Commits · 1572cb02a98140c3512f93420115bb9b8c2f10bd · Mirrors / biopet.biopet

09 Dec, 2014 1 commit
- Change Pom to version 0.2.0 · 1572cb02
  Peter van 't Hof authored Dec 09, 2014
  
  1572cb02
05 Dec, 2014 1 commit
- Added License to header of all files · b2a02952
  Peter van 't Hof authored Dec 05, 2014
  
  b2a02952
04 Dec, 2014 1 commit
- Change pom to version 0.2.0-rc1 · 203b60cc
  Peter van 't Hof authored Dec 04, 2014
  
  203b60cc
24 Nov, 2014 1 commit
- now works with parent poms · e07befed
  Peter van 't Hof authored Nov 24, 2014
  
  e07befed
22 Nov, 2014 3 commits
- Remove unused xml code · bd27470f
  Peter van 't Hof authored Nov 22, 2014
  
  bd27470f
- Separate framework from packaging · 34023585
  Peter van 't Hof authored Nov 22, 2014
  
  34023585
- Move BiopetFramework to public maven project · 7d730675
  Peter van 't Hof authored Nov 22, 2014
  
  7d730675
18 Nov, 2014 2 commits
- Exclude gsalib from jar for now · 9ef68854
  Peter van 't Hof authored Nov 18, 2014
  
  9ef68854
- Start to build from public branch of queue · 3558fda1
  Peter van 't Hof authored Nov 18, 2014
  
  3558fda1
10 Nov, 2014 1 commit
- Switch to own License file · b2838761
  Peter van 't Hof authored Nov 10, 2014
  
  b2838761
08 Nov, 2014 1 commit
- Added plugin to pom.xml · 928fbf79
  Peter van 't Hof authored Nov 08, 2014
  
  928fbf79
31 Oct, 2014 1 commit
- Set test dependencies scope correctly · f8b9d901
  bow authored Oct 31, 2014
  
  f8b9d901
30 Oct, 2014 2 commits
- Turn on deprecation warning and feature warning for the scala compiler · 8fe0a2bb
  bow authored Oct 30, 2014
  
  8fe0a2bb
- prettify pom.xml · 4cc2d991
  bow authored Oct 30, 2014
  
  4cc2d991
28 Oct, 2014 1 commit
- #77 add the scaliform maven plugin to pom and disable the checkstyle (for netbeans) · c812fd04
  wyleung authored Oct 28, 2014
  
  c812fd04
27 Oct, 2014 4 commits
- Add mockito dependency · 256ca27f
  bow authored Oct 27, 2014
  
  256ca27f
- Switch to Gatk/Queue 3.3 · 1b165e17
  Peter van 't Hof authored Oct 27, 2014
  
  1b165e17
- Revert back to JDK 1.7 due to regression in GATK 3.3 · 4548f60c
  bow authored Oct 27, 2014
  
  4548f60c
- Switch to Gatk/Queue 3.3 · 02c6c7db
  Peter van 't Hof authored Oct 27, 2014
  
  02c6c7db
24 Oct, 2014 2 commits
- Pipeline fixes · 8dee06e5
  wyleung authored Oct 24, 2014
  
  8dee06e5
- messing with poms · 3f65618b
  wyleung authored Oct 24, 2014
  
  3f65618b
22 Oct, 2014 3 commits
- Version upgrade after hotfix · 808646d4
  Peter van 't Hof authored Oct 22, 2014
  
  808646d4
- Begin 0.2.0-DEV · 1043a54f
  Peter van 't Hof authored Oct 22, 2014
  
  1043a54f
- Added version to usage of main executeble · c7646d66
  Peter van 't Hof authored Oct 22, 2014
  
  c7646d66
21 Oct, 2014 1 commit
- Added git hash and version to final jar file, jar will also now contain a git.properties file · cabe8d0c
  Peter van 't Hof authored Oct 21, 2014
  
  cabe8d0c
14 Oct, 2014 1 commit
- Netbeans config, automatic convert to LF instead of CRLF · 60c0ac17
  wyleung authored Oct 14, 2014
  
  60c0ac17
09 Oct, 2014 2 commits
- Added scopts library and log4j to ToolCommands · a87a80de
  Peter van 't Hof authored Oct 09, 2014
  
  a87a80de
- Use orestes.bloomfilter instead of com.twitter.algebird for Bloom filter implementation · 2594289d
  bow authored Oct 09, 2014
```
Conflicts:
	biopet-framework/src/main/scala/nl/lumc/sasc/biopet/core/apps/WipeReads.scala
```
  2594289d
07 Oct, 2014 2 commits
- Add algebird dependency · 4ec31659
  bow authored Oct 02, 2014
  
  4ec31659
- Add dependency for scalatest · f5b5eeb9
  bow authored Sep 30, 2014
  
  f5b5eeb9
09 Sep, 2014 1 commit
- put all back because breaking some gatk modules · f75d3b63
  Peter van 't Hof authored Sep 09, 2014
  
  f75d3b63
29 Aug, 2014 1 commit
- Added tagcounting to Sage pipeline · 7d8f335d
  Peter van 't Hof authored Aug 29, 2014
  
  7d8f335d
26 Aug, 2014 1 commit
- Fix error in biopet-framework pom.xml file · 80ba94d1
  bow authored Aug 26, 2014
  
  80ba94d1
25 Aug, 2014 3 commits

Added Sage pipeline · 1ddd45ad
Peter van 't Hof authored Aug 25, 2014

1ddd45ad

Peter van 't Hof authored Aug 25, 2014

Conflicts:
	flexiprep/nbactions.xml
	gatk/gatk-pipeline/src/main/scala/nl/lumc/sasc/biopet/pipelines/gatk/GatkPipeline.scala
	gatk/gatk-variantcalling/src/main/scala/nl/lumc/sasc/biopet/pipelines/gatk/GatkVariantcalling.scala
	mapping/examples/test.json
	mapping/nbactions.xml
	pom.xml

4557807c

Merge all maven packages into 1 · 7624b929
Peter van 't Hof authored Aug 25, 2014

7624b929

11 Aug, 2014 1 commit
- Add unit tests to Ln extension · dd952f2e
  bow authored Aug 11, 2014
  
  dd952f2e
22 Jul, 2014 1 commit
- Switch to Argonaut library · 7ef47a09
  Peter van 't Hof authored Jul 22, 2014
  
  7ef47a09
21 Jul, 2014 1 commit
- Collected all gatk pipelines/artifacts into 1 maven project · 2f47af7e
  Peter van 't Hof authored Jul 21, 2014
  
  2f47af7e
18 Jul, 2014 1 commit
- update for Queue/GATK 3.2-2 · 3b0a7242
  Peter van 't Hof authored Jul 18, 2014
  
  3b0a7242