--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/cmpfastq.xml	Fri Jul 12 14:36:19 2013 -0500
@@ -0,0 +1,33 @@
+<tool id="cmpfastq" name="Compare two fast files">
+  <description>Comparing two fastq files</description>
+  <requirements>
+    <requirement type="set_environment">CFQ_SCRIPT_PATH</requirement>
+  </requirements>
+  <command>\$CFQ_SCRIPT_PATH/cmpfastq $input1 $input2 $output1 $output2 $output3 $output4</command>
+  <inputs>
+    <param name="input1" type="data"  format="fastq" label="Source file 1"/>
+    <param name="input2" type="data" format="fastq" label="Source file 2"/>
+    <!--<param name="input3" type="select" label="Option">
+        <option value="d">d</option>
+        <option value="h ">h</option>
+     </param> -->
+  </inputs>
+  <outputs>
+    <data format="txt" name="output1" label="Common file 1"/>
+    <data format="txt" name="output2" label="Common file 2"/>
+    <data format="txt" name="output3" label="Unique file 1"/>
+    <data format="txt" name="output4" label="Unique file 2"/>
+  </outputs>
+
+  <tests>
+    <test>
+     <!-- <param name="input" value="fa_gc_content_input.fa"/>
+      <output name="out_file1" file="fa_gc_content_output.txt"/> -->
+    </test> 
+  </tests>
+
+  <help>
+This tool computes GC content from a FASTA file.
+  </help>
+
+</tool>
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