Merge branch 'feature-add_toucan_to_shiva' into 'develop'
Feature add toucan to shiva see also #176 and #182 and #183 See merge request !204
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- protected/biopet-gatk-pipelines/src/test/scala/nl/lumc/sasc/biopet/pipelines/gatk/ShivaTest.scala 3 additions, 0 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 3 additions, 0 deletions.../sasc/biopet/pipelines/gatk/ShivaVariantcallingTest.scala
- public/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/extensions/VariantEffectPredictor.scala 6 additions, 6 deletions.../lumc/sasc/biopet/extensions/VariantEffectPredictor.scala
- public/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/tools/VcfWithVcf.scala 46 additions, 8 deletions...src/main/scala/nl/lumc/sasc/biopet/tools/VcfWithVcf.scala
- public/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/tools/VepNormalizer.scala 2 additions, 2 deletions.../main/scala/nl/lumc/sasc/biopet/tools/VepNormalizer.scala
- public/biopet-framework/src/test/scala/nl/lumc/sasc/biopet/tools/VcfWithVcfTest.scala 9 additions, 8 deletions...test/scala/nl/lumc/sasc/biopet/tools/VcfWithVcfTest.scala
- public/shiva/pom.xml 5 additions, 0 deletionspublic/shiva/pom.xml
- public/shiva/src/main/scala/nl/lumc/sasc/biopet/pipelines/shiva/ShivaTrait.scala 13 additions, 3 deletions...cala/nl/lumc/sasc/biopet/pipelines/shiva/ShivaTrait.scala
- public/shiva/src/test/scala/nl/lumc/sasc/biopet/pipelines/shiva/ShivaTest.scala 3 additions, 0 deletions...scala/nl/lumc/sasc/biopet/pipelines/shiva/ShivaTest.scala
- public/shiva/src/test/scala/nl/lumc/sasc/biopet/pipelines/shiva/ShivaVariantcallingTest.scala 3 additions, 0 deletions...sasc/biopet/pipelines/shiva/ShivaVariantcallingTest.scala
- public/toucan/src/main/scala/nl/lumc/sasc/biopet/pipelines/toucan/Toucan.scala 39 additions, 4 deletions...n/scala/nl/lumc/sasc/biopet/pipelines/toucan/Toucan.scala
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