Mercurial > repos > yufei-luo > s_mart

diff SMART/galaxy/CollapseReads.xml @ 56:97aa2e42bfdf

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Uploaded
author m-zytnicki
date Wed, 05 Feb 2014 11:51:11 -0500
parents 2c0c0a89fad7
children 1473ab954708
line wrap: on
line diff
--- a/SMART/galaxy/CollapseReads.xml	Fri Jan 10 08:59:23 2014 -0500
+++ b/SMART/galaxy/CollapseReads.xml	Wed Feb 05 11:51:11 2014 -0500
@@ -15,6 +15,8 @@
 			-f gff3
 		#elif $formatType.FormatInputFileName == 'sam':
 			-f sam
+		#elif $formatType.FormatInputFileName == 'bam':
+			-f bam
 		#elif $formatType.FormatInputFileName == 'gtf':
 			-f gtf
 		#end if
@@ -30,6 +32,7 @@
 				<option value="gff2">gff2</option>
 				<option value="gff3">gff3</option>
 				<option value="sam">sam</option>
+				<option value="bam">bam</option>
 				<option value="gtf">gtf</option>
 			</param>
 			<when value="bed">
@@ -47,6 +50,9 @@
 			<when value="sam">
 				<param name="inputFileName" format="sam" type="data" label="Input File"/>
 			</when>
+			<when value="bam">
+				<param name="inputFileName" format="bam" type="data" label="Input File"/>
+			</when>
 			<when value="gtf">
 				<param name="inputFileName" format="gtf" type="data" label="Input File"/>
 			</when>