comment on

i am trying to write a script that will parse a genbank DNA file, but when i run the program it won't run. here's the code;

#! usr/local/bin/perl -w

use strict;

my $file;
my $seq;
my @annoation;

print "please type in the name of a file\n";
$file = <STDIN>;

get_dna (@annotation, $file,$seq);

print $seq;

sub get_dna
    {
    my ($line, $seq) = @_;
    my $in_sequence = 0;

    foreach my $line ($file)
    {
    if ($line =~ /^\/\/n/)
    {
    last;
    }

    elsif ($in_sequence)
    {
    $$seq .= $line;
    }

    elsif ($line =~ /^ORIGIN/)
    {
    $seq = 1;
    }

    else
    {
    push (@annotation, $line);
    }
    }

$$seq =~ s/[\s0-9]//g;

}
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Edit kudra, 2002-04-15 Changed title

In reply to please help me parse genbank DNA file by foxy

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