/usr/share/perl5/Bio/Chado/Config.pm is in libchado-perl 1.22-4.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 | package Bio::Chado::Config;
=head1 NAME
Chado::Config
=head1 SYNOPSIS
my $config = Bio::Chado::Config->new;
my $db_name = $config->{'database'}{'db_name'};
=head1 DESCRIPTION
This module is a simple interface to the Chado installation
configuration information.
=head1 METHODS
=cut
use strict;
use Carp;
use FindBin '$Bin';
use File::Spec::Functions;
use XML::Simple;
use constant DEFAULT_FILENAME => catfile( $Bin, 'load', 'etc', 'load.conf' );
# ---------------------------------------------------------
=pod
=head2 new
Instantiates a new object. Takes an optional (but preferred)
argument of the configuration file's path. The filename should be
indicated as a key/value pair, but, if only one argument is passed
in, it is assumed to be the filename.
my $conf = Bio::Chado::Config->new;
my $conf = Bio::Chado::Config->new( <filename> );
my $conf = Bio::Chado::Config->new( filename => <filename> );
=cut
sub new {
my $class = shift;
my $args = defined $_[0] && UNIVERSAL::isa( $_[0], 'HASH' ) ? shift
: scalar @_ == 1 ? { filename => shift }
: { @_ };
my $self = bless {}, $class;
if ( $args->{'filename'} ) {
$self->filename( $args->{'filename'} );
}
return $self;
}
# ---------------------------------------------------------
=pod
=head2 filename
Gets/sets the location of the configuration file.
my $file = $conf->filename( <filename> );
=cut
sub filename {
my ( $self, $arg ) = @_;
if ( ! defined $self->{'filename'} && ! $arg ) {
$arg = DEFAULT_FILENAME if -e DEFAULT_FILENAME;
}
if ( $arg ) {
if ( -e $arg && -r _ ) {
$self->{'filename'} = $arg;
}
else {
croak("The file '$arg' does not exist or is not readable");
}
}
return $self->{'filename'};
}
# ---------------------------------------------------------
=pod
=head2 config
Returns the configuration information as parsed by XML::Simple.
my $options = $conf->config;
=cut
sub config {
my $self = shift;
unless ( defined $self->{'config'} ) {
my $file = $self->filename;
$self->{'config'} = XMLin(
$file,
# ForceArray => [ qw( template token path file) ],
# KeyAttr => [ qw( token name file) ],
ContentKey => '-value',
);
}
return $self->{'config'};
}
# ---------------------------------------------------------
=pod
=head1 SEE ALSO
XML::Simple.
=head1 AUTHOR
Ken Y. Clark E<lt>kclark@cshl.orgE<gt>.
=cut
1;
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