#!/usr/bin/env perl

# Copyright (C) 2006-2009 Martin A. Hansen.

# 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., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.

# http://www.gnu.org/copyleft/gpl.html

# >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>><<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<

use strict;
use warnings;

use lib "/Users/maasha/biopieces/code_perl/";

use CGI;
use Data::Dumper;
use Maasha::Common;
use Maasha::XHTML;

my ( $cgi, $script, @html );

$cgi = new CGI;

$script = Maasha::Common::get_scriptname();

push @html, Maasha::XHTML::html_header(
    cgi_header  => 1,
    title       => "KISS Genome Browser",
#    css_file    => "test.css",
    author      => "Martin A. Hansen, mail\@maasha.dk",
    description => "Biopieces bacterial genome browser - KISS",
    keywords    => [ qw( KISS Biopieces genome browser bacterium bacteria prokaryote prokaryotes ) ],
    no_cache    => 1,
);

push @html, Maasha::XHTML::h1( txt => "KISS Genome Browser", class => "center" );
push @html, Maasha::XHTML::form_beg( action => $script, method => "get", enctype => "multipart/form-data" );

push @html, sec_navigate( $cgi );
push @html, sec_browse();

push @html, Maasha::XHTML::form_end;
push @html, Maasha::XHTML::body_end;
push @html, Maasha::XHTML::html_end;

print "$_\n" foreach @html;


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sub sec_navigate
{
    my ( $cgi,   # CGI object
       ) = @_;

    # Returns a list.

    my ( $list_clade, $list_genome, $list_assembly, $list_contig, $def_clade, $def_genome, $def_assembly, $def_contig, $def_start, $def_end, @html );

    $list_clade    = nav_list_clade();
    $list_genome   = nav_list_genome();
    $list_assembly = nav_list_assembly();
    $list_contig   = nav_list_contig();

    $def_clade     = nav_def_clade( $cgi );
    $def_genome    = nav_def_genome( $cgi );
    $def_assembly  = nav_def_assembly( $cgi );
    $def_contig    = nav_def_contig( $cgi );
    $def_start     = nav_def_start( $cgi );
    $def_end       = nav_def_end( $cgi );

    push @html, Maasha::XHTML::table_beg( summary => "Navigation table" );
    push @html, Maasha::XHTML::table_row_simple( tr => [ qw( Clade Genome Assembly Contig Start End ) ], align => 'center' );
    push @html, Maasha::XHTML::table_row_simple( tr => [
        Maasha::XHTML::menu( name => "nav_clade",    options => $list_clade,    selected => $def_clade ),
        Maasha::XHTML::menu( name => "nav_genome",   options => $list_genome,   selected => $def_genome ),
        Maasha::XHTML::menu( name => "nav_assembly", options => $list_assembly, selected => $def_assembly ),
        Maasha::XHTML::menu( name => "nav_contig",   options => $list_contig,   selected => $def_contig ),
        Maasha::XHTML::text( name => "nav_start", value => $def_start, size => 20 ),
        Maasha::XHTML::text( name => "nav_end",   value => $def_end,   size => 20 ), 
        Maasha::XHTML::submit( name => "nav_submit", value => "Submit" ),
    ] );
    push @html, Maasha::XHTML::table_end;

    return wantarray ? @html : \@html;
}


sub sec_browse
{
    my ( @html );

    push @html, Maasha::XHTML::object( type   => "image/svg+xml",
                                       # data   => "/Users/maasha/test.svg",
                                       data   => "test.svg",
                                       name   => "owMain",
                                       width  => "1200",
                                       height => "800" );

    return wantarray ? @html : \@html;
}


sub nav_list_clade
{
    my ( $list_clade );

    $list_clade = [ qw( Eukaryote Bacillus Fish ) ];

    return wantarray ? @{ $list_clade } : $list_clade;
}


sub nav_list_genome
{
    my ( $list_genome );

    $list_genome = [ qw( S.aur_COL E.col B.sub ) ];

    return wantarray ? @{ $list_genome } : $list_genome;
}


sub nav_list_assembly
{
    my ( $list_assembly );

    $list_assembly = [ qw( 2008-02-21 2009-01-23 ) ];

    return wantarray ? @{ $list_assembly } : $list_assembly;
}


sub nav_list_contig
{
    my ( $list_contig );

    $list_contig = [ qw( chr1 chr2 ) ];

    return wantarray ? @{ $list_contig } : $list_contig;
}


sub nav_def_clade
{
    my ( $def_clade );

    if ( defined $cgi->param( 'nav_clade' ) )
    {
        $def_clade = $cgi->param( 'nav_clade' );
    }
    else
    {
        $def_clade = "Bacteria";
    }

    return $def_clade;
}


sub nav_def_genome
{
    my ( $def_genome );

    if ( defined $cgi->param( 'nav_genome' ) )
    {
        $def_genome = $cgi->param( 'nav_genome' );
    }
    else
    {
        $def_genome = "S.aur_COL";
    }

    return $def_genome;
}


sub nav_def_assembly
{
    my ( $def_assembly );

    if ( defined $cgi->param( 'nav_assembly' ) )
    {
        $def_assembly = $cgi->param( 'nav_assembly' );
    }
    else
    {
        $def_assembly = "2009-01-23";
    }

    return $def_assembly;
}


sub nav_def_contig
{
    my ( $def_contig );

    if ( defined $cgi->param( 'nav_contig' ) )
    {
        $def_contig = $cgi->param( 'nav_contig' );
    }
    else
    {
        $def_contig = "chr1";
    }

    return $def_contig;
}


sub nav_def_start
{
    my ( $def_start );

    if ( defined $cgi->param( 'nav_start' ) )
    {
        $def_start = $cgi->param( 'nav_start' );
    }
    else
    {
        $def_start = 1;
    }

    return $def_start;
}


sub nav_def_end
{
    my ( $def_end );
    
    if ( defined $cgi->param( 'nav_end' ) )
    {
        $def_end = $cgi->param( 'nav_end' );
    }
    else
    {
        $def_end = 2809422;
    }

    return $def_end;
}


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__END__