/usr/share/perl5/SWISS/OG.pm is in libswiss-perl 1.67-1.2.
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 | package SWISS::OG;
use vars qw($AUTOLOAD @ISA @EXPORT_OK %fields);
use Exporter;
use Carp;
use strict;
use SWISS::TextFunc;
use SWISS::BaseClass;
BEGIN {
@EXPORT_OK = qw();
@ISA = ( 'Exporter', 'SWISS::BaseClass');
%fields = (
text => undef
);
}
sub new {
my $ref = shift;
my $class = ref($ref) || $ref;
my $self = new SWISS::BaseClass;
$self->rebless($class);
return $self;
}
sub fromText {
my $self = new(shift);
my $text = shift;
# Parse out the evidence tags
if ($text =~ s/($SWISS::TextFunc::evidencePattern)//) {
my $tmp = $1;
$self->evidenceTags($tmp);
}
$self->text($text);
return $self;
}
sub toText {
my $self = shift;
return $self->text . $self->getEvidenceTagsString;
}
sub isPlasmid {
my $self = shift;
return $self->text =~ /Plasmid/i;
}
1;
__END__
=head1 Name
SWISS::OGs
=head1 Description
B<SWISS::OG> represents one organelle or plasmid name from the OG line. The container object holding all organelle or plasmid names is SWISS::OGs.
=head1 Inherits from
SWISS::BaseClass.pm
=head1 Attributes
=over
=item C<text>
One OG line element.
=back
=head1 Methods
=head2 Standard methods
=over
=item new
=item fromText
=item toText
=back
=head2 Specific methods
=over
=item isPlasmid
=back
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