// PMIDs of publications we want to be sure to include in the publications list
// despite their not having the YRC grant number associated with them in PubMed
var publicationsToInclude = [
	16964240,
	16943775,
	16741098,
	16794040,
	16543460,
	16794074,
	18075578,
	17805301,
	17673661,
	17556576,
	17495904,
	17510365,
	18323454,
	19092927,
	18849969,
	18566290,
	20436457,
	20631709,
	20133520,
	20128923,
	19396170,
	19394300,
	19034676,
	19019827,
	19190187,
	18322008,
	18805093,
	16166519,
	15215442,
	14579342,
	12215415,
	18326625,
	19998407,
	21824995,
	21437266,
	22384314,
	22075445,
	22001016,
	21945116,
	21566186,
	20597089,
	22611296,
	24895379,
	25056180
];

function loadPublications() {
	var divs = [ "intPublications", "msPublications", "y2hPublications", "microPublications", "pspPublications", "infoPublications", "compbioPublications", "qphenoPublications" ];
	//var auths = [ "yates+maccoss+aebersold", "fields", "davis-tn+muller-eg", "baker-d", "riffle+sharma", "noble", "dunham+akey" ];
		
	// send publications to web service so that it knows about them
	addPublicationsToService();
	
	// load and show ten publications for each section
	$.each( divs, function( i, item ) {
		showPublicationsForGroup( divs[ i ], 10 );			
	});   
}

// add the PMIDs to always consider to the service
function addPublicationsToService() {
	var service_url = "http://www.yeastrc.org/yrc/service/publicationSearch.do?";
	//var service_url = "http://localhost:8080/yrc/service/publicationSearch.do?";
	
	$.each( publicationsToInclude, function( i, item ) {
		$.getJSON( service_url + "pmid=" + item + "&jsoncallback=?", function( data ) { } );
	});
	
}

function showPublicationsForGroup( group, retMax ) {
	
	var service_url = "http://www.yeastrc.org/yrc/service/publicationSearch.do?";
	//var service_url = "http://localhost:8080/yrc/service/publicationSearch.do?";
	
	service_url += "retMax=" + retMax;
	service_url += "&query=" + group;
	service_url += "&jsoncallback=?";
		
	$('#'+group).empty();
	var con = "<div style=\"font-weight:bold;\">Retrieving citations from PubMed...</div>";
	$(con).appendTo( "#" + group );
	
	$.getJSON(service_url,
    function(data){
		$('#'+group).empty();

		if( retMax == 10 ) {
			var str = "<div>Showing 10 most recent results. <a href=\"javascript:showPublicationsForGroup('" + group + "', 500)\">[Show All]</a>";
			$(str).appendTo( "#" + group );
		}
		
		var test = "<ol class=\"publicationList\">";    		
		$.each(data.data, function(i,item){
			test += '<li class=\"publicationItem\"><b>' + item.title + '</b><br />';
			test += '<span style=\"font-size: .95em; text-indent : -1em; margin-left :  1em;\">' + item.formattedAuthors + '</span><br />';
			test += '<span style=\"font-size: .8em; text-indent : -2em; margin-left :  2em;\"><i>' + item.journal + '</i>. ' + item.pubDate + '; ' + item.location;
			test += '<br /><span style=\"font-size: .85em; text-indent : -2em; margin-left: 2em;\"><a href=\"http://www.yeastrc.org/pdr/pubmedRedirect.do?PMID=' + item.pmid + '\" target=\"pubmed_window\"' + '\">[PMID:' + item.pmid + ']</a>';

			if( item.pmcid != null && item.pmcid != '' ) {
				test += '<a href=\"http://www.ncbi.nlm.nih.gov/pmc/articles/' + item.pmcid + '\" target=\"pubmed_window\"' + '/\">[PMCID:' + item.pmcid + ']</a>';
			}
			
			test += "</span></span></li>";
		});
	    	
		test += "</ol>";
		$(test).appendTo( '#' + group );

	});
	
}


$(document).ready(function() { loadPublications();});