e355
- Remove old report · 9e21462b
  Peter van 't Hof authored Jan 16, 2015
  
  9e21462b
- Make null values in json possible as input · 7bd7b5a9
  Peter van 't Hof authored Jan 16, 2015
  
  7bd7b5a9
- Fix RGPI config var · 9c2720bf
  Peter van 't Hof authored Jan 16, 2015
  
  9c2720bf
- Fix default sample and library · 8b4d55c2
  Peter van 't Hof authored Jan 16, 2015
  
  8b4d55c2
- Remove unused function · 14fe91d9
  Peter van 't Hof authored Jan 16, 2015
  
  14fe91d9
- Switch to config instead of sampleConfig and libraryConfig · 6c8f5376
  Peter van 't Hof authored Jan 16, 2015
  
  6c8f5376
- Added sub path instead of submodule · 768d77cc
  Peter van 't Hof authored Jan 16, 2015
  
  768d77cc
- Fix Path orders · 6da08ccb
  Peter van 't Hof authored Jan 16, 2015
  
  6da08ccb
- Added merged input config · 72efd86a
  Peter van 't Hof authored Jan 16, 2015
  
  72efd86a
15 Jan, 2015 3 commits
- Added a null value on None · c4b74ae4
  Peter van 't Hof authored Jan 15, 2015
  
  c4b74ae4
- Add new config report to biopetQScript · 5f5ec879
  Peter van 't Hof authored Jan 15, 2015
  
  5f5ec879
- First version of new config report · 833eeead
  Peter van 't Hof authored Jan 15, 2015
  
  833eeead
14 Jan, 2015 4 commits
- Merge branch 'feature-config_unittest' into 'develop' · bd732f66
  bow authored Jan 14, 2015
```
Feature config unittest

See also #89

Also some start for issue #55

See merge request !65
```
  bd732f66
- Added scala docs · 43f8ced5
  Peter van 't Hof authored Jan 14, 2015
  
  43f8ced5
- Merge branch 'feature-fix_contams' into 'develop' · 86e3b9eb
  bow authored Jan 14, 2015
```
Feature fix contams

Fix for #11

See merge request !69
```
  86e3b9eb
- Merge branch 'feature-prefix_fastq' into 'develop' · 259e3372
  bow authored Jan 14, 2015
```
Feature prefix fastq

Fix for #48

See merge request !68
```
  259e3372