# HG changeset patch # User dereeper # Date 1546960458 18000 # Node ID 36e5445b7807cf310afbce0be75e1f7b34745342 # Parent 225031d5c818647c4f55d5a11db93d63b37963d2 Uploaded diff -r 225031d5c818 -r 36e5445b7807 readseq.xml --- a/readseq.xml Mon Apr 16 08:59:28 2018 -0400 +++ b/readseq.xml Tue Jan 08 10:14:18 2019 -0500 @@ -17,7 +17,7 @@ - readseq $filein -f $format >> $fileout_log 2>&1 && + java -jar /home/galaxy/data/jars/readseq.jar $filein -f $format >> $fileout_log 2>&1 && #if str( $format ) == "1": mv ${filein}.ig $fileout #elif str( $format ) == "2" : @@ -35,7 +35,7 @@ #elif str( $format ) == "11" : mv ${filein}.phylip2 $fileout #elif str( $format ) == "12" : - mv ${filein}.phylip $fileout + perl $__tool_directory__/complete_names.pl ${filein} ${filein}.phylip $fileout #elif str( $format ) == "13" : mv ${filein}.seq $fileout #elif str( $format ) == "14" :