Mercurial > repos > mingchen0919 > one_command_liners

diff extract_fields.xml @ 7:26a239300989 draft

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initial tool
author mingchen0919
date Fri, 23 Feb 2018 11:23:30 -0500
parents fc9043b919b1
children ac0c560845dc
line wrap: on
line diff
--- a/extract_fields.xml	Fri Feb 23 10:46:48 2018 -0500
+++ b/extract_fields.xml	Fri Feb 23 11:23:30 2018 -0500
@@ -12,18 +12,19 @@
   </stdio>
   <command><![CDATA[                    Rscript '${__tool_directory__}/tool_template_render.R'
                         -e $echo
-                        -A $input_field_numbers
-                        -B $input_txt
-                        -O $output_txt
                         -r $report
                         -d $report.files_path
                         -s $sink_message
                         -t '${__tool_directory__}/tool_template.Rmd'
+
+                        -A $input_field_numbers
+                        -B $input_file
+                        -O $output_txt
                     ]]></command>
   <inputs>
     <param type="boolean" name="echo" label="Display analysis code in report?" optional="False" checked="False" truevalue="TRUE" falsevalue="FALSE"/>
-    <param type="text" name="input_field_numbers" label="input field numbers" optional="False"/>
-    <param type="data" name="input_txt" label="Input text file" optional="False" format="txt"/>
+    <param type="data" name="input_file" label="Input file" optional="False"/>
+    <param type="text" name="input_field_numbers" label="Field numbers" optional="False"/>
   </inputs>
   <outputs>
     <data name="report" format="html" label="tool name report" hidden="false"/>