// JSmoljQueryExt.js
// 9/2/2013 7:43:12 AM BH Opera/Safari fix for binary file reading
// 3/11/2014 6:31:01 AM BH fix for MSIE not working locally

;window.getClientRects = function(){return []};

;(function($) {

	function createXHR(isMSIE) {
		try {
			return (isMSIE ? new window.ActiveXObject( "Microsoft.XMLHTTP" ) : new window.XMLHttpRequest());
		} catch( e ) {}
	}

 $.ajaxSettings.xhr = (window.ActiveXObject === undefined ? createXHR :  
	function() {
		return (this.url == document.location || this.url.indexOf("http") == 0 || !this.isLocal) &&  // BH MSIE fix
			/^(get|post|head|put|delete|options)$/i.test( this.type ) &&
			createXHR() || createXHR(1);
	});


// Bind script tag hack transport
		$.ajaxTransport( "+script", function(s) {

	// This transport only deals with cross domain requests
	// BH: No! This is not compatible with Chrome
	if ( true || s.crossDomain ) {

		var script,
			head = document.head || jQuery("head")[0] || document.documentElement;

		return {

			send: function( _, callback ) {
				script = document.createElement("script");
				//script.async = true;

				if ( s.scriptCharset ) {
					script.charset = s.scriptCharset;
				}

				script.src = s.url;

				// Attach handlers for all browsers
				script.onload = script.onreadystatechange = function( _, isAbort ) {

					if ( isAbort || !script.readyState || /loaded|complete/.test( script.readyState ) ) {

						// Handle memory leak in IE
						script.onload = script.onreadystatechange = null;
						// Remove the script
						if ( script.parentNode ) {
							script.parentNode.removeChild( script );
						}

						// Dereference the script
						script = null;

						// Callback if not abort
						if ( !isAbort ) {
							callback( 200, "success" );
						}
					}
				};

				// Circumvent IE6 bugs with base elements (#2709 and #4378) by prepending
				// Use native DOM manipulation to avoid our domManip AJAX trickery
				head.insertBefore( script, head.firstChild );
			},

			abort: function() {
				if ( script ) {
					script.onload( undefined, true );
				}
			}
		};
	}
});
 
	// incorporates jquery.iecors MSIE asynchronous cross-domain request for MSIE < 10

	$.extend( $.support, { iecors: !!window.XDomainRequest });

	if ($.support.iecors) {
		// source: https://github.com/dkastner/jquery.iecors
		// author: Derek Kastner dkastner@gmail.com http://dkastner.github.com    
		$.ajaxTransport(function(s) {
		
			return {
				send: function( headers, complete ) {				
					// Note that xdr is not synchronous.
					// This is only being used in JSmol for transport of java code packages.
					var xdr = new window.XDomainRequest();
					xdr.onload = function() {          
						var headers = { 'Content-Type': xdr.contentType };
						complete(200, 'OK', { text: xdr.responseText }, headers);
					};
					if ( s.xhrFields ) {
						xdr.onerror = s.xhrFields.error;
						xdr.ontimeout = s.xhrFields.timeout;
					}
					xdr.open( s.type, s.url );
					xdr.send( ( s.hasContent && s.data ) || null );
				},
				abort: function() {        
					xdr.abort();
				}
			};
		});

	} else {

	// adds support for synchronous binary file reading

		$.ajaxSetup({
			accepts: { binary: "text/plain; charset=x-user-defined" },
			responseFields: { binary: "response" }
		})


		$.ajaxTransport('binary', function(s) {
		
			var callback;
			return {
				// synchronous or asynchronous binary transfer only
				send: function( headers, complete ) {        
					var xhr = s.xhr();
					console.log("xhr.open binary async=" + s.async + " url=" + s.url);
					xhr.open( s.type, s.url, s.async );					
					var isOK = false;
					try {
						if (xhr.hasOwnProperty("responseType")) {
								xhr.responseType = "arraybuffer";
								isOK = true;
						} 
					} catch(e) {
					  //
					}
					try {
						if (!isOK && xhr.overrideMimeType) {
							xhr.overrideMimeType('text/plain; charset=x-user-defined');
						}
					} catch(e) {
							//
					}
					if ( !s.crossDomain && !headers["X-Requested-With"] ) {
						headers["X-Requested-With"] = "XMLHttpRequest";
					}
					try {
						for (var i in headers )
							xhr.setRequestHeader( i, headers[ i ] );
					} catch(_) {}

					xhr.send( ( s.hasContent && s.data ) || null );

 					// Listener
					callback = function( _, isAbort ) {

					var 
						status = xhr.status,
						statusText = "",
						responseHeaders = xhr.getAllResponseHeaders(),
						responses = {},
						xml;

					try {

						// Firefox throws exceptions when accessing properties
						// of an xhr when a network error occured
						// http://helpful.knobs-dials.com/index.php/Component_returned_failure_code:_0x80040111_(NS_ERROR_NOT_AVAILABLE)
						// Was never called and is aborted or complete
						if ( callback && ( xhr.readyState === 4 ) ) {

							// Only called once
							callback = undefined;

							// When requesting binary data, IE6-9 will throw an exception
							// on any attempt to access responseText (#11426)
							try {
								responses.text = (typeof xhr.responseText === "string" ? xhr.responseText : null);
							} catch( _ ) {
							}
							try {
								responses.binary = xhr.response;
							} catch( _ ) {
							}

							// Firefox throws an exception when accessing
							// statusText for faulty cross-domain requests
							try {
								statusText = xhr.statusText;
							} catch( _ ) {
								// We normalize with Webkit giving an empty statusText
								statusText = "";
							}
							// Filter status for non standard behaviors

							// If the request is local and we have data: assume a success
							// (success with no data won't get notified, that's the best we
							// can do given current implementations)
							if ( !status && s.isLocal && !s.crossDomain ) {
								status = (responses.text ? 200 : 404);
							// IE - #1450: sometimes returns 1223 when it should be 204
							} else if ( status === 1223 ) {
								status = 204;
							}
							complete( status, statusText, responses, responseHeaders );
						}
					} catch( e ) {
						alert(e)
						complete( -1, e );
					}
					};
					
					if ( !s.async ) {
						// if we're in sync mode we fire the callback
						callback();
					} else if ( xhr.readyState === 4 ) {
						// (IE6 & IE7) if it's in cache and has been
						// retrieved directly we need to fire the callback
						setTimeout( callback );
					} else {
						// Add to the list of active xhr callbacks
						xhr.onreadystatechange = callback;
					}
					
				},
				abort: function() {}
			};
		});
	}
})( jQuery );
	 
/*
 * jQuery outside events - v1.1 - 3/16/2010
 * http://benalman.com/projects/jquery-outside-events-plugin/
 * 
 * Copyright (c) 2010 "Cowboy" Ben Alman
 * Dual licensed under the MIT and GPL licenses.
 * http://benalman.com/about/license/
 * 
 * Modified by Bob Hanson for JSmol-specific events and to add parameter reference to actual jQuery event.
 * Used for closing the pop-up menu.
 *   
 */

;(function($,doc,eventList,id){  
	// was 'click dblclick mousemove mousedown mouseup mouseover mouseout change select submit keydown keypress keyup'
	$.map(
		eventList.split(' '),
		function( event_name ) { jq_addOutsideEvent( event_name ); }
	);
	jq_addOutsideEvent( 'focusin',  'focus' + id );
	jq_addOutsideEvent( 'focusout', 'blur' + id );
	function jq_addOutsideEvent( event_name, outside_event_name ) {
		outside_event_name = outside_event_name || event_name + id;
		var elems = $(),
			event_namespaced = event_name + '.' + outside_event_name + '-special-event';
		$.event.special[ outside_event_name ] = {    
			setup: function(){
				elems = elems.add( this );
				if ( elems.length === 1 ) {
					$(doc).bind( event_namespaced, handle_event );
				}
			},
			teardown: function(){
				self.Jmol && Jmol._setMouseOwner(null);
				elems = elems.not( this );
				if ( elems.length === 0 ) {
					$(doc).unbind( event_namespaced );
				}
			},
			add: function( handleObj ) {
				var old_handler = handleObj.handler;
				handleObj.handler = function( event, elem ) {
					event.target = elem;
					old_handler.apply( this, arguments );
				};
			}
		};
		function handle_event( event ) {
			$(elems).each(function(){
				self.Jmol && (outside_event_name.indexOf("mouseup") >= 0 || outside_event_name.indexOf("touchend") >= 0) && Jmol._setMouseOwner(null);
				var elem = $(this);
				if ( this !== event.target && !elem.has(event.target).length ) {
					//BH: adds event to pass that along to our handler as well.
					elem.triggerHandler( outside_event_name, [ event.target, event ] );
				}
			});
		};
	};
})(jQuery,document,"click mousemove mouseup touchmove touchend", "outjsmol");
