--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tools/emboss_5/emboss_dotpath.xml	Fri Mar 09 19:37:19 2012 -0500
@@ -0,0 +1,36 @@
+<tool id="EMBOSS: dotpath25" name="dotpath" version="5.0.0">
+  <description>Non-overlapping wordmatch dotplot of two sequences</description>
+  <requirements><requirement type="package" version="5.0.0">emboss</requirement></requirements>
+  <command interpreter="perl">emboss_single_outputfile_wrapper.pl dotpath -asequence $input1 -bsequence $input2 -goutfile $out_file1 -wordsize $wordsize -overlaps $overlaps -boxit $boxit -graph png
+  -auto</command>
+  <inputs>
+    <param format="data" name="input1" type="data">
+      <label>Sequence 1</label>
+    </param>
+    <param format="data" name="input2" type="data">
+      <label>Sequence 2</label>
+    </param>
+    <param name="wordsize" size="4" type="text" value="4">
+      <label>Word size (Integer 2 or more)</label>
+    </param>
+    <param name="overlaps" type="select">
+      <label>Display the overlapping matches (in red) as well as the minimal set of non-overlapping matches</label>
+      <option value="no">No</option>
+      <option value="yes">Yes</option>
+    </param>
+    <param name="boxit" type="select">
+      <label>Draw a box around dotplot</label>
+      <option value="yes">Yes</option>
+      <option value="no">No</option>
+    </param>
+  </inputs>
+  <outputs>
+    <data format="png" name="out_file1" />
+  </outputs>
+  <!-- functional tests not possible since image output contains file name information and timestamp -->
+  <help>
+    You can view the original documentation here_.
+    
+    .. _here: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/dotpath.html
+  </help>
+</tool>
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