# HG changeset patch
# User mingchen0919
# Date 1514603079 18000
# Node ID b4b2b9c4eaeed3d0448e767700046f4eb5c20bad
# Parent  bfa6440d01a3442496e05707639aefa0bfd40409
update

diff -r bfa6440d01a3 -r b4b2b9c4eaee rmarkdown_feature_counts.xml
--- a/rmarkdown_feature_counts.xml	Fri Dec 29 20:10:19 2017 -0500
+++ b/rmarkdown_feature_counts.xml	Fri Dec 29 22:04:39 2017 -0500
@@ -77,8 +77,8 @@
                optional="False" value="mm10"/>
         <param type="data" name="annot_ext" label="External annotation (GTF)"
                help="A character string giving name of a user-provided annotation file or a data frame including user-provided annotation data"
-               optional="False" format="gtf,saf" multiple="False"/>
-        <param type="boolean" name="isGTFAnnotationFile" optional="False" checked="False" truevalue="TRUE"
+               optional="False" format="gtf,gff,saf" multiple="False"/>
+        <param type="boolean" name="isGTFAnnotationFile" optional="False" checked="True" truevalue="TRUE"
                falsevalue="FALSE"/>
         <param type="text" name="gtf_feature_type" label="GTF.featureType"
                help="a character string giving the feature type used to select rows in the GTF annotation which will be used for read summarization. exon by default. This argument is only applicable when isGTFAnnotationFile is TRUE"