# HG changeset patch
# User biowebdb
# Date 1395341863 14400
# Node ID 79fa20b1445fad7b2efa8096a8365203fc366db8

Initial version

diff -r 000000000000 -r 79fa20b1445f Flash.xml
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/Flash.xml	Thu Mar 20 14:57:43 2014 -0400
@@ -0,0 +1,37 @@
+<tool id="stingray_Flash" name="Flash">
+  <description>Flash</description>
+
+  <command interpreter="ruby">Flash_wrapper.rb $sequence1 $sequence2 $readLen $fragLen $maxOverlap $extended $not1 $not2</command>
+
+  <inputs>
+    <param format="fastq" name="sequence1" type="data" label=""/>
+    <param format="fastq" name="sequence2" type="data" label=""/>
+    <param name="readLen" size="10" type="text" value="100">
+      <label>Average read length</label>
+    </param>
+    <param name="fragLen" size="10" type="text" value="180">
+      <label>Fragment length</label>
+    </param>
+   <param name="maxOverlap" size="10" type="text" value="70">
+      <label>Maximum overlap length</label>
+    </param>
+
+
+  </inputs>
+
+  <outputs>
+    <data format="fastq" name="not1" label="NotCombined1"/>
+    <data format="fastq" name="not2" label="NotCombined2"/>
+    <data format="fastq" name="extended" label="Combined Reads"/>
+  </outputs>
+
+  <tests>
+    <test>
+    </test>
+  </tests>
+
+  <help>
+  </help>
+
+</tool>
+