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Revision 1.1 - (download) (as text) (annotate)
Wed Jun 11 21:16:42 2008 UTC (11 years, 9 months ago) by olson
Branch: MAIN
CVS Tags: mgrast_dev_08112011, mgrast_dev_08022011, mgrast_dev_05262011, mgrast_dev_04082011, mgrast_version_3_2, mgrast_dev_12152011, mgrast_dev_06072011, mgrast_rel_2008_0806, mgrast_dev_10262011, mgrast_dev_02212011, mgrast_rel_2008_0923, mgrast_release_3_0, mgrast_dev_03252011, mgrast_rel_2008_0924, mgrast_rel_2008_1110_v2, 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, mgrast_dev_04012011, mgrast_rel_2008_0919, mgrast_rel_2008_1110, myrast_33, mgrast_rel_2008_0917, mgrast_dev_04052011, mgrast_dev_02222011, HEAD
Commit of initial MGRAST2 code.

use strict;
use Data::Dumper;

#
# normalize greengenes taxonomy data.
#

$_ = <>;			# skip header
while (<>)
{
    chomp;
    my($xid, $seq, @tax) = split(/\t/);

    for my $tax (@tax)
    {
	my @ent = grep { !/^otu/ } split(/;\s+/, $tax);
	print join("\t", $seq, @ent), "\n";
    }
}

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