# HG changeset patch
# User mgarnier
# Date 1629400325 0
# Node ID 3b12b1b1d67f8e4a39d611f90c231d17ccfb1c20
# Parent  ae68b2a86229b4dd435cab9d8ab2679075950774
Uploaded

diff -r ae68b2a86229 -r 3b12b1b1d67f pangenomeCogAnalysis.xml
--- a/pangenomeCogAnalysis.xml	Thu Aug 19 13:39:39 2021 +0000
+++ b/pangenomeCogAnalysis.xml	Thu Aug 19 19:12:05 2021 +0000
@@ -16,7 +16,7 @@
             #set $named_input_files = $named_input_files + ',' + $_input_file
         #end for
 
-	perl ${__tool_directory__}/pangenomeCogAnalysis_V1.pl $input $input2 $input_files $named_input_files $gff_files $output $output2 $output3 $output4 $output8 $output9
+	perl ${__tool_directory__}/pangenomeCogAnalysis.pl $input $input2 $input_files $named_input_files $gff_files $output $output2 $output3 $output8 $output9
 
 	]]></command>
 
@@ -34,7 +34,7 @@
 	 <data format="txt" name="output" label="List of group-specific clusters"/>
 	 <data format="tabular" name="output2" label="COG category count average per group"/>
 	 <data format="tabular" name="output3" label="Detailed COG category count values per group"/>
-	 <data format="tabular" name="output4" label="COG category count average"/>
+	<!-- <data format="tabular" name="output4" label="COG category count average"/>-->
 	 <!--<data format="tabular" name="output5" label="Core-genes coordinates"/>-->
 	 <collection name="output5" type="list" label="Core-genes coordinates">
     		<discover_datasets pattern="__name_and_ext__" directory="Core" />
@@ -45,8 +45,8 @@
 	<collection name="output7" type="list" label="Strain specific genes coordinates">
                 <discover_datasets pattern="__name_and_ext__" directory="StrainSpecific" />
         </collection>
-	<data format="txt" name="output8" label="Odds ratio for core/accessory/unique"/>
-	<data format="txt" name="output9" label="Odds ratio comparison between groups"/>	
+	<data format="tabular" name="output8" label="Odds ratio for core/accessory/unique"/>
+	<data format="tabular" name="output9" label="Odds ratio comparison between groups"/>	
 </outputs>
 
 </tool>