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Revision 1.1 - (download) (as text) (annotate)
Mon Apr 19 20:22:16 2010 UTC (9 years, 7 months ago) by overbeek
Branch: MAIN
CVS Tags: rast_rel_2010_0526
code from Hope

use strict;
use Data::Dumper;

my $usage = "usage: ma_pipeline OrgDir";

my($orgD);
(
 ($orgD = shift @ARGV)
 )
    || die $usage;

my $exp_ed = "$orgD/UserSpace/ExpressionData";
(-d $exp_ed)
    || die "Where is $exp_ed?";
(-s "$exp_ed/probes")
    || die "Where is $exp_ed/probes?";
(-s "$orgD/contigs")
    || die "Where is $orgD/contigs?";
(-s "$orgD/Features/peg/tbl")
    || die "Where is $orgD/Features/peg/tbl?";

system "make_probes_to_genes $exp_ed/probes $orgD/contigs $orgD/Features/peg/tbl $exp_ed/peg.probe.table $exp_ed/probe.occ.table 2> $exp_ed/problems";

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