Commit c906dc08 authored by Peter van 't Hof's avatar Peter van 't Hof

Added report to pipeline

parent 1a4b1b9a
......@@ -61,7 +61,7 @@ class DownloadGenomes(val root: Configurable) extends QScript with BiopetQScript
val downloadAssembly = new DownloadNcbiAssembly(this)
downloadAssembly.assemblyId = assemblyID
downloadAssembly.output = fastaFile
downloadAssembly.outputReport = new File(genomeDir, s"$speciesName-$")
downloadAssembly.nameHeader = referenceConfig.get("ncbi_assembly_header_name").map(_.toString)
downloadAssembly.mustHaveOne = referenceConfig.get("ncbi_assembly_must_have_one")
.map(_.asInstanceOf[Map[String, String]])
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