diff tools/mummer/mummer.xml @ 3:154c000d3fef draft

Uploaded v0.0.4 with test case and ToolShed dependency for gnuplot

--- a/tools/mummer/mummer.xml	Tue Oct 28 09:43:52 2014 -0400
+++ b/tools/mummer/mummer.xml	Thu Nov 06 11:50:19 2014 -0500
@@ -1,4 +1,4 @@
-<tool id="mummerplot_wrapper" name="MUMmer dotplot" version="0.0.3">
+<tool id="mummerplot_wrapper" name="MUMmer dotplot" version="0.0.4">
     <description>Combine mummer/nucmer/promer with mummerplot</description>
     <requirements>
             <!-- Needs ps2pdf from ghostscript -->      
@@ -10,6 +10,9 @@
             <requirement type="binary">promer</requirement>
             <requirement type="binary">mummerplot</requirement>
             <requirement type="package" version="3.23">mummer</requirement>
+	    <!-- mummerplot needs the gnuplot binary -->
+            <requirement type="binary">gnuplot</requirement>
+            <requirement type="package" version="4.6">gnuplot</requirement>
     </requirements>
     <version_command interpreter="python">
 mummer.py --version
@@ -44,6 +47,30 @@
     <requirements>
     </requirements>
     <tests>
+        <!-- Because exact graphical output is fragile w.r.t. dependency versions,
+             all I am trying to verify is a valid PNG and PDF are produced.
+             Rather than genomes, for size + speed just comparing 3 and 6 genes. -->
+        <test>
+            <param name="fasta_a" value="three_human_mRNA.fasta" ftype="fasta" />
+            <param name="fasta_b" value="rhodopsin_nucs.fasta" ftype="fasta" />
+            <param name="algorithm" value="mummer" />
+            <output name="pdf_output" file="magic.pdf" ftype="pdf" compare="contains" />
+            <output name="png_output" file="magic.png" ftype="png" compare="contains" />
+        </test>
+        <test>
+            <param name="fasta_a" value="three_human_mRNA.fasta" ftype="fasta" />
+            <param name="fasta_b" value="rhodopsin_nucs.fasta" ftype="fasta" />
+            <param name="algorithm" value="nucmer" />
+            <output name="pdf_output" file="magic.pdf" ftype="pdf" compare="contains" />
+            <output name="png_output" file="magic.png" ftype="png" compare="contains" />
+        </test>
+        <test>
+            <param name="fasta_a" value="three_human_mRNA.fasta" ftype="fasta" />
+            <param name="fasta_b" value="rhodopsin_nucs.fasta" ftype="fasta" />
+            <param name="algorithm" value="promer" />
+            <output name="pdf_output" file="magic.pdf" ftype="pdf" compare="contains" />
+            <output name="png_output" file="magic.png" ftype="png" compare="contains" />
+        </test>
     </tests>
     <help>
 **What it does**