# HG changeset patch
# User proteore
# Date 1538554139 14400
# Node ID a91d407e1938f02d2f95285a9e79ac0a7f77bbda
# Parent  7b3eb5767497b115130342fd531c003cb6212486
planemo upload commit d636fd65b39353cbb29228d309235f3a6db37568-dirty

diff -r 7b3eb5767497 -r a91d407e1938 GO-enrich.R
--- a/GO-enrich.R	Fri Sep 28 05:02:31 2018 -0400
+++ b/GO-enrich.R	Wed Oct 03 04:08:59 2018 -0400
@@ -260,13 +260,13 @@
   for (onto in ontology) {
     if (args$go_represent == "true") {
       ggo<-repartition.GO(gene, orgdb, onto, level, readable=TRUE)
-      output_path = paste("cluster_profiler_GGO_",onto,".csv",sep="")
+      output_path = paste("cluster_profiler_GGO_",onto,".tsv",sep="")
       write.table(ggo, output_path, sep="\t", row.names = FALSE, quote=FALSE)
     }
 
     if (args$go_enrich == "true") {
       ego<-enrich.GO(gene, universe_gene, orgdb, onto, pval_cutoff, qval_cutoff,plot)
-      output_path = paste("cluster_profiler_EGO_",onto,".csv",sep="")
+      output_path = paste("cluster_profiler_EGO_",onto,".tsv",sep="")
       write.table(ego, output_path, sep="\t", row.names = FALSE, quote=FALSE)
     }
   }
diff -r 7b3eb5767497 -r a91d407e1938 cluster_profiler.xml
--- a/cluster_profiler.xml	Fri Sep 28 05:02:31 2018 -0400
+++ b/cluster_profiler.xml	Wed Oct 03 04:08:59 2018 -0400
@@ -1,4 +1,4 @@
-<tool id="cluter_profiler" name="clusterProfiler" version="2018.09.28.2">
+<tool id="cluter_profiler" name="clusterProfiler" version="2018.10.03">
     <description>
     GO terms classification and enrichment analysis
     </description>
@@ -167,7 +167,7 @@
     <outputs>
         <data name="log" format="tabular" label="Cluster profiler" />
         <collection type="list" label="clusterProfiler text files" name="text_output">
-            <discover_datasets pattern="(?P&lt;designation&gt;.+\.csv)" ext="csv"/>
+            <discover_datasets pattern="(?P&lt;designation&gt;.+\.tsv)" ext="tsv"/>
         </collection>
         <collection type="list" label="clusterProfiler diagram outputs" name="graph_output" >
 	        <discover_datasets pattern="(?P&lt;designation&gt;.+plot)" ext="png" />