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Revision 1.2 - (download) (as text) (annotate)
Mon Dec 5 18:56:38 2005 UTC (14 years, 5 months ago) by olson
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, caBIG-05Apr06-00, 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, caBIG-13Feb06-00, rast_rel_2009_03_26, mgrast_dev_10262011, rast_rel_2008_11_24, rast_rel_2008_08_07, HEAD
Changes since 1.1: +17 -0 lines
Add license words.

# Copyright (c) 2003-2006 University of Chicago and Fellowship
# for Interpretations of Genomes. All Rights Reserved.
# This file is part of the SEED Toolkit.
# The SEED Toolkit is free software. You can redistribute
# it and/or modify it under the terms of the SEED Toolkit
# Public License. 
# You should have received a copy of the SEED Toolkit Public License
# along with this program; if not write to the University of Chicago
# at info@ci.uchicago.edu or the Fellowship for Interpretation of
# Genomes at veronika@thefig.info or download a copy from
# http://www.theseed.org/LICENSE.TXT.

# Validate a subsystem package, printing a tab-delimited list of metadata if it is valid.
# Otherwise return a nonzero exit code and print errors to stdout.

use strict;
use FIG;
use P2Pupdate;

my $usage = "validate_subsystem subsystem-package";

@ARGV == 1 or die $usage;

my $package = shift;

my @output;

my $sub;

my $fig;

eval {
    $sub = new SubsystemFile($FIG_Config::temp, $package, $fig);

if ($@)
    print "Subsystem package file did not parse:\n$@\n";
    exit 1;

warn sprintf("Parsed subsystem file. Subsystem name %s, version %s, curator %s\n",
	     $sub->name, $sub->version, $sub->curator);

     [name => $sub->name],
     [version => $sub->version],
     [curator => $sub->curator]);

# Perform some initial validation.

my @errors;

$sub->name ne '' or push @errors, "Name not specified";
$sub->curator ne '' or push @errors, "Curator not specified";
$sub->version =~ /^\d+/ or push @errors, "Invalid version " . $sub->version;
(ref($sub->{roles}) and @{$sub->{roles}} > 0) or push @errors, "Subsystem has no roles";
(ref($sub->{genomes}) and @{$sub->{genomes}} > 0) or push @errors, "Subsystem has no genomes";

if (@errors)
    print join("\n", @errors), "\n";

for my $elt (@output)
    print join("\t", @$elt), "\n";

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