diff matCorAddVar.xml @ 1:e93350dc99f1 draft

"planemo upload for repository https://gitlab.com/bilille/galaxy-viscorvar commit 1eda261d4fe137d6e8806b0c6af7eaf12d11ac95"

--- a/matCorAddVar.xml	Tue Jun 23 19:57:35 2020 -0400
+++ b/matCorAddVar.xml	Thu Oct 15 12:22:25 2020 +0000
@@ -1,24 +1,23 @@
-<tool id="matCorAddVar" name="matCorAddVar" version="1.0" profile="16.04" workflow_compatible="true">
+<tool id="matCorAddVar" name="matCorAddVar" version="0.6+galaxy0" profile="16.04" workflow_compatible="true">
 
     <description>determine the correlation circles that can be overlaid and compute the correlations</description>
 
     <requirements>
-        <requirement type="package" version="6.12">bioconductor-mixomics</requirement> <!-- Remove when viscorvar is available via conda -->
+        <requirement type="package" version="0.6">r-viscorvar</requirement>
         <requirement type="package" version="2.0">r-argparse</requirement>
-        <!-- <requirement type="package" version="0.3">viscorvar</requirement> -->
     </requirements>
 
     <stdio>
         <!-- <exit_code range="1:" level="fatal" /> -->
     </stdio>
- 
+
     <command detect_errors="aggressive">
         <![CDATA[
         Rscript
         ${__tool_directory__}/matCorAddVar_wrapper.R
         --input_rdata ${input_rdata}
         ##--cutoff_comp ${cutoff_comp}
-        --cutoff_comp 0.775
+        --cutoff_comp 0.75
         #if str($var_of_interest_file) !='':
             --interest_var_file ${var_of_interest_file}
         #end if
@@ -39,7 +38,7 @@
         <!-- Fichier avec noms de gènes/variables, donné par l'utilisateur -->
         <param name="var_of_interest_file" type="data" format="txt" optional="true"
                label="Variables of interest (Optional)"
-               help="these variables have to belong to datasets that can be superimposed"/>
+               help="variables not belonging to any block will not be considered"/>
 <!--         <param name="cutoff_comp" type="float" value="0.775" min="0" max="1"
                label="Cutoff comp"
                help="[cutoff_comp] Two correlation circles will be superimposed if the correlation of their first and second axis is greater than cutoff_comp in absolute value." /> -->