Mercurial > repos > davidvanzessen > igblast_human

diff igblastn.xml @ 55:99541760fdfe draft

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Uploaded
author davidvanzessen
date Thu, 23 Jan 2014 05:35:59 -0500
parents 1c64c977624e
children 39a916965683
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--- a/igblastn.xml	Tue Dec 03 04:33:59 2013 -0500
+++ b/igblastn.xml	Thu Jan 23 05:35:59 2014 -0500
@@ -1,7 +1,7 @@
 <tool id="igblastn" name="igBLASTn" version="0.1.0">
     <description>Run igBLASTn</description>
-    <command>
-		igblastn -germline_db_V \$IGDATA/database/human_gl_V -germline_db_J \$IGDATA/database/human_gl_J -germline_db_D \$IGDATA/database/human_gl_D -domain_system imgt -query $input -auxiliary_data \$IGDATA/optional_file/human_gl.aux -show_translation -outfmt 3 > $output
+    <command interpreter="bash">
+		igblastn.sh $input $output
     </command>
     <inputs>
         <param name="input" type="data" format="fasta" label="Fasta file"/>