// Main menu as Javascript so that it can easily be included in all pages

function displayMenuLeft(rootSite) {
document.writeln("<div id='sectionMenuLeft'>"+

"	<div class='sectionMenuGroup'>"+
"		<table class='sectionSubMenuElements'>"+
"			<tr class='menuItem_L1'><td>"+
"				<span class='verySmall'><a  target='_self' class='menuItem_L1_Link' href='"+rootSite+"'>"+
"					<span class='menuItemDescription'>Home page of the website</span>"+
"					<img src='"+rootSite+"images/navigation/home.png'/></a></span>"+
"				<span class='verySmall'><a  target='_self' class='menuItem_L1_Link' href='"+rootSite+"pages/navigationTools/search.html'>"+
"					<span class='menuItemDescription'>Search</span>"+
"					<img src='"+rootSite+"images/navigation/search.png'/></a></span>"+
"				<span class='verySmall'><a  target='_self' class='menuItem_L1_Link' href='"+rootSite+"pages/navigationTools/map.html'>"+
"					<span class='menuItemDescription'>Map of the website</span>"+
"					<img src='"+rootSite+"images/navigation/map.png'/></a></span>"+
"				<span class='verySmall'><a  target='_self' class='menuItem_L1_Link' onclick='displayAllLeft()'>"+
"					<span class='menuItemDescription'>Click to display all items in the menu</span>"+
"					<img src='"+rootSite+"images/navigation/expand.png'/></a></span>"+
"				<span class='verySmall'><a  target='_self' class='menuItem_L1_Link' onclick='collapseAllLeft()'>"+
"					<span class='menuItemDescription'>Click to collapse all items</span>"+
"					<img src='"+rootSite+"images/navigation/collapse.png'/></a></span></td></tr>"+
"		</table>"+
"	</div>"+

"	<div class='sectionMenuGroup'>"+
"		<table class='sectionSubMenuTitle'>"+
"			<tr class='menuItem_L1'><td>"+
"				<a  target='_self' class='menuItem_L1_Link' onclick=displayItemLeft('sectionSubMenu_rosetta')"+
"					href='"+rootSite+"pages/rosetta.html'>"+
"				<span class='menuItemDescription'>Rosetta Resolver - microarray analysis</span>"+
"				Rosetta</a></td></tr>"+
"		</table>"+
"			<div id='sectionSubMenu_rosetta' class='sectionSubMenu'>"+
"			</div>"+
"	</div>"+

"	<div class='sectionMenuGroup'>"+
"		<table class='sectionSubMenuTitle'>"+
"			<tr class='menuItem_L1'><td>"+
"				<a  target='_self' class='menuItem_L1_Link' onclick=displayItemLeft('sectionSubMenu_gcgseqweb')"+
"					href='"+rootSite+"pages/gcgseqweb.html'>"+
"				<span class='menuItemDescription'>Accelrys GCG bioinformatics tools</span>"+
"				GCG/Seqweb</a></td></tr>"+
"		</table>"+
"			<div id='sectionSubMenu_gcgseqweb' class='sectionSubMenu'>"+
"			</div>"+
"	</div>"+

"	<div class='sectionMenuGroup'>"+
"		<table class='sectionSubMenuTitle'>"+
"			<tr class='menuItem_L1'><td>"+
"				<a  target='_self' class='menuItem_L1_Link' onclick=displayItemLeft('sectionSubMenu_emboss')"+
"					href='"+rootSite+"pages/emboss.html'>"+
"				<span class='menuItemDescription'>EMBOSS bioinformatics suiteS</span>"+
"				EMBOSS</a></td></tr>"+
"		</table>"+
"			<div id='sectionSubMenu_emboss' class='sectionSubMenu'>"+
"			</div>"+
"	</div>"+

"	<div class='sectionMenuGroup'>"+
"		<table class='sectionSubMenuTitle'>"+
"			<tr class='menuItem_L1'><td>"+
"				<a  target='_self' class='menuItem_L1_Link' onclick=displayItemLeft('sectionSubMenu_optirna')"+
"					href='http://optirna.unl.edu/'>"+
"				<span class='menuItemDescription'>Optimal selection of siRNA target sites</span>"+
"				Optimal RNAi Design</a></td></tr>"+
"		</table>"+
"			<div id='sectionSubMenu_optirna' class='sectionSubMenu'>"+
"			</div>"+
"	</div>"+

"	<div class='sectionMenuGroup'>"+
"		<table class='sectionSubMenuTitle'>"+
"			<tr class='menuItem_L1'><td>"+
"				<a  target='_self' class='menuItem_L1_Link' onclick=displayItemLeft('sectionSubMenu_vectornti')"+
"					href='"+rootSite+"pages/vectornti.html'>"+
"				<span class='menuItemDescription'>Invitrogen bioinformatics workbench</span>"+
"				Vector NTI</a></td></tr>"+
"		</table>"+
"			<div id='sectionSubMenu_vectornti' class='sectionSubMenu'>"+
"			</div>"+
"	</div>"+

"	<div class='sectionMenuGroup'>"+
"		<table class='sectionSubMenuTitle'>"+
"			<tr class='menuItem_L1'><td>"+
"				<a  target='_self' class='menuItem_L1_Link' onclick=displayItemLeft('sectionSubMenu_education')>"+
"				<span class='menuItemDescription'>Bioinformatics Education at UNL</span>"+
"				Education</a></td></tr>"+
"		</table>"+
"		<div id='sectionSubMenu_education' class='sectionSubMenu'>"+
"			<table class='sectionSubMenuElements'>"+
"				<tr class='menuItem_L2'><td><a  target='_self' class='menuItem_L2_Link' href='"+rootSite+"pages/education/classes.html'>"+
"					<span class='menuItemDescription'>Bioinformatics Related classes offered at UNL</span>"+
"					Classes</a></td></tr>"+
"				<tr class='menuItem_L2'><td><a  target='_blank' class='menuItem_L2_Link' href='http://compbio.unl.edu/'>"+
"					<span class='menuItemDescription'>Computational Biology Research Lab</span>"+
"					Research</a></td></tr>"+
"				<tr class='menuItem_L2'><td><a  target='_self' class='menuItem_L2_Link' href='"+rootSite+"pages/education/laboratories.html'>"+
"					<span class='menuItemDescription'>Bioinformatics Related Laboratories at UNL</span>"+
"					Laboratories</a></td></tr>"+
"				<tr class='menuItem_L2'><td><a  target='_self' class='menuItem_L2_Link' href='"+rootSite+"pages/education/seminars.html'>"+
"					<span class='menuItemDescription'>Bioinformatics seminars at UNL</span>"+
"					Seminars</a></td></tr>"+
"				<tr class='menuItem_L2'><td><a  target='_self' class='menuItem_L2_Link' href='"+rootSite+"pages/education/tutorials.html'>"+
"					<span class='menuItemDescription'>Tutorials and training</span>"+
"					Tutorials / training</a></td></tr>"+
"			</table>"+
"		</div>"+
"	</div>"+

"	<div class='sectionMenuGroup'>"+
"		<table class='sectionSubMenuTitle'>"+
"			<tr class='menuItem_L1'><td>"+
"				<a  target='_self' class='menuItem_L1_Link'  onclick=displayItemLeft('sectionSubMenu_tools')>"+
"				<span class='menuItemDescription'>A list of important bioinformatics tools</span>"+
"				External Tools</a></td></tr>"+
"		</table>"+
"		<div id='sectionSubMenu_tools' class='sectionSubMenu'>"+
"			<table class='sectionSubMenuElements'>"+
"				<tr class='menuItem_L2'><td><a  target='_self' class='menuItem_L2_Link' href='"+rootSite+"pages/tools/blast.html'>"+
"					<span class='menuItemDescription'>Nucleotide and protein local aligments</span>"+
"					BLAST</a></td></tr>"+
"				<tr class='menuItem_L2'><td><a  target='_self' class='menuItem_L2_Link' href='"+rootSite+"pages/tools/fasta.html'>"+
"					<span class='menuItemDescription'>Fast protein and nucleotid comparisons</span>"+
"					FASTA</a></td></tr>"+
"				<tr class='menuItem_L2'><td><a  target='_blank' class='menuItem_L2_Link' href='http://www.bioconductor.org'>"+
"					<span class='menuItemDescription'>Analysis and comprehension of genomic data</span>"+
"					Bioconductor</a></td></tr>"+
"				<tr class='menuItem_L2'><td><a  target='_self' class='menuItem_L2_Link' href='"+rootSite+"pages/tools/clustalw.html'>"+
"					<span class='menuItemDescription'>General purpose multiple sequence alignment program for DNA or proteins</span>"+
"					ClustalW</a></td></tr>"+
"				<tr class='menuItem_L2'><td><a  target='_self' class='menuItem_L2_Link' href='"+rootSite+"pages/tools/entrez.html'>"+
"					<span class='menuItemDescription'>Search and retrieval system from databases at NCBI</span>"+
"					Entrez</a></td></tr>"+
"			</table>"+
"		</div>"+
"	</div>"+

"</div>");
}


// SUBFUNCTIONS

var nbrL=7;
var menuTitleLeft=new Array('sectionSubMenu_rosetta',
						'sectionSubMenu_gcgseqweb',
						'sectionSubMenu_emboss',
						'sectionSubMenu_optirna',
						'sectionSubMenu_vectornti',
						'sectionSubMenu_tools',
						'sectionSubMenu_education');


function displayItemLeft(section) {
	var style=getstyleLeft(section);
	collapseAllLeft();
	style.display="block";
}

function collapseAllLeft() {
	for(i=0;i<nbrL;i++) {
		getstyleLeft(menuTitleLeft[i]).display="none";
	}
}
function displayAllLeft() {
	for(i=0;i<nbrL;i++) {
		getstyleLeft(menuTitleLeft[i]).display="block";
	}
}

function getstyleLeft(id) {
	if(document.layers)
		return document.id;
	if(document.getElementById)	{
		var obj=document.getElementById(id);
		var style=obj.style;
		return style;
	}
	if(document.all) {
		return id.style;
	}
}