Mercurial > repos > proteore > proteore_pathview_mapping

changeset 6:059f17f98ab5 draft

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planemo upload commit 3920c1fdf5906ee60e7f493b896df83a447a94d8-dirty
author proteore
date Fri, 24 Aug 2018 08:51:20 -0400
parents 1e9db71d46f7
children b617d4bbebf8
files Pathview.xml tool_data_table_conf.xml.sample
diffstat 2 files changed, 2 insertions(+), 7 deletions(-) [+]
line wrap: on
line diff
--- a/Pathview.xml	Fri Aug 24 08:32:17 2018 -0400
+++ b/Pathview.xml	Fri Aug 24 08:51:20 2018 -0400
@@ -88,9 +88,8 @@
 
         <conditional name="species">
         <param name="ref_file" type="select" label="Select species" >
-            <options from_data_table="kegg_pathways"/>
-            <option value="hsa"/>
-            <option value="mmu"/>
+            <option value="hsa">Human (hsa)</option>
+            <option value="mmu">Mouse (mmu)</option>
         </param>
             <when value="hsa">
                 <conditional name="pathways">
--- a/tool_data_table_conf.xml.sample	Fri Aug 24 08:32:17 2018 -0400
+++ b/tool_data_table_conf.xml.sample	Fri Aug 24 08:51:20 2018 -0400
@@ -1,9 +1,5 @@
 <tables>
     <!-- Location kegg_pathways file for pathview tool -->
-    <table name="kegg_pathways" comment_char="#" >
-        <columns>dbkey,name,value,path</columns>
-        <file path="tool-data/kegg_pathways.loc" />
-    </table>
     <table name="hsa_pathways" comment_char="#">
         <columns>value,name</columns>
         <file path="tool-data/hsa_pathways.loc" />