From b83f57360207a7eb91bf9a48ed8062c95fb53166 Mon Sep 17 00:00:00 2001
From: bow <bow@bow.web.id>
Date: Thu, 4 Dec 2014 10:02:32 +0100
Subject: [PATCH] Pattern match refactor in ExtractAlignedFastq
---
.../nl/lumc/sasc/biopet/tools/ExtractAlignedFastq.scala | 5 ++---
1 file changed, 2 insertions(+), 3 deletions(-)
diff --git a/public/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/tools/ExtractAlignedFastq.scala b/public/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/tools/ExtractAlignedFastq.scala
index b05591cbf..0b569d6c4 100644
--- a/public/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/tools/ExtractAlignedFastq.scala
+++ b/public/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/tools/ExtractAlignedFastq.scala
@@ -55,14 +55,13 @@ object ExtractAlignedFastq extends ToolCommand {
// by the Interval constructor only accepting ints
def intFromCoord(s: String): Int = s.replaceAll(",", "").replaceAll("\\.", "").toInt
- inStrings.map(x => x match {
+ inStrings.map {
case ptn1(chr, start, end) => new Interval(chr, intFromCoord(start), intFromCoord(end))
case ptn2(chr, start) =>
val startCoord = intFromCoord(start)
new Interval(chr, startCoord, startCoord)
case _ => throw new IllegalArgumentException("Invalid interval string: " + x)
- })
- .toIterator
+ }.toIterator
}
/**
--
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