Merge branch 'feature-scoverage' into 'develop'
Feature scoverage In this merge I try to fix #123 and #37 See merge request !240
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- biopet-aggregate/copy-src.sh 6 additions, 0 deletionsbiopet-aggregate/copy-src.sh
- biopet-aggregate/pom.xml 46 additions, 0 deletionsbiopet-aggregate/pom.xml
- biopet-aggregate/rm-src.sh 6 additions, 0 deletionsbiopet-aggregate/rm-src.sh
- biopet-aggregate/src/.gitignore 2 additions, 0 deletionsbiopet-aggregate/src/.gitignore
- pom.xml 1 addition, 0 deletionspom.xml
- protected/biopet-gatk-pipelines/src/test/scala/nl/lumc/sasc/biopet/pipelines/gatk/ShivaTest.scala 17 additions, 33 deletions.../scala/nl/lumc/sasc/biopet/pipelines/gatk/ShivaTest.scala
- protected/biopet-gatk-pipelines/src/test/scala/nl/lumc/sasc/biopet/pipelines/gatk/ShivaVariantcallingTest.scala 0 additions, 1 deletion.../sasc/biopet/pipelines/gatk/ShivaVariantcallingTest.scala
- public/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/picard/CollectAlignmentSummaryMetrics.scala 8 additions, 2 deletions...et/extensions/picard/CollectAlignmentSummaryMetrics.scala
- public/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/picard/CollectInsertSizeMetrics.scala 4 additions, 2 deletions...c/biopet/extensions/picard/CollectInsertSizeMetrics.scala
- public/carp/src/test/scala/nl/lumc/sasc/biopet/pipelines/carp/CarpTest.scala 0 additions, 1 deletion...t/scala/nl/lumc/sasc/biopet/pipelines/carp/CarpTest.scala
- public/gentrap/src/test/scala/nl/lumc/sasc/biopet/pipelines/gentrap/GentrapTest.scala 0 additions, 1 deletion...a/nl/lumc/sasc/biopet/pipelines/gentrap/GentrapTest.scala
- public/pom.xml 17 additions, 3 deletionspublic/pom.xml
- public/shiva/src/test/scala/nl/lumc/sasc/biopet/pipelines/shiva/ShivaTest.scala 0 additions, 1 deletion...scala/nl/lumc/sasc/biopet/pipelines/shiva/ShivaTest.scala
- public/shiva/src/test/scala/nl/lumc/sasc/biopet/pipelines/shiva/ShivaVariantcallingTest.scala 0 additions, 1 deletion...sasc/biopet/pipelines/shiva/ShivaVariantcallingTest.scala
- public/yamsvp/src_old/main/scala/nl/lumc/sasc/biopet/extensions/pindel/Pindel.scala 0 additions, 0 deletions.../scala/nl/lumc/sasc/biopet/extensions/pindel/Pindel.scala
- public/yamsvp/src_old/main/scala/nl/lumc/sasc/biopet/extensions/pindel/PindelCaller.scala 0 additions, 0 deletions.../nl/lumc/sasc/biopet/extensions/pindel/PindelCaller.scala
- public/yamsvp/src_old/main/scala/nl/lumc/sasc/biopet/extensions/pindel/PindelConfig.scala 0 additions, 0 deletions.../nl/lumc/sasc/biopet/extensions/pindel/PindelConfig.scala
- public/yamsvp/src_old/main/scala/nl/lumc/sasc/biopet/pipelines/yamsvp/Yamsvp.scala 0 additions, 0 deletions...n/scala/nl/lumc/sasc/biopet/pipelines/yamsvp/Yamsvp.scala
- public/yamsvp/src_old/test/resources/log4j.properties 0 additions, 0 deletionspublic/yamsvp/src_old/test/resources/log4j.properties
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