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Revision 1.4 - (download) (as text) (annotate)
Mon Feb 4 23:55:36 2008 UTC (11 years, 9 months ago) by parrello
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, 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, rast_rel_2009_03_26, mgrast_dev_10262011, rast_rel_2008_11_24, rast_rel_2008_08_07, HEAD
Changes since 1.3: +8 -0 lines
Added a TITLE statement for the Wiki.

#
# 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.
#

#
# Simple object to hold annotations in-memory.
#

=pod

#TITLE OldAnnotationPm

This is a simple object that is used by [[FigPm]] to keep annotations in memory.

=cut

package Annotation;

use strict;

sub new
{
    my($class, $fid, $anno_time, $made_by, @anno) = @_;


    my $self = {
        fid => $fid,
        anno_time => $anno_time,
        made_by => $made_by,
        anno => [@anno],
    };
    
    #
    # See if it's an assignment annotation.
    #

    if ($anno[0] =~ /^Set\s+(\S+)\s+function\s+to$/)
    {
        $self->{is_assignment} = 1;
        $self->{assignment_who} = $1;
        $self->{assignment} = $anno[1];

        # parentheses required for ActivePERL
        $self->{is_master_assignment} = ($1 eq 'master' or $1 eq 'FIG');
    }

    return bless($self, $class);
}

sub fid
{
    my($self) = @_;
    return $self->{fid};
}

sub anno_time
{
    my($self) = @_;
    return $self->{anno_time};
}

sub made_by
{
    my($self) = @_;
    return $self->{made_by};
}

sub is_assignment
{
    my($self) = @_;
    return $self->{is_assignment};
}

sub is_master_assignment
{
    my($self) = @_;
    return $self->{is_master_assignment};
}

sub assignment_who
{
    my($self) = @_;
    return $self->{assignment_who};
}

sub assignment
{
    my($self) = @_;
    return $self->{assignment};
}


sub set_assignment_who
{
    my($self, $val) = @_;
    my $old = $self->{assignment_who};
    $self->{assignment_who} = $val;
    $self->{anno}->[0] = "Set $val function to";
    return $old;
}

sub as_text
{
    my($self) = @_;

    return join("\n", @$self{'fid', 'anno_time', 'made_by'}, @{$self->{anno}});
}

sub anno_text
{
    my($self) = @_;

    return join("\n", @{$self->{anno}});
}

1;

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