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Revision 1.6 - (download) (as text) (annotate)
Wed Jun 18 15:38:14 2008 UTC (11 years, 5 months ago) by arodri7
Branch: MAIN
CVS Tags: mgrast_dev_08112011, rast_rel_2009_05_18, mgrast_dev_08022011, rast_rel_2014_0912, myrast_rel40, 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, 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
Changes since 1.5: +11 -1 lines
update changes

use Data::Dumper;
use FIG;
my $fig = new FIG;

$usage = "usage: test_figfam_peg PEG [FigFamsData]";

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

$ff_data = (@ARGV > 0) ? $ARGV[0] : &FIG::get_figfams_data();
use FigFams;
$figfams = new FigFams($fig,$ff_data);
$seq = $fig->get_translation($peg);

$ENV{'DEBUG'} = 1;
my ($in_ff) = $figfams->families_containing_peg($peg);
print "In FIGfams? ";
if ($in_ff){
    my $famO = new FigFam($fig,$in_ff,$ff_data);
    print "yes, $in_ff, " . $famO->family_function . "\n";
}
else{
    print "no\n";
}

print "Sequence Annotation: " . $fig->function_of($peg) . "\n\n";
($got,$sims) = $figfams->place_in_family($seq,1);
if (defined($got))
{
    print &Dumper($sims,$got->family_id,$got->family_function);
}
else
{
    print "Sorry, no call, trying loose check\n";
    ($got,$sims) = $figfams->place_in_family($seq,1,1);
    if (defined($got))
    {
	print &Dumper($sims,$got->family_id,$got->family_function);
    }
    else
    {
	print "Sorry, no call\n";
    }
}



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