Fix for exonerate 2.2.0 that looks to have problems with target filename containing :

ProtoGene.pl

@@ -1027,7 +1027,7 @@ sub download_seq{
         $checkSeq    = `grep -v '>' "$cache/$acc[$a]-$from-$to.fas"` if ( $amont =~ /^\d+$/ && $aval =~ /^\d+$/ );
         $checkSeq    = `grep -v '>' "$cache/$acc[$a].fas"`           if ( $amont !~ /^\d+$/ || $aval !~ /^\d+$/ );
         if ( $checkSeq !~ /^[A-Za-z]/ && $cp==0 ){
-#       if ( -s "$cache/$acc[$a]:$from-$to.fas" <120 && $cp==0){ #Instead of multiple downloads, only seq name and header
+#       if ( -s "$cache/$acc[$a]-$from-$to.fas" <120 && $cp==0){ #Instead of multiple downloads, only seq name and header
             unlink("$cache/$acc[$a]-$from-$to.fas") if ( $amont =~ /^\d+$/ && $aval =~ /^\d+$/ );
             unlink("$cache/$acc[$a].fas")           if ( $amont !~ /^\d+$/ || $aval !~ /^\d+$/ );
 #           $amont = '';