Commits · a5f383c53fd6a9e2d83eb213b1be6996a0101114 · Mirrors / biopet.biopet

01 Jul, 2016 3 commits
- Fixing failing tests · a5f383c5
  Peter van 't Hof authored Jul 01, 2016
  
  a5f383c5
- Style fixes · 431621b2
  Peter van 't Hof authored Jul 01, 2016
  
  431621b2
- Reducing number of tests in gentrap · 0f03cdf4
  Peter van 't Hof authored Jul 01, 2016
  
  0f03cdf4
29 Jun, 2016 3 commits
- Merge branch '361-fix-wipereads-extension' into 'develop' · 0bc09ac2
  Peter van 't Hof authored Jun 29, 2016
```
Fixing WipeReads

Closes #361

See merge request !428
```
  0bc09ac2
- Style fix · 8b40a367
  Wai Yi Leung authored Jun 29, 2016
  
  8b40a367
- Update code with fixes from Peter · dd458aef
  Wai Yi Leung authored Jun 29, 2016
  
  dd458aef
28 Jun, 2016 2 commits

Merge branch 'fix-vcfstats-summary' into 'develop' · 736e0109

Peter van 't Hof authored Jun 28, 2016

Fix vcfstats summary

Fix VCFStats such that shiva functional test with shiva summary passes. 

See merge request !429

736e0109

Merge branch 'feature-downloadsample_gears' into 'develop' · 16f002bc
bow authored Jun 28, 2016
```
Feature downloadsample gears

This is a change on request for project 122

See merge request !415
```
16f002bc

27 Jun, 2016 7 commits
- Merge branch 'develop' into fix-vcfstats-summary · 4fba67e1
  Sander Bollen authored Jun 27, 2016
  
  4fba67e1
- Style changes · daeedb39
  Peter van 't Hof authored Jun 27, 2016
  
  daeedb39
- More fail safe testing · 64c3d40e
  Peter van 't Hof authored Jun 27, 2016
  
  64c3d40e
- Fixed executable in test · c2ff92e7
  Peter van 't Hof authored Jun 27, 2016
  
  c2ff92e7
- Remove unused imports · ab10d3b9
  Peter van 't Hof authored Jun 27, 2016
  
  ab10d3b9
- Fixed removing of files on test time · 868e54ac
  Peter van 't Hof authored Jun 27, 2016
  
  868e54ac
- Added more testing to gears · 8469a4d0
  Peter van 't Hof authored Jun 27, 2016
  
  8469a4d0
24 Jun, 2016 4 commits
- Set defaults · afe2bbcb
  Wai Yi Leung authored Jun 24, 2016
  
  afe2bbcb
- Clean up the possible run modes · d475e1dc
  Wai Yi Leung authored Jun 24, 2016
  
  d475e1dc
- add test for WipeReads, check on instance in Gentrap · b55361cd
  Wai Yi Leung authored Jun 24, 2016
  
  b55361cd
- Fixing WipeReads · c7be8c6d
  Wai Yi Leung authored Jun 24, 2016
  
  c7be8c6d
21 Jun, 2016 7 commits
- Remove unused import · bc065254
  Peter van 't Hof authored Jun 21, 2016
  
  bc065254
- Changed test for gears · 75470c69
  Peter van 't Hof authored Jun 21, 2016
  
  75470c69
- Merge branch 'fix-gentrap_default_aligner' into 'develop' · bb8b4550
  bow authored Jun 21, 2016
```
Added testing for aligner in gentrap

Fixes #360 

See merge request !427
```
  bb8b4550
- Fixed docs · a8eedb50
  Peter van 't Hof authored Jun 21, 2016
  
  a8eedb50
- Fixed default aligner in Gentrap · b2ff131d
  Peter van 't Hof authored Jun 21, 2016
  
  b2ff131d
- Fixed test · 0086a0a5
  Peter van 't Hof authored Jun 21, 2016
  
  0086a0a5
- Added testing for aligner in gentrap · 3ef511a0
  Peter van 't Hof authored Jun 21, 2016
  
  3ef511a0
20 Jun, 2016 8 commits
- Merge branch 'fix-vep-flag-message' into 'develop' · 25d7f27b
  Peter van 't Hof authored Jun 20, 2016
```
fix tiny toucan issue



See merge request !426
```
  25d7f27b
- Added docs · a1cc8240
  Peter van 't Hof authored Jun 20, 2016
  
  a1cc8240
- Fixed biom to krona · b8ce6418
  Peter van 't Hof authored Jun 20, 2016
  
  b8ce6418
- match message with code · bdd9d532
  Sander Bollen authored Jun 20, 2016
  
  bdd9d532
- Added a skip option in merge otu maps tool · 4f2a0f07
  Peter van 't Hof authored Jun 20, 2016
  
  4f2a0f07
- Added report to qiime open reference · bace55eb
  Peter van 't Hof authored Jun 20, 2016
  
  bace55eb
- Added open reference method · 7657016c
  Peter van 't Hof authored Jun 20, 2016
  
  7657016c
- Disable default library calling · 7c40ad23
  Peter van 't Hof authored Jun 20, 2016
  
  7c40ad23
15 Jun, 2016 1 commit
- Fixed output files name · 6e5dd48d
  Peter van 't Hof authored Jun 15, 2016
  
  6e5dd48d
14 Jun, 2016 5 commits
- Merge branch 'feature-idsort_htseq' into 'develop' · d717a546
  bow authored Jun 14, 2016
```
Added id sorting step

Fixes #346 

See merge request !407
```
  d717a546
- Adding more logging · a9ea63e5
  Peter van 't Hof authored Jun 14, 2016
  
  a9ea63e5
- Merge remote-tracking branch 'remotes/origin/develop' into feature-downloadsample_gears · 5c4cadf5
  Peter van 't Hof authored Jun 14, 2016
```
# Conflicts:
#	gears/src/test/scala/nl/lumc/sasc/biopet/pipelines/gears/GearsSingleTest.scala
```
  5c4cadf5
- Merge branch 'fix-smallrna-defaultsettings' into 'develop' · 807482be
  Peter van 't Hof authored Jun 14, 2016
```
Fix smallrna defaultsettings

Change settings to validated settings (by Peter Bram)

See merge request !424
```
  807482be
- Remove unused imports · f6f703ca
  Peter van 't Hof authored Jun 14, 2016
  
  f6f703ca