# HG changeset patch
# User mingchen0919
# Date 1528775410 14400
# Node ID 0d15928a648cc2b90149b4013df10c451d2e1a89
# Parent  a110308993bea22dadb033e449c78d98dede53a3
planemo upload for repository https://github.com/feltus/BDSS

diff -r a110308993be -r 0d15928a648c build-and-run-job-scripts.sh
--- a/build-and-run-job-scripts.sh	Mon Jun 11 23:40:40 2018 -0400
+++ b/build-and-run-job-scripts.sh	Mon Jun 11 23:50:10 2018 -0400
@@ -3,12 +3,11 @@
 mkdir download_dir
 
 #========== build and run bdss-download.sh script ============
-echo 'export PATH=/main/sites/galaxy/galaxy/tools/_conda/bin:$PATH' > bdss-download.sh
-
-echo 'for u in $(echo $X_u | sed "s/,/ /g");' >> bdss-download.sh
+echo 'for u in $(echo $X_u | sed "s/,/ /g");' > bdss-download.sh
 echo 'do' >> bdss-download.sh
 echo '  bdss transfer --destination download_dir -u $u' >> bdss-download.sh
 echo 'done' >> bdss-download.sh
 
 
+echo 'export PATH=/main/sites/galaxy/galaxy/tools/_conda/bin:$PATH'
 sh bdss-download.sh
diff -r a110308993be -r 0d15928a648c rmarkdown_report.Rmd
--- a/rmarkdown_report.Rmd	Mon Jun 11 23:40:40 2018 -0400
+++ b/rmarkdown_report.Rmd	Mon Jun 11 23:50:10 2018 -0400
@@ -1,5 +1,5 @@
 ---
-title: 'Aurora Tool Report'
+title: 'BDSS download report'
 output:
     html_document:
       highlight: pygments
@@ -53,8 +53,6 @@
 # ADD YOUR DATA ANALYSIS CODE AND MARKUP TEXT BELOW TO EXTEND THIS R MARKDOWN FILE
 ---
 
-## BDSS download
-
 ## Job script
 
 ```{bash, echo=FALSE}
diff -r a110308993be -r 0d15928a648c rmarkdown_report.xml
--- a/rmarkdown_report.xml	Mon Jun 11 23:40:40 2018 -0400
+++ b/rmarkdown_report.xml	Mon Jun 11 23:50:10 2018 -0400
@@ -34,7 +34,8 @@
 
     ]]></command>
     <inputs>
-        <param type="text" name="urls" area="true" size="5x25" label="URLs to data files" />
+        <param type="text" name="urls" area="true" size="5x25" label="data URLs"
+               help="Multiple URLs should be separated with comma or space"/>
     </inputs>
     <outputs>
         <data format="html" name="report" label="${tool.name} report on ${on_string}"/>