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Merge branch 'patch-flagstat_dirs' into 'develop'
Patch flagstat dirs This fixes the recent update of `ouputDir` from `String` to `File`. There are some `apply` method that are overloaded with both `String` and `File`, causing the pipeline to spew out weird error messages. @p.j.van_t_hof ~ this is what was causing the weird error earlier. See merge request !101
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- public/bammetrics/src/main/scala/nl/lumc/sasc/biopet/pipelines/bammetrics/BamMetrics.scala 2 additions, 2 deletions...nl/lumc/sasc/biopet/pipelines/bammetrics/BamMetrics.scala
- public/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/extensions/samtools/SamtoolsFlagstat.scala 3 additions, 15 deletions...mc/sasc/biopet/extensions/samtools/SamtoolsFlagstat.scala
- public/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/tools/BiopetFlagstat.scala 2 additions, 8 deletions...main/scala/nl/lumc/sasc/biopet/tools/BiopetFlagstat.scala
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