Commits · 928fbf79597a5479303eb23826634877a6c1b905 · Mirrors / biopet.biopet

Nov 08, 2014
- Added plugin to pom.xml · 928fbf79
  Peter van 't Hof authored 10 years ago
  
  928fbf79
Oct 31, 2014
- Set test dependencies scope correctly · f8b9d901
  bow authored 10 years ago
  
  f8b9d901
Oct 30, 2014
- Turn on deprecation warning and feature warning for the scala compiler · 8fe0a2bb
  bow authored 10 years ago
  
  8fe0a2bb
- prettify pom.xml · 4cc2d991
  bow authored 10 years ago
  
  4cc2d991
Oct 28, 2014
- #77 add the scaliform maven plugin to pom and disable the checkstyle (for netbeans) · c812fd04
  wyleung authored 10 years ago
  
  c812fd04
Oct 27, 2014
- Add mockito dependency · 256ca27f
  bow authored 10 years ago
  
  256ca27f
- Switch to Gatk/Queue 3.3 · 1b165e17
  Peter van 't Hof authored 10 years ago
  
  1b165e17
- Revert back to JDK 1.7 due to regression in GATK 3.3 · 4548f60c
  bow authored 10 years ago
  
  4548f60c
- Switch to Gatk/Queue 3.3 · 02c6c7db
  Peter van 't Hof authored 10 years ago
  
  02c6c7db
Oct 24, 2014
- Pipeline fixes · 8dee06e5
  wyleung authored 10 years ago
  
  8dee06e5
- messing with poms · 3f65618b
  wyleung authored 10 years ago
  
  3f65618b
Oct 22, 2014
- Begin 0.2.0-DEV · 1043a54f
  Peter van 't Hof authored 10 years ago
  
  1043a54f
- Added version to usage of main executeble · c7646d66
  Peter van 't Hof authored 10 years ago
  
  c7646d66
Oct 21, 2014
- Added git hash and version to final jar file, jar will also now contain a git.properties file · cabe8d0c
  Peter van 't Hof authored 10 years ago
  
  cabe8d0c
Oct 14, 2014
- Netbeans config, automatic convert to LF instead of CRLF · 60c0ac17
  wyleung authored 10 years ago
  
  60c0ac17
Oct 09, 2014
- Added scopts library and log4j to ToolCommands · a87a80de
  Peter van 't Hof authored 10 years ago
  
  a87a80de
- Use orestes.bloomfilter instead of com.twitter.algebird for Bloom filter implementation · 2594289d
  bow authored 10 years ago
  
  Conflicts: biopet-framework/src/main/scala/nl/lumc/sasc/biopet/core/apps/WipeReads.scala
  2594289d
Oct 07, 2014
- Add algebird dependency · 4ec31659
  bow authored 10 years ago
  
  4ec31659
- Add dependency for scalatest · f5b5eeb9
  bow authored 10 years ago
  
  f5b5eeb9
Sep 09, 2014
- put all back because breaking some gatk modules · f75d3b63
  Peter van 't Hof authored 10 years ago
  
  f75d3b63
Aug 29, 2014
- Added tagcounting to Sage pipeline · 7d8f335d
  Peter van 't Hof authored 10 years ago
  
  7d8f335d
Aug 26, 2014
- Fix error in biopet-framework pom.xml file · 80ba94d1
  bow authored 10 years ago
  
  80ba94d1
Aug 25, 2014

Added Sage pipeline · 1ddd45ad
Peter van 't Hof authored 10 years ago

1ddd45ad

Peter van 't Hof authored 10 years ago

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 10 years ago

7624b929

Aug 11, 2014
- Add unit tests to Ln extension · dd952f2e
  bow authored 10 years ago
  
  dd952f2e
Jul 22, 2014
- Switch to Argonaut library · 7ef47a09
  Peter van 't Hof authored 10 years ago
  
  7ef47a09
Jul 21, 2014
- Collected all gatk pipelines/artifacts into 1 maven project · 2f47af7e
  Peter van 't Hof authored 10 years ago
  
  2f47af7e
Jul 18, 2014
- update for Queue/GATK 3.2-2 · 3b0a7242
  Peter van 't Hof authored 10 years ago
  
  3b0a7242
Jul 15, 2014
- Update to Queue/GATK 3.2 · 0a33b3d3
  Peter van 't Hof authored 10 years ago
  
  0a33b3d3
Jun 27, 2014
- Added dependency · e1490bad
  Peter van 't Hof authored 10 years ago
  
  e1490bad
Jun 23, 2014
- pom changes for start of 0.1.3 · 9e9e6022
  Peter van 't Hof authored 10 years ago
  
  9e9e6022
Jun 19, 2014
- Packaging changed, no scala compiler anymore in jar · 27de6356
  Peter van 't Hof authored 10 years ago
  
  27de6356
Jun 17, 2014
- version changes · f0705ac8
  Peter van 't Hof authored 10 years ago
  
  removing source files from jar packaging
  f0705ac8
Jun 03, 2014
- Added shading for framework, Queue is now included in the jar of the framework · d5a50842
  Peter van 't Hof authored 10 years ago
  
  d5a50842
May 15, 2014
- Remove submodules · b26d817a
  Peter van 't Hof authored 10 years ago
  
  b26d817a