From d207b97f9b8fd89b3da070a9b62bccf0710d0626 Mon Sep 17 00:00:00 2001
From: bow <bow@bow.web.id>
Date: Thu, 10 Dec 2015 14:00:53 +0100
Subject: [PATCH] Update None pattern match to use catch-all clause
---
.../nl/lumc/sasc/biopet/pipelines/flexiprep/Cutadapt.scala | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/public/flexiprep/src/main/scala/nl/lumc/sasc/biopet/pipelines/flexiprep/Cutadapt.scala b/public/flexiprep/src/main/scala/nl/lumc/sasc/biopet/pipelines/flexiprep/Cutadapt.scala
index b2114c725..340d5e098 100644
--- a/public/flexiprep/src/main/scala/nl/lumc/sasc/biopet/pipelines/flexiprep/Cutadapt.scala
+++ b/public/flexiprep/src/main/scala/nl/lumc/sasc/biopet/pipelines/flexiprep/Cutadapt.scala
@@ -48,7 +48,7 @@ class Cutadapt(root: Configurable, fastqc: Fastqc, readName: String) extends nl.
case Some(n) => n -> Map("sequence" -> seq, "count" -> count)
// adapter sequence is clipped but not found by FastQC ~ should not happen since all clipped adapter
// sequences come from FastQC
- case None =>
+ case _ =>
throw new IllegalStateException(s"Adapter '$seq' is clipped but not found by FastQC in 'clipping_$readName'.")
}
}.toMap
@@ -58,7 +58,7 @@ class Cutadapt(root: Configurable, fastqc: Fastqc, readName: String) extends nl.
Map.empty[String, Map[String, Any]]
}
// "adapters" key not found ~ something went wrong in our part
- case None => throw new RuntimeException(s"Required key 'adapters' not found in stats entry 'clipping_$readName'.")
+ case _ => throw new RuntimeException(s"Required key 'adapters' not found in stats entry 'clipping_$readName'.")
}
initStats.updated("adapters", adapterCounts)
}
--
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