--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/resync.xml	Tue Feb 05 15:23:18 2013 -0500
@@ -0,0 +1,32 @@
+<tool id="resync" name="resync: Paired-end resynchronization" version="1.0">
+  <description>Resynchronize a pair of paired-end fastq files</description>
+  <command interpreter="perl">
+    resync.pl $input1 $input2 $output1 $output2
+  </command>
+  <inputs>
+    <param name="input1" type="data" format="fastq" label="Input 1"/>
+    <param name="input2" type="data" format="fastq" label="Input 2"/>
+  </inputs>
+  <stdio>
+    <exit_code range="1:"  level="fatal"   description="Bad input dataset" />
+  </stdio>
+  <outputs>
+    <data format_source="input1" name="output1" label="resync ${input1.name}"/>
+    <data format_source="input2" name="output2" label="resync ${input2.name}"/>
+  </outputs>
+  <tests>
+    <test>
+    </test>
+  </tests>
+  <help>
+Resynchronize a pair of paired-end fastq files. 
+
+Reads in two potentially unsynchronized fastq files and writes out two synchronized fastq files. 
+
+This script can handle Casava 1.8.0 style read IDs, and pre 1.8.0 style ids.
+Other types of read ID formats may cause a terminal error.
+
+The synchronized files have properly paired reads, with singelton reads removed.
+
+  </help>
+</tool>