# HG changeset patch
# User mingchen0919
# Date 1514603145 18000
# Node ID 8519371cc6d1723ee3b74fc305efee7122878f38
# Parent  a7f7e8a58a824de360f165271414d9aaa0e2fb25
update

diff -r a7f7e8a58a82 -r 8519371cc6d1 rmarkdown_feature_counts.xml
--- a/rmarkdown_feature_counts.xml	Fri Dec 29 20:12:30 2017 -0500
+++ b/rmarkdown_feature_counts.xml	Fri Dec 29 22:05:45 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"