Commit a24c96ad authored by bow's avatar bow
Browse files

Fix wrong output setting in CustomVarScan

parent 68eefc48
......@@ -71,7 +71,6 @@ class CustomVarScan(val root: Configurable) extends BiopetCommandLineFunction {
private val compress = new Bgzip(wrapper.root)
private val index = new Tabix(wrapper.root) {
input = compress.output
p = Option("vcf")
}
......@@ -79,6 +78,7 @@ class CustomVarScan(val root: Configurable) extends BiopetCommandLineFunction {
varscan.output = Option(new File(wrapper.output.toString.stripSuffix(".gz")))
compress.input = List(varscan.output.get)
compress.output = this.output
index.input = compress.output
super.freezeFieldValues()
varscan.qSettings = this.qSettings
varscan.freezeFieldValues()
......
Supports Markdown
0% or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment