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Revision 1.1 - (download) (as text) (annotate)
Sat Apr 11 22:16:59 2009 UTC (10 years, 7 months ago) by overbeek
Branch: MAIN
CVS Tags: mgrast_dev_08112011, rast_rel_2009_05_18, mgrast_dev_08022011, rast_rel_2014_0912, myrast_rel40, mgrast_dev_05262011, mgrast_dev_04082011, rast_rel_2010_0928, mgrast_version_3_2, mgrast_dev_12152011, mgrast_dev_06072011, rast_rel_2009_0925, rast_rel_2010_0526, rast_rel_2014_0729, mgrast_dev_02212011, rast_rel_2010_1206, mgrast_release_3_0, mgrast_dev_03252011, rast_rel_2010_0118, rast_rel_2011_0119, mgrast_release_3_0_4, mgrast_release_3_0_2, mgrast_release_3_0_3, mgrast_release_3_0_1, mgrast_dev_03312011, mgrast_release_3_1_2, mgrast_release_3_1_1, mgrast_release_3_1_0, mgrast_dev_04132011, mgrast_dev_04012011, rast_rel_2009_07_09, rast_rel_2010_0827, myrast_33, rast_rel_2011_0928, mgrast_dev_04052011, mgrast_dev_02222011, mgrast_dev_10262011, HEAD
stuff for gene calling

use strict;

my $usage = "usage: generate_comparison genomes HTML PickedD ComparisonD";

my($genomesF,$pickedD,$htmlD,$comparisonD);

(
 ($genomesF       = shift @ARGV) &&
 ($htmlD          = shift @ARGV) &&
 ($pickedD        = shift @ARGV) &&
 ($comparisonD    = shift @ARGV)
)
    || die $usage;

(-d $comparisonD) || mkdir($comparisonD,0777) || die $usage;
(-d $pickedD) || die "$pickedD does not exist";

my @genomes = map { $_ =~ /^(\S+)/; $1 } `cat $genomesF`;
my $html_flag = $htmlD ? "-h '$htmlD'" : "";

foreach my $genome (@genomes)
{
    system "compare_two_sets_of_calls $html_flag -g '$genome' < '$pickedD/$genome' > '$comparisonD/$genome.html'";
}

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