Mercurial > repos > dereeper > pgap

changeset 2:041355b97140 draft

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Uploaded
author dereeper
date Thu, 24 Jun 2021 15:01:02 +0000
parents 6d3580552457
children bbb2c473664c
files PGAP.xml PGAP_wrapper2.pl
diffstat 2 files changed, 3 insertions(+), 3 deletions(-) [+]
line wrap: on
line diff
--- a/PGAP.xml	Thu Jun 24 14:53:55 2021 +0000
+++ b/PGAP.xml	Thu Jun 24 15:01:02 2021 +0000
@@ -20,7 +20,7 @@
             #set $named_input_files = $named_input_files + ',' + $_input_file
         #end for
 
-	perl ${__tool_directory__}/PGAP_wrapper2.pl -g $input_files -p $proteins -o $named_input_files -o $output	
+	perl ${__tool_directory__}/PGAP_wrapper2.pl -g $input_files -p $proteins -l $named_input_files -o $output	
 	]]></command>
 
 
--- a/PGAP_wrapper2.pl	Thu Jun 24 14:53:55 2021 +0000
+++ b/PGAP_wrapper2.pl	Thu Jun 24 15:01:02 2021 +0000
@@ -14,7 +14,7 @@
 
     -g, --genes          <list of gene fasta files. Comma separated list>
     -p, --proteins       <list of protein fasta files. Comma separated list>
-    -o, --order          <list of samples in the same order. Comma separated list>
+    -l, --list           <list of samples in the same order. Comma separated list>
     -o, --out            <output name>      
 ~;
 $usage .= "\n";
@@ -25,7 +25,7 @@
 "genes=s"        => \$genes,
 "proteins=s"     => \$proteins,
 "out=s"          => \$out,
-"order=s"        => \$order
+"list=s"        => \$order
 );