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