From 3c5e4e884ed9fc67145ef9d1424eb93a42221c8f Mon Sep 17 00:00:00 2001
From: Peter van 't Hof <p.j.van_t_hof@lumc.nl>
Date: Wed, 23 Dec 2015 20:01:41 +0100
Subject: [PATCH] Added a prettyXmlPrinter
---
.../nl/lumc/sasc/biopet/pipelines/gears/GearsKraken.scala | 5 +++--
1 file changed, 3 insertions(+), 2 deletions(-)
diff --git a/public/gears/src/main/scala/nl/lumc/sasc/biopet/pipelines/gears/GearsKraken.scala b/public/gears/src/main/scala/nl/lumc/sasc/biopet/pipelines/gears/GearsKraken.scala
index ba20fd2cc..3c5c0dee5 100644
--- a/public/gears/src/main/scala/nl/lumc/sasc/biopet/pipelines/gears/GearsKraken.scala
+++ b/public/gears/src/main/scala/nl/lumc/sasc/biopet/pipelines/gears/GearsKraken.scala
@@ -11,7 +11,7 @@ import nl.lumc.sasc.biopet.utils.config.Configurable
import org.broadinstitute.gatk.queue.QScript
import scala.collection.mutable
-import scala.xml.Node
+import scala.xml.{PrettyPrinter, Node}
/**
* Created by pjvanthof on 04/12/15.
@@ -141,7 +141,8 @@ object GearsKraken {
</krona>
val writer = new PrintWriter(outputFile)
- writer.println(xml.copy(child = xml.child ++ createNodes(taxs)).toString())
+ val prettyXml = new PrettyPrinter(80, 2)
+ writer.println(prettyXml.format(xml.copy(child = xml.child ++ createNodes(taxs))))
writer.close()
}
}
\ No newline at end of file
--
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