Mercurial > repos > trinity_ctat > star_fusion

diff star_fusion.xml @ 2:f90885dda34c draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Adding star_fusion tool.
author trinity_ctat
date Fri, 15 Dec 2017 14:18:29 -0500
parents a01db6debed5
children
line wrap: on
line diff
--- a/star_fusion.xml	Fri Dec 15 14:12:30 2017 -0500
+++ b/star_fusion.xml	Fri Dec 15 14:18:29 2017 -0500
@@ -1,14 +1,16 @@
-<tool id="star-fusion" name="Star Fusion" version="1.0.0" profile="17.05">
+<tool id="star_fusion" name="Star Fusion" version="1.0.0" profile="17.05">
     <description>Fusion-finding Pipeline Using the STAR Aligner</description>
     <requirements>
 	<requirement type="package" version="1.1.0">star-fusion</requirement>
     </requirements>
     <command detect_errors="default">
-    STAR-Fusion
-    --genome_lib_dir "${genome_ref_lib.fields.path}"
-    --left_fq  "${left_input}
-    --right_fq "${right_input}
-    --output_dir subdir
+      <![CDATA[
+      STAR-Fusion
+        --genome_lib_dir "${genome_ref_lib.fields.path}"
+        --left_fq  "${left_input}
+        --right_fq "${right_input}
+        --output_dir subdir
+      ]]>
     </command>
     <stdio>
       <exit_code range="1:"  level="fatal"   description="Error returned from pipeline" />