[Bio] / FigKernelScripts / new_versions_of_features.pl Repository:
ViewVC logotype

View of /FigKernelScripts/new_versions_of_features.pl

Parent Directory Parent Directory | Revision Log Revision Log


Revision 1.1 - (download) (as text) (annotate)
Sun May 7 04:03:10 2006 UTC (13 years, 6 months ago) by overbeek
Branch: MAIN
CVS Tags: mgrast_dev_08112011, rast_rel_2009_05_18, mgrast_dev_08022011, rast_rel_2014_0912, rast_rel_2008_06_18, myrast_rel40, rast_rel_2008_06_16, mgrast_dev_05262011, rast_rel_2008_12_18, mgrast_dev_04082011, rast_rel_2008_07_21, rast_rel_2010_0928, rast_2008_0924, mgrast_version_3_2, mgrast_dev_12152011, rast_rel_2008_04_23, mgrast_dev_06072011, rast_rel_2008_09_30, 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, mgrast_rel_2008_0924, mgrast_rel_2008_1110_v2, rast_rel_2009_02_05, rast_rel_2011_0119, mgrast_rel_2008_0625, 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, rast_rel_2008_10_09, mgrast_dev_04012011, rast_release_2008_09_29, mgrast_rel_2008_0806, mgrast_rel_2008_0923, mgrast_rel_2008_0919, rast_rel_2009_07_09, rast_rel_2010_0827, mgrast_rel_2008_1110, myrast_33, rast_rel_2011_0928, rast_rel_2008_09_29, mgrast_rel_2008_0917, rast_rel_2008_10_29, mgrast_dev_04052011, mgrast_dev_02222011, rast_rel_2009_03_26, mgrast_dev_10262011, rast_rel_2008_11_24, rast_rel_2008_08_07, HEAD
add new_versions_of_features

use FIG;
my $fig = new FIG;

$usage = "usage: new_versions_of_features Genome";

(
 ($genome = shift @ARGV)
)
    || die $usage;

open(TBL,"<$FIG_Config::organisms/$genome/Features/peg/tbl")
    || die "could not open $FIG_Config::organisms/$genome/Features/peg/tbl";
while (defined($_ = <TBL>))
{
    if ($_ =~ /^(\S+)\t(\S+)_(\S+)_(\S+)\b/)
    {
	push(@{$stops{"$2\t$4"}},$1);
    }
}
close(TBL);

foreach $_ (keys(%stops))
{
    $x = $stops{$_};
    if (@$x > 1)
    {
	@pegs = sort { &FIG::by_fig_id($a,$b) } @$x;
	for ($i=0; ($i < $#pegs); $i++)
	{
	    push(@corr,[$pegs[$i],$pegs[$#pegs]]);
	}
    }
}

foreach $x (sort { &FIG::by_fig_id($a->[0],$b->[0]) } @corr)
{
    print join("\t",@$x),"\n";
}

MCS Webmaster
ViewVC Help
Powered by ViewVC 1.0.3