# HG changeset patch
# User mingchen0919
# Date 1514498161 18000
# Node ID a2bf35c1974afcf504525212582f72929eec8d7c
# Parent  a8ddefbaf55e4157c89ebccc6962d14babfbf2cb
update

diff -r a8ddefbaf55e -r a2bf35c1974a rmarkdown_feature_counts.xml
--- a/rmarkdown_feature_counts.xml	Thu Dec 28 16:49:29 2017 -0500
+++ b/rmarkdown_feature_counts.xml	Thu Dec 28 16:56:01 2017 -0500
@@ -72,7 +72,7 @@
                optional="False" checked="False" truevalue="TRUE" falsevalue="FALSE"/>
         <param type="integer" name="min_mqs" label="minMQS"
                help="integer giving the minimum mapping quality score a read must satisfy in order to be counted. For paired-end reads, at least one end should satisfy this criteria. 0 by default."
-               optional="False"/>
+               optional="False" value="0"/>
         <param type="boolean" name="split_only" label="splitOnly"
                help="logical indicating whether only split alignments (their CIGAR strings contain letter 'N') should be included for summarization. FALSE by default. Example split alignments are exon-spanning reads from RNA-seq data. useMetaFeatures should be set to FALSE and allowMultiOverlap should be set to TRUE, if the purpose of summarization is to assign exon-spanning reads to all their overlapping exons."
                optional="False" checked="False" truevalue="TRUE" falsevalue="FALSE"/>
@@ -87,7 +87,7 @@
                optional="False" checked="False" truevalue="TRUE" falsevalue="FALSE"/>
         <param type="integer" name="strand_specific" label="strandSpecific"
                help="integer indicating if strand-specific read counting should be performed. It has three possible values: 0 (unstranded), 1 (stranded) and 2 (reversely stranded). 0 by default."
-               optional="False"/>
+               optional="False" value="0"/>
         <param type="boolean" name="junc_counts" label="juncCounts"
                help="integer indicating if strand-specific read counting should be performed. It has three possible values: 0 (unstranded), 1 (stranded) and 2 (reversely stranded). 0 by default."
                optional="False" checked="False" truevalue="TRUE" falsevalue="FALSE"/>