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Commit 741ab7f5 authored by Peter van 't Hof's avatar Peter van 't Hof
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Simplify dbsnp

parent ba60c6d4
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Showing with 3 additions and 3 deletions
biopet-core/src/main/scala/nl/lumc/sasc/biopet/core/Reference.scala
View file @ 741ab7f5
......@@ -58,9 +58,9 @@ trait Reference extends Configurable {
}
lazy val geneAnnotationVersion: Option[String] = config("gene_annotation_name")
lazy val geneAnnotationSubPath = geneAnnotationVersion.map(x => List("gene_annotations", x)).getOrElse(Nil)
lazy val dbsnpVersion: Option[Int] = config("dbsnp_version")
lazy val dbsnpSubPath: List[String] = dbsnpVersion.map(x => List("dbsnp_annotations", x.toString)).getOrElse(Nil)
lazy val geneAnnotationSubPath = geneAnnotationVersion.map(List("gene_annotations", _)).getOrElse(Nil)
lazy val dbsnpVersion: Option[String] = config("dbsnp_version")
lazy val dbsnpSubPath: List[String] = dbsnpVersion.map(List("dbsnp_annotations", _)).getOrElse(Nil)
def dbsnpVcfFile: Option[File] = config("dbsnp_vcf", extraSubPath = dbsnpSubPath)
/** Returns the reference config path */
......
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