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package Bio::Tools::PSort::Report::Result;
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either version 2 of the License, or
# (at your option) any later version.
# This program is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU General Public License for more details.
# You should have received a copy of the GNU General Public License
# along with this program; if not, write to the Free Software
# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
# OVERVIEW
# PSORT-B is described in Gardy, J.L. et al (2003). PSORT-B:
# improving protein subcellular localization prediction for
# Gram-negative bacteria. Nuc Acids Res 31(13):3613-17. Please
# cite this publication if you use PSORT-B in your research.
# The standalone version of PSORT-B is distributed under the GNU
# General Public Licence (Gnu GPL) (see the LICENSE file included
# in the download) by the Brinkman Laboratory, Simon Fraser
# University, Burnaby, B.C., Canada.
# This standalone version of PSORT-B has initially been developed
# for the Linux environment.
# This document describes the installation of the PSORT-B version
# 1.1.4 command line program and the PSORT-B server packages. For
# most purposes, following the installation instructions for the
# command line version will be sufficient.
# For further information, please contact psort-mail@sfu.ca.
use Bio::Root::Root;
use vars qw(@ISA);
use strict;
@ISA = qw(Bio::Root::Root);
sub new {
my ($class, @args) = @_;
my $self = bless({ }, $class);
my ($loc, $secondloc, $score, $details) =
$self->_rearrange([qw(LOC SECONDLOC SCORE DETAILS)], @args);
if(defined($loc)) {
$self->{localization} = (ref($loc) eq "ARRAY") ? $loc : [ $loc ];
} else {
$self->{localization} = [ ];
}
if(defined($secondloc)) {
$self->{secondarylocalization} = (ref($secondloc) eq "ARRAY") ? $secondloc : [ $secondloc ];
}
else {
$self->{secondarylocalization} = [ ];
}
$self->{details} = (defined($details)) ? (ref($details) eq "ARRAY") ? $details : [$details] : [ ];
$self->{score} = (defined($score)) ? $score : 0;
return $self;
}
sub localization {
my ($self, $loc) = @_;
if(defined($loc)) {
$self->{localization} = (ref($loc) eq "ARRAY") ? $loc : [ $loc ];
} else {
return wantarray ? @{$self->{localization}} : @{$self->{localization}}[0]; }
}
sub secondarylocalization {
my ($self, $secondloc) = @_;
if(defined($secondloc)) {
$self->{secondarylocalization} = (ref($secondloc) eq "ARRAY") ? $secondloc : [ $secondloc ];
}
else {
return wantarray ? @{$self->{secondarylocalization}} : @{$self->{secondarylocalization}}[0];
}
}
sub score {
my $self = shift;
return (@_) ? $self->{score} = shift : $self->{score};
}
sub details {
my $self = shift;
if(@_) {
my $details = shift;
$self->throw("Details must be an arrayref") if(ref($details) ne "ARRAY");
$self->{details} = $details;
} else {
@{$self->{details}};
}
}
1;
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