[Bio] / FigTutorial / genomes.ex.pl Repository:
ViewVC logotype

View of /FigTutorial/genomes.ex.pl

Parent Directory Parent Directory | Revision Log Revision Log


Revision 1.2 - (download) (as text) (annotate)
Fri May 21 18:07:06 2004 UTC (15 years, 6 months ago) by olson
Branch: MAIN
CVS Tags: merge-bodev_news-3, rast_rel_2014_0912, rast_rel_2008_06_18, rast_rel_2008_06_16, rast_rel_2008_07_21, rast_rel_2010_0928, rast_2008_0924, Root-bobdev_news, rast_rel_2008_09_30, caBIG-13Feb06-00, rast_rel_2010_0526, rast_rel_2014_0729, merge-trunktag-bobdev_news-1, rast_rel_2009_05_18, caBIG-05Apr06-00, rast_rel_2009_0925, rast_rel_2010_1206, rast_rel_2010_0118, caBIG-00-00-00, rast_rel_2009_02_05, rast_rel_2011_0119, rast_rel_2008_12_18, merge-trunktag-bodev_news-3, merge-bobdev_news-2, merge-bobdev_news-1, rast_rel_2008_10_09, rast_release_2008_09_29, rast_rel_2008_04_23, rast_rel_2008_08_07, rast_rel_2009_07_09, rast_rel_2010_0827, myrast_33, rast_rel_2011_0928, rast_rel_2008_09_29, rast_rel_2008_10_29, rast_rel_2009_03_26, merge-trunktag-bobdev_news-2, rast_rel_2008_11_24, HEAD
Branch point for: Branch-bobdev_news
Changes since 1.1: +30 -43 lines
Remove tool_hdr-generated stuff.
Remove ^M's.

use strict;
use FIG;
my $fig = new FIG;

my(%sofar,$genome,$which,$abbrev,$version);

foreach $genome ($fig->genomes("complete"))
{
    $which   = $fig->genus_species($genome);
    $abbrev  = &get_unique_abbreviation($which,\%sofar);
    $version = $fig->genome_version($genome);
    print "$genome\t$abbrev\t$version\t$which\n";
}

sub get_unique_abbreviation {
    my($which,$sofar) = @_;
    my($nonunique,$n);

    $nonunique = &FIG::abbrev($which);
    $nonunique =~ s/ //g;
    $nonunique =~ s/\.+$//;
    $n = $sofar->{$nonunique};
    if (! defined($n))
    {
        $n = $sofar->{$nonunique} = 1;
    }
    $sofar->{$nonunique}++;
    return $nonunique . ".$n";
}

MCS Webmaster
ViewVC Help
Powered by ViewVC 1.0.3