Commit 9789e9e6 authored by bow's avatar bow
Browse files

Add library pair information to sample metrics

parent 1de28c56
...@@ -351,11 +351,14 @@ class Gentrap(val root: Configurable) extends QScript with MultiSampleQScript wi ...@@ -351,11 +351,14 @@ class Gentrap(val root: Configurable) extends QScript with MultiSampleQScript wi
override def sampleDir: File = new File(outputDir, "sample_" + sampleId) override def sampleDir: File = new File(outputDir, "sample_" + sampleId)
/** Summary stats of the sample */ /** Summary stats of the sample */
def summaryStats: Map[String, Any] = Map() def summaryStats: Map[String, Any] = Map(
"all_paired" -> allPaired,
"all_single" -> allSingle
)
/** Summary files of the sample */ /** Summary files of the sample */
def summaryFiles: Map[String, File] = Map( def summaryFiles: Map[String, File] = Map(
"alignment" -> alnFile, "alignment" -> alnFile
) ++ Map( ) ++ Map(
"gene_fragments_count" -> geneFragmentsCount, "gene_fragments_count" -> geneFragmentsCount,
"exon_fragments_count" -> exonFragmentsCount, "exon_fragments_count" -> exonFragmentsCount,
......
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