# HG changeset patch
# User yhoogstrate
# Date 1394031786 18000
# Node ID 5109a0f2cb25c9aec38a9222fdbc973e388169e6
# Parent  83d480908f4b262f0f248fc0bf74a0ee45cad100
Uploaded

diff -r 83d480908f4b -r 5109a0f2cb25 varscan_mpileup2snp.xml
--- a/varscan_mpileup2snp.xml	Wed Mar 05 09:49:46 2014 -0500
+++ b/varscan_mpileup2snp.xml	Wed Mar 05 10:03:06 2014 -0500
@@ -29,7 +29,7 @@
 	</command>
 	
 	<inputs>
-		<param format="mpileup,pileup" name="mpileup_input" type="data" label="Alignment file" help="Mapped reads in BAM or SAM format."/>
+		<param format="mpileup,pileup" name="mpileup_input" type="data" label="Alignment file" help="Mapped reads in mpileup format."/>
 		
 		<conditional name="extended_parameters">
 			<param name="parameters" type="select" label="VarScan parameters" help="For more advanced VarScan settings.">
@@ -63,7 +63,7 @@
 	
 	<tests>
 		<test>
-			<param name="mpileup_input" value="hg19_mutant.mpileup" dbkey="hg19" ftype="bam" />
+			<param name="mpileup_input" value="hg19_mutant.mpileup" dbkey="hg19" ftype="mpileup" />
 			<param name="parameters" value="default" />
 			<param name="varscan_output_vcf" value="1" />