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#!/usr/bin/env perl
use strict;
use warnings;
use lib ("/usr/lib/trinityrnaseq/PerlLib");
use Fasta_reader;
use Nuc_translator;
my $usage = "\nn\\tusage: $0 nucFasta \n\n";
my $fasta_file = $ARGV[0] or die $usage;
main: {
my $fasta_reader = new Fasta_reader($fasta_file);
while (my $seq_obj = $fasta_reader->next()) {
my $accession = $seq_obj->get_accession();
my $sequence = $seq_obj->get_sequence();
my $header = $seq_obj->get_header();
for my $frame (1..6) {
my $translation = &translate_sequence($sequence, $frame);
$translation =~ s/(\S{60})/$1\n/g;
chomp $translation;
print ">$accession.F${frame}_trans $header\n$translation\n";
}
}
exit(0);
}
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