Location: A review of cardiac cellular electrophysiology models @ f954e5918331 / dojo-presentation / js / dojo / dojox / data / AndOrReadStore.js

Author:
David Nickerson <david.nickerson@gmail.com>
Date:
2021-09-16 00:41:19+12:00
Desc:
Updating Noble 1962 model: * Exposing the membrane potential to the top-level model; * adding SED-ML for the paced and pacemaker variants of the model. Using OpenCOR Snapshot release 2021-09-14.
Permanent Source URI:
https://models.fieldml.org/workspace/a1/rawfile/f954e59183314cd37f86c8832dc81317d01c8ec5/dojo-presentation/js/dojo/dojox/data/AndOrReadStore.js

dojo.provide("dojox.data.AndOrReadStore");

dojo.require("dojo.data.util.filter");
dojo.require("dojo.data.util.simpleFetch");
dojo.require("dojo.date.stamp");

dojo.declare("dojox.data.AndOrReadStore", null,{
	//	summary:
	//		AndOrReadStore uses ItemFileReadStore as a base, modifying only the query (_fetchItems) section.
	//		Supports queries of the form: query:"id:1* OR dept:'Sales Department' || (id:2* && NOT dept:S*)"
	//		Includes legacy/widget support via:  
	//			query:{complexQuery:"id:1* OR dept:'Sales Department' || (id:2* && NOT dept:S*)"}
	//		The ItemFileReadStore implements the dojo.data.api.Read API and reads
	//		data from JSON files that have contents in this format --
	//		{ items: [
	//			{ name:'Kermit', color:'green', age:12, friends:['Gonzo', {_reference:{name:'Fozzie Bear'}}]},
	//			{ name:'Fozzie Bear', wears:['hat', 'tie']},
	//			{ name:'Miss Piggy', pets:'Foo-Foo'}
	//		]}
	//		Note that it can also contain an 'identifer' property that specified which attribute on the items 
	//		in the array of items that acts as the unique identifier for that item.
	//
	constructor: function(/* Object */ keywordParameters){
		//	summary: constructor
		//	keywordParameters: {url: String}
		//	keywordParameters: {data: jsonObject}
		//	keywordParameters: {typeMap: object)
		//		The structure of the typeMap object is as follows:
		//		{
		//			type0: function || object,
		//			type1: function || object,
		//			...
		//			typeN: function || object
		//		}
		//		Where if it is a function, it is assumed to be an object constructor that takes the 
		//		value of _value as the initialization parameters.  If it is an object, then it is assumed
		//		to be an object of general form:
		//		{
		//			type: function, //constructor.
		//			deserialize:	function(value) //The function that parses the value and constructs the object defined by type appropriately.
		//		}
	
		this._arrayOfAllItems = [];
		this._arrayOfTopLevelItems = [];
		this._loadFinished = false;
		this._jsonFileUrl = keywordParameters.url;
		this._jsonData = keywordParameters.data;
		this._datatypeMap = keywordParameters.typeMap || {};
		if(!this._datatypeMap['Date']){
			//If no default mapping for dates, then set this as default.
			//We use the dojo.date.stamp here because the ISO format is the 'dojo way'
			//of generically representing dates.
			this._datatypeMap['Date'] = {
											type: Date,
											deserialize: function(value){
												return dojo.date.stamp.fromISOString(value);
											}
										};
		}
		this._features = {'dojo.data.api.Read':true, 'dojo.data.api.Identity':true};
		this._itemsByIdentity = null;
		this._storeRefPropName = "_S";  // Default name for the store reference to attach to every item.
		this._itemNumPropName = "_0"; // Default Item Id for isItem to attach to every item.
		this._rootItemPropName = "_RI"; // Default Item Id for isItem to attach to every item.
		this._reverseRefMap = "_RRM"; // Default attribute for constructing a reverse reference map for use with reference integrity
		this._loadInProgress = false;	//Got to track the initial load to prevent duelling loads of the dataset.
		this._queuedFetches = [];

		if(keywordParameters.urlPreventCache !== undefined){
			this.urlPreventCache = keywordParameters.urlPreventCache?true:false;
		}
		if(keywordParameters.clearOnClose){
			this.clearOnClose = true;
		}
	},
	
	url: "",	// use "" rather than undefined for the benefit of the parser (#3539)

	//Parameter to allow users to specify if a close call should force a reload or not.
	//By default, it retains the old behavior of not clearing if close is called.  But
	//if set true, the store will be reset to default state.  Note that by doing this,
	//all item handles will become invalid and a new fetch must be issued.
	clearOnClose: false,

	//Parameter to allow specifying if preventCache should be passed to the xhrGet call or not when loading data from a url.  
	//Note this does not mean the store calls the server on each fetch, only that the data load has preventCache set as an option.
	//Added for tracker: #6072
	urlPreventCache: false,  

	_assertIsItem: function(/* item */ item){
		//	summary:
		//		This function tests whether the item passed in is indeed an item in the store.
		//	item: 
		//		The item to test for being contained by the store.
		if(!this.isItem(item)){ 
			throw new Error("dojox.data.AndOrReadStore: Invalid item argument.");
		}
	},

	_assertIsAttribute: function(/* attribute-name-string */ attribute){
		//	summary:
		//		This function tests whether the item passed in is indeed a valid 'attribute' like type for the store.
		//	attribute: 
		//		The attribute to test for being contained by the store.
		if(typeof attribute !== "string"){ 
			throw new Error("dojox.data.AndOrReadStore: Invalid attribute argument.");
		}
	},

	getValue: function(	/* item */ item, 
						/* attribute-name-string */ attribute, 
						/* value? */ defaultValue){
		//	summary: 
		//		See dojo.data.api.Read.getValue()
		var values = this.getValues(item, attribute);
		return (values.length > 0)?values[0]:defaultValue; // mixed
	},

	getValues: function(/* item */ item, 
						/* attribute-name-string */ attribute){
		//	summary: 
		//		See dojo.data.api.Read.getValues()

		this._assertIsItem(item);
		this._assertIsAttribute(attribute);
		return item[attribute] || []; // Array
	},

	getAttributes: function(/* item */ item){
		//	summary: 
		//		See dojo.data.api.Read.getAttributes()
		this._assertIsItem(item);
		var attributes = [];
		for(var key in item){
			// Save off only the real item attributes, not the special id marks for O(1) isItem.
			if((key !== this._storeRefPropName) && (key !== this._itemNumPropName) && (key !== this._rootItemPropName) && (key !== this._reverseRefMap)){
				attributes.push(key);
			}
		}
		return attributes; // Array
	},

	hasAttribute: function(	/* item */ item,
							/* attribute-name-string */ attribute) {
		//	summary: 
		//		See dojo.data.api.Read.hasAttribute()
		return this.getValues(item, attribute).length > 0;
	},

	containsValue: function(/* item */ item, 
							/* attribute-name-string */ attribute, 
							/* anything */ value){
		//	summary: 
		//		See dojo.data.api.Read.containsValue()
		var regexp = undefined;
		if(typeof value === "string"){
			regexp = dojo.data.util.filter.patternToRegExp(value, false);
		}
		return this._containsValue(item, attribute, value, regexp); //boolean.
	},

	_containsValue: function(	/* item */ item, 
								/* attribute-name-string */ attribute, 
								/* anything */ value,
								/* RegExp?*/ regexp){
		//	summary: 
		//		Internal function for looking at the values contained by the item.
		//	description: 
		//		Internal function for looking at the values contained by the item.  This 
		//		function allows for denoting if the comparison should be case sensitive for
		//		strings or not (for handling filtering cases where string case should not matter)
		//	
		//	item:
		//		The data item to examine for attribute values.
		//	attribute:
		//		The attribute to inspect.
		//	value:	
		//		The value to match.
		//	regexp:
		//		Optional regular expression generated off value if value was of string type to handle wildcarding.
		//		If present and attribute values are string, then it can be used for comparison instead of 'value'
		return dojo.some(this.getValues(item, attribute), function(possibleValue){
			if(possibleValue !== null && !dojo.isObject(possibleValue) && regexp){
				if(possibleValue.toString().match(regexp)){
					return true; // Boolean
				}
			}else if(value === possibleValue){
				return true; // Boolean
			}
		});
	},

	isItem: function(/* anything */ something){
		//	summary: 
		//		See dojo.data.api.Read.isItem()
		if(something && something[this._storeRefPropName] === this){
			if(this._arrayOfAllItems[something[this._itemNumPropName]] === something){
				return true;
			}
		}
		return false; // Boolean
	},

	isItemLoaded: function(/* anything */ something){
		//	summary: 
		//		See dojo.data.api.Read.isItemLoaded()
		return this.isItem(something); //boolean
	},

	loadItem: function(/* object */ keywordArgs){
		//	summary: 
		//		See dojo.data.api.Read.loadItem()
		this._assertIsItem(keywordArgs.item);
	},

	getFeatures: function(){
		//	summary: 
		//		See dojo.data.api.Read.getFeatures()
		return this._features; //Object
	},

	getLabel: function(/* item */ item){
		//	summary: 
		//		See dojo.data.api.Read.getLabel()
		if(this._labelAttr && this.isItem(item)){
			return this.getValue(item,this._labelAttr); //String
		}
		return undefined; //undefined
	},

	getLabelAttributes: function(/* item */ item){
		//	summary: 
		//		See dojo.data.api.Read.getLabelAttributes()
		if(this._labelAttr){
			return [this._labelAttr]; //array
		}
		return null; //null
	},

	_fetchItems: function(	/* Object */ keywordArgs, 
							/* Function */ findCallback, 
							/* Function */ errorCallback){
		//	summary: 
		//		See dojo.data.util.simpleFetch.fetch()
		//		filter modified to permit complex queries where
		//			logical operators are case insensitive:  
		//			, NOT AND OR ( ) ! && ||
		//			Note:  "," included for quoted/string legacy queries. 
		var self = this;
		var filter = function(requestArgs, arrayOfItems){
			var items = [];
			if(requestArgs.query){
				var ignoreCase = requestArgs.queryOptions ? requestArgs.queryOptions.ignoreCase : false; 
				//for complex queries only:  pattern = query[:|=]"NOT id:23* AND (type:'test*' OR dept:'bob') && !filed:true"
				//logical operators are case insensitive:  , NOT AND OR ( ) ! && ||  // "," included for quoted/string legacy queries.
				var query = requestArgs.query;
				if(typeof query != "string"){
					query = dojo.toJson(query);	
					query = query.replace(/\\\\/g,"\\"); //counter toJson expansion of backslashes, e.g., foo\\*bar test.
				}
				query = query.replace(/\\"/g,"\"");   //ditto, for embedded \" in lieu of " availability.
				var complexQuery = dojo.trim(query.replace(/{|}/g,"")); //we can handle these, too.
				var pos2, i;
				if(complexQuery.match(/"? *complexQuery *"?:/)){ //case where widget required a json object, so use complexQuery:'the real query'
					complexQuery = dojo.trim(complexQuery.replace(/"?\s*complexQuery\s*"?:/,""));
					var quotes = ["'",'"'];
					var pos1,colon;
					var flag = false;
					for(i = 0; i<quotes.length; i++){
						pos1 = complexQuery.indexOf(quotes[i]);
						pos2 = complexQuery.indexOf(quotes[i],1);
						colon = complexQuery.indexOf(":",1);
						if(pos1 === 0 && pos2 != -1 && colon < pos2){
							flag = true;
							break;
						} //first two sets of quotes don't occur before the first colon.	
					}	
					if(flag){	//dojo.toJson, and maybe user, adds surrounding quotes, which we need to remove.
						complexQuery = complexQuery.replace(/^\"|^\'|\"$|\'$/g,"");
					}
				} //end query="{complexQuery:'id:1* || dept:Sales'}" parsing (for when widget required json object query).
				var complexQuerySave = complexQuery;
				//valid logical operators.
				var begRegExp = /^,|^NOT |^AND |^OR |^\(|^\)|^!|^&&|^\|\|/i; //trailing space on some tokens on purpose.
				var sQuery = ""; //will be eval'ed for each i-th candidateItem, based on query components.
				var op = "";
				var val = "";
				var pos = -1;
				var err = false;
				var key = "";
				var value = "";
				var tok = "";
				pos2 = -1;
				for(i = 0; i < arrayOfItems.length; ++i){
					var match = true;
					var candidateItem = arrayOfItems[i];
					if(candidateItem === null){
						match = false;
					}else{
						//process entire string for this i-th candidateItem.
						complexQuery = complexQuerySave;  //restore query for next candidateItem.
						sQuery = "";
						//work left to right, finding either key:value pair or logical operator at the beginning of the complexQuery string.
						//when found, concatenate to sQuery and remove from complexQuery and loop back.
						while(complexQuery.length > 0 && !err){
							op = complexQuery.match(begRegExp);
							
							//get/process/append one or two leading logical operators.
							while(op && !err){ //look for leading logical operators.
								complexQuery = dojo.trim(complexQuery.replace(op[0],""));
								op = dojo.trim(op[0]).toUpperCase();
								//convert some logical operators to their javascript equivalents for later eval.
								op = op == "NOT" ? "!" : op == "AND" || op == "," ? "&&" : op == "OR" ? "||" : op; 
								op = " " + op + " ";
								sQuery += op;
								op = complexQuery.match(begRegExp);
							}//end op && !err
							
							//now get/process/append one key:value pair.
							if(complexQuery.length > 0){
								pos = complexQuery.indexOf(":");
								if(pos == -1){
									err = true;
									break;
								}else{
									key = dojo.trim(complexQuery.substring(0,pos).replace(/\"|\'/g,""));
									complexQuery = dojo.trim(complexQuery.substring(pos + 1));
									tok = complexQuery.match(/^\'|^\"/);	//quoted?
									if(tok){
										tok = tok[0];
										pos = complexQuery.indexOf(tok);
										pos2 = complexQuery.indexOf(tok,pos + 1);
										if(pos2 == -1){
											err = true;
											break;
										}	
										value = complexQuery.substring(pos + 1,pos2);
										if(pos2 == complexQuery.length - 1){ //quote is last character
											complexQuery = "";
										}else{
											complexQuery = dojo.trim(complexQuery.substring(pos2 + 1));
										}
										sQuery += self._containsValue(candidateItem, key, value, dojo.data.util.filter.patternToRegExp(value, ignoreCase));
									}
									else{ //not quoted, so a space, comma, or closing parens (or the end) will be the break.
										tok = complexQuery.match(/\s|\)|,/);
										if(tok){
											var pos3 = new Array(tok.length);
											for(var j = 0;j<tok.length;j++){ 
												pos3[j] = complexQuery.indexOf(tok[j]);
											}
											pos = pos3[0];
											if(pos3.length > 1){
												for(var j=1;j<pos3.length;j++){
													pos = Math.min(pos,pos3[j]);													
												}
											}
											value = dojo.trim(complexQuery.substring(0,pos));
											complexQuery = dojo.trim(complexQuery.substring(pos));
										}else{ //not a space, so must be at the end of the complexQuery.
											value = dojo.trim(complexQuery);
											complexQuery = "";
										} //end  inner if(tok) else
										sQuery += self._containsValue(candidateItem, key, value, dojo.data.util.filter.patternToRegExp(value, ignoreCase));
									} //end outer if(tok) else
								} //end found ":"
							} //end if(complexQuery.length > 0)
						} //end while complexQuery.length > 0 && !err, so finished the i-th item.
						match = eval(sQuery);
					} //end else is non-null candidateItem.
					if(match){
						items.push(candidateItem);
					}
				} //end for/next of all items.
				if(err){  //soft fail.
					items = [];
					console.log("The store's _fetchItems failed, probably due to a syntax error in query.");
				}
				findCallback(items, requestArgs);
			}else{  // No query...
				// We want a copy to pass back in case the parent wishes to sort the array. 
				// We shouldn't allow resort of the internal list, so that multiple callers 
				// can get lists and sort without affecting each other.  We also need to
				// filter out any null values that have been left as a result of deleteItem()
				// calls in ItemFileWriteStore.
				for(var i = 0; i < arrayOfItems.length; ++i){
					var item = arrayOfItems[i];
					if(item !== null){
						items.push(item);
					}
				}
				findCallback(items, requestArgs);
			} //end if there is a query.
		}; //end filter function

		if(this._loadFinished){
			filter(keywordArgs, this._getItemsArray(keywordArgs.queryOptions));
		}else{

			if(this._jsonFileUrl){
				//If fetches come in before the loading has finished, but while
				//a load is in progress, we have to defer the fetching to be 
				//invoked in the callback.
				if(this._loadInProgress){
					this._queuedFetches.push({args: keywordArgs, filter: filter});
				}else{
					this._loadInProgress = true;
					var getArgs = {
							url: self._jsonFileUrl, 
							handleAs: "json-comment-optional",
							preventCache: this.urlPreventCache
						};
					var getHandler = dojo.xhrGet(getArgs);
					getHandler.addCallback(function(data){
						try{
							self._getItemsFromLoadedData(data);
							self._loadFinished = true;
							self._loadInProgress = false;
							
							filter(keywordArgs, self._getItemsArray(keywordArgs.queryOptions));
							self._handleQueuedFetches();
						}catch(e){
							self._loadFinished = true;
							self._loadInProgress = false;
							errorCallback(e, keywordArgs);
						}
					});
					getHandler.addErrback(function(error){
						self._loadInProgress = false;
						errorCallback(error, keywordArgs);
					});
				}
			}else if(this._jsonData){
				try{
					this._loadFinished = true;
					this._getItemsFromLoadedData(this._jsonData);
					this._jsonData = null;
					filter(keywordArgs, this._getItemsArray(keywordArgs.queryOptions));
				}catch(e){
					errorCallback(e, keywordArgs);
				}
			}else{
				errorCallback(new Error("dojox.data.AndOrReadStore: No JSON source data was provided as either URL or a nested Javascript object."), keywordArgs);
			}
		} //end deferred fetching.
	}, //end _fetchItems

	_handleQueuedFetches: function(){
		//	summary: 
		//		Internal function to execute delayed request in the store.
		//Execute any deferred fetches now.
		if (this._queuedFetches.length > 0) {
			for(var i = 0; i < this._queuedFetches.length; i++){
				var fData = this._queuedFetches[i];
				var delayedQuery = fData.args;
				var delayedFilter = fData.filter;
				if(delayedFilter){
					delayedFilter(delayedQuery, this._getItemsArray(delayedQuery.queryOptions)); 
				}else{
					this.fetchItemByIdentity(delayedQuery);
				}
			}
			this._queuedFetches = [];
		}
	},

	_getItemsArray: function(/*object?*/queryOptions){
		//	summary: 
		//		Internal function to determine which list of items to search over.
		//	queryOptions: The query options parameter, if any.
		if(queryOptions && queryOptions.deep) {
			return this._arrayOfAllItems; 
		}
		return this._arrayOfTopLevelItems;
	},

	close: function(/*dojo.data.api.Request || keywordArgs || null */ request){
		 //	summary: 
		 //		See dojo.data.api.Read.close()
		 if(this.clearOnClose && (this._jsonFileUrl !== "")){
			 //Reset all internalsback to default state.  This will force a reload
			 //on next fetch, but only if the data came from a url.  Passed in data
			 //means it should not clear the data.
			 this._arrayOfAllItems = [];
			 this._arrayOfTopLevelItems = [];
			 this._loadFinished = false;
			 this._itemsByIdentity = null;
			 this._loadInProgress = false;
			 this._queuedFetches = [];
		 }
	},

	_getItemsFromLoadedData: function(/* Object */ dataObject){
		//	summary:
		//		Function to parse the loaded data into item format and build the internal items array.
		//	description:
		//		Function to parse the loaded data into item format and build the internal items array.
		//
		//	dataObject:
		//		The JS data object containing the raw data to convery into item format.
		//
		// 	returns: array
		//		Array of items in store item format.
		
		// First, we define a couple little utility functions...
		
		function valueIsAnItem(/* anything */ aValue){
			// summary:
			//		Given any sort of value that could be in the raw json data,
			//		return true if we should interpret the value as being an
			//		item itself, rather than a literal value or a reference.
			// example:
			// 	|	false == valueIsAnItem("Kermit");
			// 	|	false == valueIsAnItem(42);
			// 	|	false == valueIsAnItem(new Date());
			// 	|	false == valueIsAnItem({_type:'Date', _value:'May 14, 1802'});
			// 	|	false == valueIsAnItem({_reference:'Kermit'});
			// 	|	true == valueIsAnItem({name:'Kermit', color:'green'});
			// 	|	true == valueIsAnItem({iggy:'pop'});
			// 	|	true == valueIsAnItem({foo:42});
			var isItem = (
				(aValue !== null) &&
				(typeof aValue === "object") &&
				(!dojo.isArray(aValue)) &&
				(!dojo.isFunction(aValue)) &&
				(aValue.constructor == Object) &&
				(typeof aValue._reference === "undefined") && 
				(typeof aValue._type === "undefined") && 
				(typeof aValue._value === "undefined")
			);
			return isItem;
		}
		
		var self = this;
		function addItemAndSubItemsToArrayOfAllItems(/* Item */ anItem){
			self._arrayOfAllItems.push(anItem);
			for(var attribute in anItem){
				var valueForAttribute = anItem[attribute];
				if(valueForAttribute){
					if(dojo.isArray(valueForAttribute)){
						var valueArray = valueForAttribute;
						for(var k = 0; k < valueArray.length; ++k){
							var singleValue = valueArray[k];
							if(valueIsAnItem(singleValue)){
								addItemAndSubItemsToArrayOfAllItems(singleValue);
							}
						}
					}else{
						if(valueIsAnItem(valueForAttribute)){
							addItemAndSubItemsToArrayOfAllItems(valueForAttribute);
						}
					}
				}
			}
		}

		this._labelAttr = dataObject.label;

		// We need to do some transformations to convert the data structure
		// that we read from the file into a format that will be convenient
		// to work with in memory.

		// Step 1: Walk through the object hierarchy and build a list of all items
		var i;
		var item;
		this._arrayOfAllItems = [];
		this._arrayOfTopLevelItems = dataObject.items;

		for(i = 0; i < this._arrayOfTopLevelItems.length; ++i){
			item = this._arrayOfTopLevelItems[i];
			addItemAndSubItemsToArrayOfAllItems(item);
			item[this._rootItemPropName]=true;
		}

		// Step 2: Walk through all the attribute values of all the items, 
		// and replace single values with arrays.  For example, we change this:
		//		{ name:'Miss Piggy', pets:'Foo-Foo'}
		// into this:
		//		{ name:['Miss Piggy'], pets:['Foo-Foo']}
		// 
		// We also store the attribute names so we can validate our store  
		// reference and item id special properties for the O(1) isItem
		var allAttributeNames = {};
		var key;

		for(i = 0; i < this._arrayOfAllItems.length; ++i){
			item = this._arrayOfAllItems[i];
			for(key in item){
				if (key !== this._rootItemPropName)
				{
					var value = item[key];
					if(value !== null){
						if(!dojo.isArray(value)){
							item[key] = [value];
						}
					}else{
						item[key] = [null];
					}
				}
				allAttributeNames[key]=key;
			}
		}

		// Step 3: Build unique property names to use for the _storeRefPropName and _itemNumPropName
		// This should go really fast, it will generally never even run the loop.
		while(allAttributeNames[this._storeRefPropName]){
			this._storeRefPropName += "_";
		}
		while(allAttributeNames[this._itemNumPropName]){
			this._itemNumPropName += "_";
		}
		while(allAttributeNames[this._reverseRefMap]){
			this._reverseRefMap += "_";
		}

		// Step 4: Some data files specify an optional 'identifier', which is 
		// the name of an attribute that holds the identity of each item. 
		// If this data file specified an identifier attribute, then build a 
		// hash table of items keyed by the identity of the items.
		var arrayOfValues;

		var identifier = dataObject.identifier;
		if(identifier){
			this._itemsByIdentity = {};
			this._features['dojo.data.api.Identity'] = identifier;
			for(i = 0; i < this._arrayOfAllItems.length; ++i){
				item = this._arrayOfAllItems[i];
				arrayOfValues = item[identifier];
				var identity = arrayOfValues[0];
				if(!this._itemsByIdentity[identity]){
					this._itemsByIdentity[identity] = item;
				}else{
					if(this._jsonFileUrl){
						throw new Error("dojox.data.AndOrReadStore:  The json data as specified by: [" + this._jsonFileUrl + "] is malformed.  Items within the list have identifier: [" + identifier + "].  Value collided: [" + identity + "]");
					}else if(this._jsonData){
						throw new Error("dojox.data.AndOrReadStore:  The json data provided by the creation arguments is malformed.  Items within the list have identifier: [" + identifier + "].  Value collided: [" + identity + "]");
					}
				}
			}
		}else{
			this._features['dojo.data.api.Identity'] = Number;
		}

		// Step 5: Walk through all the items, and set each item's properties 
		// for _storeRefPropName and _itemNumPropName, so that store.isItem() will return true.
		for(i = 0; i < this._arrayOfAllItems.length; ++i){
			item = this._arrayOfAllItems[i];
			item[this._storeRefPropName] = this;
			item[this._itemNumPropName] = i;
		}

		// Step 6: We walk through all the attribute values of all the items,
		// looking for type/value literals and item-references.
		//
		// We replace item-references with pointers to items.  For example, we change:
		//		{ name:['Kermit'], friends:[{_reference:{name:'Miss Piggy'}}] }
		// into this:
		//		{ name:['Kermit'], friends:[miss_piggy] } 
		// (where miss_piggy is the object representing the 'Miss Piggy' item).
		//
		// We replace type/value pairs with typed-literals.  For example, we change:
		//		{ name:['Nelson Mandela'], born:[{_type:'Date', _value:'July 18, 1918'}] }
		// into this:
		//		{ name:['Kermit'], born:(new Date('July 18, 1918')) } 
		//
		// We also generate the associate map for all items for the O(1) isItem function.
		for(i = 0; i < this._arrayOfAllItems.length; ++i){
			item = this._arrayOfAllItems[i]; // example: { name:['Kermit'], friends:[{_reference:{name:'Miss Piggy'}}] }
			for(key in item){
				arrayOfValues = item[key]; // example: [{_reference:{name:'Miss Piggy'}}]
				for(var j = 0; j < arrayOfValues.length; ++j) {
					value = arrayOfValues[j]; // example: {_reference:{name:'Miss Piggy'}}
					if(value !== null && typeof value == "object"){
						if(value._type && value._value){
							var type = value._type; // examples: 'Date', 'Color', or 'ComplexNumber'
							var mappingObj = this._datatypeMap[type]; // examples: Date, dojo.Color, foo.math.ComplexNumber, {type: dojo.Color, deserialize(value){ return new dojo.Color(value)}}
							if(!mappingObj){ 
								throw new Error("dojox.data.AndOrReadStore: in the typeMap constructor arg, no object class was specified for the datatype '" + type + "'");
							}else if(dojo.isFunction(mappingObj)){
								arrayOfValues[j] = new mappingObj(value._value);
							}else if(dojo.isFunction(mappingObj.deserialize)){
								arrayOfValues[j] = mappingObj.deserialize(value._value);
							}else{
								throw new Error("dojox.data.AndOrReadStore: Value provided in typeMap was neither a constructor, nor a an object with a deserialize function");
							}
						}
						if(value._reference){
							var referenceDescription = value._reference; // example: {name:'Miss Piggy'}
							if(!dojo.isObject(referenceDescription)){
								// example: 'Miss Piggy'
								// from an item like: { name:['Kermit'], friends:[{_reference:'Miss Piggy'}]}
								arrayOfValues[j] = this._itemsByIdentity[referenceDescription];
							}else{
								// example: {name:'Miss Piggy'}
								// from an item like: { name:['Kermit'], friends:[{_reference:{name:'Miss Piggy'}}] }
								for(var k = 0; k < this._arrayOfAllItems.length; ++k){
									var candidateItem = this._arrayOfAllItems[k];
									var found = true;
									for(var refKey in referenceDescription){
										if(candidateItem[refKey] != referenceDescription[refKey]){ 
											found = false; 
										}
									}
									if(found){ 
										arrayOfValues[j] = candidateItem; 
									}
								}
							}
							if(this.referenceIntegrity){
								var refItem = arrayOfValues[j];
								if(this.isItem(refItem)){
									this._addReferenceToMap(refItem, item, key);
								}
							}
						}else if(this.isItem(value)){
							//It's a child item (not one referenced through _reference).  
							//We need to treat this as a referenced item, so it can be cleaned up
							//in a write store easily.
							if(this.referenceIntegrity){
								this._addReferenceToMap(value, item, key);
							}
						}
					}
				}
			}
		}
	},

	_addReferenceToMap: function(/*item*/ refItem, /*item*/ parentItem, /*string*/ attribute){
		 //	summary:
		 //		Method to add an reference map entry for an item and attribute.
		 //	description:
		 //		Method to add an reference map entry for an item and attribute. 		 //
		 //	refItem:
		 //		The item that is referenced.
		 //	parentItem:
		 //		The item that holds the new reference to refItem.
		 //	attribute:
		 //		The attribute on parentItem that contains the new reference.
		 
		 //Stub function, does nothing.  Real processing is in ItemFileWriteStore.
	},

	getIdentity: function(/* item */ item){
		//	summary: 
		//		See dojo.data.api.Identity.getIdentity()
		var identifier = this._features['dojo.data.api.Identity'];
		if(identifier === Number){
			return item[this._itemNumPropName]; // Number
		}else{
			var arrayOfValues = item[identifier];
			if(arrayOfValues){
				return arrayOfValues[0]; // Object || String
			}
		}
		return null; // null
	},

	fetchItemByIdentity: function(/* Object */ keywordArgs){
		//	summary: 
		//		See dojo.data.api.Identity.fetchItemByIdentity()

		// Hasn't loaded yet, we have to trigger the load.
		if(!this._loadFinished){
			var self = this;
			if(this._jsonFileUrl){

				if(this._loadInProgress){
					this._queuedFetches.push({args: keywordArgs});
				}else{
					this._loadInProgress = true;
					var getArgs = {
							url: self._jsonFileUrl, 
							handleAs: "json-comment-optional",
							preventCache: this.urlPreventCache
					};
					var getHandler = dojo.xhrGet(getArgs);
					getHandler.addCallback(function(data){
						var scope =  keywordArgs.scope?keywordArgs.scope:dojo.global;
						try{
							self._getItemsFromLoadedData(data);
							self._loadFinished = true;
							self._loadInProgress = false;
							var item = self._getItemByIdentity(keywordArgs.identity);
							if(keywordArgs.onItem){
								keywordArgs.onItem.call(scope, item);
							}
							self._handleQueuedFetches();
						}catch(error){
							self._loadInProgress = false;
							if(keywordArgs.onError){
								keywordArgs.onError.call(scope, error);
							}
						}
					});
					getHandler.addErrback(function(error){
						self._loadInProgress = false;
						if(keywordArgs.onError){
							var scope =  keywordArgs.scope?keywordArgs.scope:dojo.global;
							keywordArgs.onError.call(scope, error);
						}
					});
				}

			}else if(this._jsonData){
				// Passed in data, no need to xhr.
				self._getItemsFromLoadedData(self._jsonData);
				self._jsonData = null;
				self._loadFinished = true;
				var item = self._getItemByIdentity(keywordArgs.identity);
				if(keywordArgs.onItem){
					var scope =  keywordArgs.scope?keywordArgs.scope:dojo.global;
					keywordArgs.onItem.call(scope, item);
				}
			} 
		}else{
			// Already loaded.  We can just look it up and call back.
			var item = this._getItemByIdentity(keywordArgs.identity);
			if(keywordArgs.onItem){
				var scope =  keywordArgs.scope?keywordArgs.scope:dojo.global;
				keywordArgs.onItem.call(scope, item);
			}
		}
	},

	_getItemByIdentity: function(/* Object */ identity){
		//	summary:
		//		Internal function to look an item up by its identity map.
		var item = null;
		if(this._itemsByIdentity){
			item = this._itemsByIdentity[identity];
		}else{
			item = this._arrayOfAllItems[identity];
		}
		if(item === undefined){
			item = null;
		}
		return item; // Object
	},

	getIdentityAttributes: function(/* item */ item){
		//	summary: 
		//		See dojo.data.api.Identity.getIdentifierAttributes()
		 
		var identifier = this._features['dojo.data.api.Identity'];
		if(identifier === Number){
			// If (identifier === Number) it means getIdentity() just returns
			// an integer item-number for each item.  The dojo.data.api.Identity
			// spec says we need to return null if the identity is not composed 
			// of attributes 
			return null; // null
		}else{
			return [identifier]; // Array
		}
	},
	
	_forceLoad: function(){
		//	summary: 
		//		Internal function to force a load of the store if it hasn't occurred yet.  This is required
		//		for specific functions to work properly.  
		var self = this;
		if(this._jsonFileUrl){
				var getArgs = {
					url: self._jsonFileUrl, 
					handleAs: "json-comment-optional",
					preventCache: this.urlPreventCache,
					sync: true
				};
			var getHandler = dojo.xhrGet(getArgs);
			getHandler.addCallback(function(data){
				try{
					//Check to be sure there wasn't another load going on concurrently 
					//So we don't clobber data that comes in on it.  If there is a load going on
					//then do not save this data.  It will potentially clobber current data.
					//We mainly wanted to sync/wait here.
					//TODO:  Revisit the loading scheme of this store to improve multi-initial
					//request handling.
					if(self._loadInProgress !== true && !self._loadFinished){
						self._getItemsFromLoadedData(data);
						self._loadFinished = true;
					}else if(self._loadInProgress){
						//Okay, we hit an error state we can't recover from.  A forced load occurred
						//while an async load was occurring.  Since we cannot block at this point, the best
						//that can be managed is to throw an error.
						throw new Error("dojox.data.AndOrReadStore:  Unable to perform a synchronous load, an async load is in progress."); 
					}
				}catch(e){
					console.log(e);
					throw e;
				}
			});
			getHandler.addErrback(function(error){
				throw error;
			});
		}else if(this._jsonData){
			self._getItemsFromLoadedData(self._jsonData);
			self._jsonData = null;
			self._loadFinished = true;
		} 
	}
});
//Mix in the simple fetch implementation to this class.
dojo.extend(dojox.data.AndOrReadStore,dojo.data.util.simpleFetch);