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executable file 24 lines (19 sloc) 608 Bytes
#!/usr/bin/perl
use strict;
use Bio::Tools::GFF;
use Bio::SeqIO;
my ($seqfile) = @ARGV;
die("must define a valid seqfile to read") unless ( defined $seqfile && -r $seqfile);
my $seqio = new Bio::SeqIO(-format => 'genbank',
-file => $seqfile);
my $count = 0;
while( my $seq = $seqio->next_seq ) {
$count++;
# defined a default name
my $fname = sprintf("%s.gff", $seq->display_id || "seq-$count");
my $gffout = new Bio::Tools::GFF(-file => ">$fname" ,
-gff_version => 1);
foreach my $feature ( $seq->top_SeqFeatures() ) {
$gffout->write_feature($feature);
}
}