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1 : olson 1.3 #
2 : golsen 1.4 # Copyright (c) 2003-2008 University of Chicago and Fellowship
3 : olson 1.3 # for Interpretations of Genomes. All Rights Reserved.
4 :     #
5 :     # This file is part of the SEED Toolkit.
6 :     #
7 :     # The SEED Toolkit is free software. You can redistribute
8 :     # it and/or modify it under the terms of the SEED Toolkit
9 :     # Public License.
10 :     #
11 :     # You should have received a copy of the SEED Toolkit Public License
12 :     # along with this program; if not write to the University of Chicago
13 :     # at info@ci.uchicago.edu or the Fellowship for Interpretation of
14 :     # Genomes at veronika@thefig.info or download a copy from
15 :     # http://www.theseed.org/LICENSE.TXT.
16 :     #
17 :    
18 : overbeek 1.1 use FIG;
19 :     my $fig = new FIG;
20 :    
21 : golsen 1.4 # usage: conditionally_assign [User] < 3-column-assignments [PEG,Old,New]
22 : overbeek 1.1
23 :     $user = "master";
24 :     $annotations = 1;
25 :    
26 :     foreach $arg (@ARGV)
27 :     {
28 :     if ($arg eq "no_annotations")
29 :     {
30 :     $annotations = 0;
31 :     }
32 :     else
33 :     {
34 :     $user = $arg;
35 :     }
36 :     }
37 :    
38 :     while ($_ = <STDIN>)
39 :     {
40 : golsen 1.4 chomp;
41 :     ( $peg, $old, $new ) = split(/\t/,$_);
42 :     if ( $peg && $new && $old eq $fig->function_of( $peg ) )
43 : overbeek 1.1 {
44 : golsen 1.4 $fig->assign_function( $peg, $user, $new, "" );
45 : overbeek 1.1 }
46 :     }
47 :    

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