diff reactome_analysis.xml @ 8:a58dc5d4b8cd draft

planemo upload commit 4ba1ebe7b3f5e3fabf78b5fed7ed0b92e2cbf9e5-dirty
author proteore
date Fri, 28 Jun 2019 05:17:11 -0400
parents 6c95f1b88627
children badc91b93945
line wrap: on
line diff
--- a/reactome_analysis.xml	Tue Mar 05 09:40:41 2019 -0500
+++ b/reactome_analysis.xml	Fri Jun 28 05:17:11 2019 -0400
@@ -1,4 +1,4 @@
-<tool id="reactome_analysis" name="Query pathway database" version="2019.03.05">
+<tool id="reactome_analysis" name="Query pathway database" version="2019.06.27">
     <description>[Reactome]</description>
     <requirements>
     </requirements>
@@ -20,7 +20,7 @@
     ]]></command>
     <inputs>
         <conditional name="opt">
-            <param name="input" type="select" label="Input IDs (UniProt Accession number, Entrez Gene ID or Gene Name" multiple="False" >
+            <param name="input" type="select" label="Input IDs (UniProt Accession number, Entrez Gene ID, Gene Name)" multiple="False" >
                 <option value="text">Copy/paste your list of IDs </option>
 		        <option value="file" selected="true">Input file containing your IDs</option>
             </param>
@@ -44,7 +44,7 @@
                 </param>
             </when>
         </conditional>
-        <param name="species" type="select" label="Species">
+        <param name="species" type="select" label="Species (human, mouse, rat)">
             <option value="48887">Human (Homo sapiens)</option>
             <option value="48892">Mouse (Mouse musculus)</option>
             <option value="48895">Rat (Rattus norvegicus)</option>
@@ -82,6 +82,10 @@
 
 ID types allowed are: UniProt accNumber (e.g. O75391), Entrez gene ID (e.g. 8086) and gene name (e.g. TP53, NUP58...). If you have other type of ID, please use the ID_Converter tool of ProteoRE.
 
+.. class:: warningmark
+	
+In copy/paste mode, the number of IDs considered in input is limited to 5000.
+
 -----
 
 **Parameters**
@@ -108,13 +112,13 @@
 
 **Galaxy integration**
 
-T.P. Lien Nguyen, Florence Combes, Yves Vandenbrouck - CEA, INSERM, CNRS, Grenoble-Alpes University, BIG Institute, FR
+Lien Nguyen, Florence Combes, Yves Vandenbrouck - CEA, INSERM, CNRS, Grenoble-Alpes University, BIG Institute, FR
 
 Sandra Dérozier, Olivier Rué, Christophe Caron, Valentin Loux - INRA, Paris-Saclay University, MAIAGE Unit, Migale Bioinformatics platform, FR
 
 This work has been partially funded through the French National Agency for Research (ANR) IFB project.
 
-Contact support@proteore.org for any questions or concerns about the Galaxy implementation of this tool.
+Help: contact@proteore.org for any questions or concerns about this tool.
     ]]></help>
     <citations>
     </citations>