Mercurial > repos > jfb > oscar_test

diff ForMinervo/Blosum.xml @ 0:1e5fe005f149 draft

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author jfb
date Tue, 02 Oct 2018 12:02:19 -0400
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/ForMinervo/Blosum.xml	Tue Oct 02 12:02:19 2018 -0400
@@ -0,0 +1,28 @@
+<tool id="blosum" name="Blosum" version="0.5.0">
+    <description>Scores for peptide alignment by sequence</description>
+    <requirements>
+       <requirement type="package">openjdk</requirement>
+    </requirements>
+    <command detect_errors="aggressive"><![CDATA[        
+        java -Djava.awt.headless=true -jar '$__tool_directory__/Blosum.jar'
+    ]]></command>
+    <inputs>
+        <param format="csv" name="input.csv" type="data" label="Peptide Sequences"/>
+    </inputs>      
+    <outputs>
+        <data format="csv" name="output.csv" from_work_dir="output.csv" label="peptides with scores.csv"/>
+    </outputs>
+    <tests>
+        <test>
+        </test>
+    </tests>
+
+    
+    <help><![CDATA[
+This does a thing
+    ]]></help>
+    <citations>
+        <citation type="doi">10.1021/ja507164a</citation>
+    </citations>
+</tool>
+