Mercurial > repos > vimalkumarvelayudhan > riboseqr_wrapper

diff metagene.xml @ 3:d7ce95ccf54f

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Change R data file format in xml wrappers (rda -> RData) Add test data, sample workflow. Updated README with instructions on testing.
author Vimalkumar Velayudhan <vimalkumarvelayudhan@gmail.com>
date Wed, 22 Jul 2015 12:07:39 +0100
parents b2eb07000039
children
line wrap: on
line diff
--- a/metagene.xml	Tue Jul 21 15:40:22 2015 +0100
+++ b/metagene.xml	Wed Jul 22 12:07:39 2015 +0100
@@ -27,7 +27,7 @@
         --output_path "$html_file.files_path"
     </command>
     <inputs>
-        <param name="rdata_load" type="data" format="rda"
+        <param name="rdata_load" type="data" format="RData"
                label="Select Triplet periodicity (R data file)"
                multiple="false" optional="false"
                help="&lt;br&gt;&lt;h4&gt;&lt;font color=&quot;#666666&quot;&gt;filterHits parameters (footprint reads to be used in the analysis)&lt;/font&gt;&lt;/h4&gt;">
@@ -103,14 +103,14 @@
         <exit_code range="1:"  level="fatal" description="Error" />
     </stdio>
     <outputs>
-        <data format="rda" name="rdata_save"
+        <data format="RData" name="rdata_save"
               label="Metagene analysis (R data file)"/>
         <data format="html" name="html_file"
               label="Metagene analysis (HTML report)"/>
     </outputs>
     <!--<tests>-->
     <!--<test>-->
-    <!--<param name="rdata_load" value="Triplet periodicity (R data file)" ftype="rda"/>-->
+    <!--<param name="rdata_load" value="Triplet periodicity (R data file)" ftype="RData"/>-->
     <!--<param name="hit_mean" value="50"/>-->
     <!--<param name="unique_hit_mean" value="10"/>-->
     <!--<param name="min5p" value="-20"/>-->
@@ -119,7 +119,7 @@
     <!--<param name="max3p" value="20"/>-->
     <!--<param name="cap" value=""/>-->
     <!--<param name="plot_title" value=""/>-->
-    <!--<output name="rdata_save" file="Metagene analysis (R data file)" ftype="rda"/>-->
+    <!--<output name="rdata_save" file="Metagene analysis (R data file)" ftype="RData"/>-->
     <!--<output name="html_file" file="Metagene_analysis_(HTML_report).html">-->
     <!--<extra_files type="file" name="Metagene-analysis-plot1.pdf" value="Metagene-analysis-plot1.pdf"/>-->
     <!--<extra_files type="file" name="Metagene-analysis-plot1_1.png" value="Metagene-analysis-plot1_1.png"/>-->