Repository 'rmarkdown_samtools_flagstat'
hg clone https://toolshed.g2.bx.psu.edu/repos/mingchen0919/rmarkdown_samtools_flagstat

Changeset 4:1723d63c7d95 (2017-12-29)
Previous changeset 3:8354d118baab (2017-12-27) Next changeset 5:2a244f3c48a9 (2017-12-31)
Commit message:
update
modified:
rmarkdown_samtools_flagstat.xml
b
diff -r 8354d118baab -r 1723d63c7d95 rmarkdown_samtools_flagstat.xml
--- a/rmarkdown_samtools_flagstat.xml Wed Dec 27 23:29:32 2017 -0500
+++ b/rmarkdown_samtools_flagstat.xml Fri Dec 29 21:22:21 2017 -0500
[
@@ -13,8 +13,8 @@
   </stdio>
   <command><![CDATA[                    Rscript '${__tool_directory__}/rmarkdown_samtools_flagstat_render.R'
                         -e $echo
-                        -b $input_bam
-                        -n $input_bam.name
+                        -b '$input_bam'
+                        -n '$input_bam.name'
                         -r $report
                         -d $report.files_path
                         -s $sink_message