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1 : overbeek 1.1 # -*- perl -*-
2 : olson 1.2 #
3 :     # Copyright (c) 2003-2006 University of Chicago and Fellowship
4 :     # for Interpretations of Genomes. All Rights Reserved.
5 :     #
6 :     # This file is part of the SEED Toolkit.
7 :     #
8 :     # The SEED Toolkit is free software. You can redistribute
9 :     # it and/or modify it under the terms of the SEED Toolkit
10 :     # Public License.
11 :     #
12 :     # You should have received a copy of the SEED Toolkit Public License
13 :     # along with this program; if not write to the University of Chicago
14 :     # at info@ci.uchicago.edu or the Fellowship for Interpretation of
15 :     # Genomes at veronika@thefig.info or download a copy from
16 :     # http://www.theseed.org/LICENSE.TXT.
17 :     #
18 :    
19 : overbeek 1.1 use Carp;
20 :     use Data::Dumper;
21 :    
22 :     use FIG;
23 :     $fig = new FIG;
24 :    
25 :     # usage: dna_seq < INTERVALs > fasta.DNA
26 :    
27 :     while (defined($_ = <STDIN>))
28 :     {
29 :     if ($_ =~ /(\d+\.\d+)\t(\S+)$/)
30 :     {
31 :     ($genome,$loc) = ($1,$2);
32 :     $seq = $fig->dna_seq($genome,$loc);
33 :     &FIG::display_id_and_seq("$genome:$loc",\$seq);
34 :     }
35 :     }
36 :    

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