merging in http://svn.mannlib.cornell.edu/svn/vitro/branches/iu-vis-vitro-1.1-pre-release from r4966 to r5166

webapp/config/web.xml

@@ -1120,6 +1120,26 @@
     <url-pattern>/admin/sparqlquery</url-pattern>
   </servlet-mapping>
   
+  <servlet>
+    <servlet-name>DummyVisClient</servlet-name>
+    <servlet-class>edu.cornell.mannlib.vitro.webapp.controller.visualization.DummyVisClientController</servlet-class>
+  </servlet>
+
+  <servlet-mapping>
+    <servlet-name>DummyVisClient</servlet-name>
+    <url-pattern>/admin/dummyVisClient</url-pattern>
+  </servlet-mapping>
+  
+   <servlet>
+    <servlet-name>VisualizationController</servlet-name>
+    <servlet-class>edu.cornell.mannlib.vitro.webapp.controller.visualization.VisualizationController</servlet-class>
+  </servlet>
+
+  <servlet-mapping>
+    <servlet-name>VisualizationController</servlet-name>
+    <url-pattern>/admin/visQuery</url-pattern>
+  </servlet-mapping>
+
   <servlet>
     <servlet-name>authtest</servlet-name>
     <servlet-class>edu.cornell.mannlib.vitro.webapp.auth.AuthTestController</servlet-class>

webapp/src/edu/cornell/mannlib/vitro/webapp/controller/SparqlQueryServlet.java

@@ -418,6 +418,10 @@ public class SparqlQueryServlet extends BaseEditController {
         "PREFIX swrlb: <http://www.w3.org/2003/11/swrlb#>\n" +
         "PREFIX vitro: <http://vitro.mannlib.cornell.edu/ns/vitro/0.7#>\n"+
         "PREFIX vivo:  <http://vivo.library.cornell.edu/ns/0.1#>\n" +
+        "PREFIX bibo: <http://purl.org/ontology/bibo/>\n" +
+        "PREFIX foaf: <http://xmlns.com/foaf/0.1/>\n" +
+        "PREFIX core: <http://vivoweb.org/ontology/core#>\n" +
+        "PREFIX aktp:  <http://www.aktors.org/ontology/portal#>\n"+
         "#\n" +
         "# This query gets all range entities labels and types of a person\n"+
         "# A query like this could be used to get enough info to create a display\n"+

webapp/src/edu/cornell/mannlib/vitro/webapp/controller/visualization/DummyVisClientController.java

@@ -0,0 +1,136 @@
+package edu.cornell.mannlib.vitro.webapp.controller.visualization;
+
+/*
+Copyright (c) 2010, Cornell University
+All rights reserved.
+
+Redistribution and use in source and binary forms, with or without
+modification, are permitted provided that the following conditions are met:
+
+    * Redistributions of source code must retain the above copyright notice,
+      this list of conditions and the following disclaimer.
+    * Redistributions in binary form must reproduce the above copyright notice,
+      this list of conditions and the following disclaimer in the documentation
+      and/or other materials provided with the distribution.
+    * Neither the name of Cornell University nor the names of its contributors
+      may be used to endorse or promote products derived from this software
+      without specific prior written permission.
+
+THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND
+ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
+WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
+DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE
+FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
+DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
+SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
+CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY,
+OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
+OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
+*/
+
+import java.io.IOException;
+
+import javax.servlet.RequestDispatcher;
+import javax.servlet.ServletException;
+import javax.servlet.http.HttpServletRequest;
+import javax.servlet.http.HttpServletResponse;
+
+import org.apache.commons.logging.Log;
+import org.apache.commons.logging.LogFactory;
+
+import edu.cornell.mannlib.vedit.beans.LoginFormBean;
+import edu.cornell.mannlib.vedit.controller.BaseEditController;
+import edu.cornell.mannlib.vitro.webapp.beans.Portal;
+import edu.cornell.mannlib.vitro.webapp.controller.Controllers;
+import edu.cornell.mannlib.vitro.webapp.controller.VitroRequest;
+
+/**
+ * Services a sparql query.  This will return a simple error message and a 501 if
+ * there is no jena Model.
+ *
+ * @author bdc34
+ *
+ */
+public class DummyVisClientController extends BaseEditController {
+
+	private static final long serialVersionUID = 1L;
+
+	private static final Log log = LogFactory.getLog(DummyVisClientController.class.getName());
+
+    @Override
+    protected void doPost(HttpServletRequest request, HttpServletResponse response)
+    throws ServletException, IOException
+    {
+        this.doGet(request,response);
+    }
+
+    @Override
+    protected void doGet(HttpServletRequest request, HttpServletResponse response)
+    throws ServletException, IOException
+    {
+    	super.doGet(request, response);
+
+    	VitroRequest vreq = handleLoginAuthentication(request, response);
+    	prepareVisualizationQueryResponse(request, response, vreq);
+
+        return;
+    }
+
+	private void prepareVisualizationQueryResponse(HttpServletRequest request,
+			HttpServletResponse response, VitroRequest vreq) {
+
+        Portal portal = vreq.getPortal();
+
+        RequestDispatcher requestDispatcher = request.getRequestDispatcher(Controllers.BASIC_JSP);
+        request.setAttribute("bodyJsp", "/templates/visualization/dummy_vis_client.jsp");
+        request.setAttribute("portalBean", portal);
+        request.setAttribute("title", "Dummy Visualization Client");
+        request.setAttribute("scripts", "/templates/visualization/visualization_scripts.jsp");
+
+		try {
+			requestDispatcher.forward(request, response);
+		} catch (Exception e) {
+			log.error("EntityEditController could not forward to view.");
+			log.error(e.getMessage());
+			log.error(e.getStackTrace());
+		}
+
+	}
+
+	private VitroRequest handleLoginAuthentication(HttpServletRequest request,
+			HttpServletResponse response) throws IOException {
+		//        This might not be required
+		        /*
+		         * why are there multiple places where the login is checked? shud be abtracted into
+		         * new methoid?
+		         * */
+//		        if( !checkLoginStatus(request, response) )
+//		        	return null;
+
+		        VitroRequest vreq = new VitroRequest(request);
+
+		        Object obj = vreq.getSession().getAttribute("loginHandler");
+		        LoginFormBean loginHandler = null;
+
+		        if( obj != null && obj instanceof LoginFormBean )
+		            loginHandler = ((LoginFormBean)obj);
+
+
+		        /*
+		         * what is the speciality of 5 in the conditions?
+		         *
+		        if( loginHandler == null ||
+		            ! "authenticated".equalsIgnoreCase(loginHandler.getLoginStatus()) ||
+		             Integer.parseInt(loginHandler.getLoginRole()) <= 5 ){
+		            HttpSession session = request.getSession(true);
+
+		            session.setAttribute("postLoginRequest",
+		                    vreq.getRequestURI()+( vreq.getQueryString()!=null?('?' + vreq.getQueryString()):"" ));
+		            String redirectURL = request.getContextPath() + Controllers.SITE_ADMIN + "?login=block";
+		            response.sendRedirect(redirectURL);
+		            return null;
+		        }*/
+		return vreq;
+	}
+
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/controller/visualization/VisualizationController.java

@@ -0,0 +1,379 @@
+package edu.cornell.mannlib.vitro.webapp.controller.visualization;
+
+/*
+Copyright (c) 2010, Cornell University
+All rights reserved.
+
+Redistribution and use in source and binary forms, with or without
+modification, are permitted provided that the following conditions are met:
+
+    * Redistributions of source code must retain the above copyright notice,
+      this list of conditions and the following disclaimer.
+    * Redistributions in binary form must reproduce the above copyright notice,
+      this list of conditions and the following disclaimer in the documentation
+      and/or other materials provided with the distribution.
+    * Neither the name of Cornell University nor the names of its contributors
+      may be used to endorse or promote products derived from this software
+      without specific prior written permission.
+
+THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND
+ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
+WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
+DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE
+FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
+DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
+SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
+CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY,
+OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
+OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
+*/
+
+import java.io.IOException;
+import java.util.HashMap;
+
+import javax.servlet.RequestDispatcher;
+import javax.servlet.ServletException;
+import javax.servlet.ServletOutputStream;
+import javax.servlet.http.HttpServletRequest;
+import javax.servlet.http.HttpServletResponse;
+
+import org.apache.commons.logging.Log;
+import org.apache.commons.logging.LogFactory;
+
+import com.hp.hpl.jena.query.DataSource;
+import com.hp.hpl.jena.query.DatasetFactory;
+import com.hp.hpl.jena.query.Syntax;
+import com.hp.hpl.jena.rdf.model.Model;
+import com.hp.hpl.jena.rdf.model.ModelMaker;
+import com.hp.hpl.jena.sparql.resultset.ResultSetFormat;
+
+import edu.cornell.mannlib.vedit.beans.LoginFormBean;
+import edu.cornell.mannlib.vedit.controller.BaseEditController;
+import edu.cornell.mannlib.vitro.webapp.beans.Portal;
+import edu.cornell.mannlib.vitro.webapp.controller.Controllers;
+import edu.cornell.mannlib.vitro.webapp.controller.VitroRequest;
+
+/**
+ * Services a sparql query.  This will return a simple error message and a 501 if
+ * there is no jena Model.
+ *
+ * @author bdc34
+ *
+ */
+public class VisualizationController extends BaseEditController {
+
+	private static final String VIS_TYPE_URL_HANDLE = "vis";
+	
+	public static final String URL_ENCODING_SCHEME = "UTF-8";
+
+	private static final long serialVersionUID = 1L;
+
+	private static final Log log = LogFactory.getLog(VisualizationController.class.getName());
+
+    protected static final Syntax SYNTAX = Syntax.syntaxARQ;
+
+    protected static HashMap<String,ResultSetFormat> formatSymbols = new HashMap<String,ResultSetFormat>();
+    static{
+        formatSymbols.put( ResultSetFormat.syntaxXML.getSymbol(),     ResultSetFormat.syntaxXML);
+        formatSymbols.put( ResultSetFormat.syntaxRDF_XML.getSymbol(), ResultSetFormat.syntaxRDF_XML);
+        formatSymbols.put( ResultSetFormat.syntaxRDF_N3.getSymbol(),  ResultSetFormat.syntaxRDF_N3);
+        formatSymbols.put( ResultSetFormat.syntaxText.getSymbol() ,   ResultSetFormat.syntaxText);
+        formatSymbols.put( ResultSetFormat.syntaxJSON.getSymbol() ,   ResultSetFormat.syntaxJSON);
+        formatSymbols.put( "vitro:csv", null);
+    }
+
+    protected static HashMap<String,String> rdfFormatSymbols = new HashMap<String,String>();
+    static {
+    	rdfFormatSymbols.put( "RDF/XML", "application/rdf+xml" );
+    	rdfFormatSymbols.put( "RDF/XML-ABBREV", "application/rdf+xml" );
+    	rdfFormatSymbols.put( "N3", "text/n3" );
+    	rdfFormatSymbols.put( "N-TRIPLE", "text/plain" );
+    	rdfFormatSymbols.put( "TTL", "application/x-turtle" );
+    }
+
+    protected static HashMap<String, String> mimeTypes = new HashMap<String,String>();
+    static{
+        mimeTypes.put( ResultSetFormat.syntaxXML.getSymbol() ,         "text/xml" );
+        mimeTypes.put( ResultSetFormat.syntaxRDF_XML.getSymbol(),      "application/rdf+xml"  );
+        mimeTypes.put( ResultSetFormat.syntaxRDF_N3.getSymbol(),       "text/plain" );
+        mimeTypes.put( ResultSetFormat.syntaxText.getSymbol() ,        "text/plain");
+        mimeTypes.put( ResultSetFormat.syntaxJSON.getSymbol(),         "application/javascript" );
+        mimeTypes.put( "vitro:csv",                                    "text/csv");
+    }
+
+    public static final String PERSON_PUBLICATION_COUNT_VIS_URL_VALUE
+    								= "person_pub_count";
+    
+    public static final String PDF_REPORT_VIS_URL_VALUE
+									= "pdf_report";
+    
+    public static final String COLLEGE_PUBLICATION_COUNT_VIS_URL_VALUE
+									= "college_pub_count";
+    
+    public static final String COAUTHORSHIP_VIS_URL_VALUE
+									= "coauthorship";
+    
+    public static final String PERSON_LEVEL_VIS_URL_VALUE
+									= "person_level";
+    
+    public static final String UTILITIES_URL_VALUE
+									= "utilities";
+
+
+
+    @Override
+    protected void doPost(HttpServletRequest request, HttpServletResponse response)
+    throws ServletException, IOException
+    {
+        this.doGet(request,response);
+    }
+
+    @Override
+    protected void doGet(HttpServletRequest request, HttpServletResponse response)
+    throws ServletException, IOException
+    {
+    	super.doGet(request, response);
+
+    	VitroRequest vreq = handleLoginAuthentication(request, response);
+
+
+    	if (PERSON_PUBLICATION_COUNT_VIS_URL_VALUE
+    			.equalsIgnoreCase(vreq.getParameter(VIS_TYPE_URL_HANDLE))) {
+
+    		edu.cornell.mannlib.vitro.webapp.visualization.personpubcount.VisualizationRequestHandler visRequestHandler =
+    			new edu.cornell.mannlib.vitro.webapp.visualization.personpubcount.VisualizationRequestHandler(vreq, request, response, log);
+
+            String rdfResultFormatParam = "RDF/XML-ABBREV";
+
+            DataSource dataSource = setupJENADataSource(request,
+            											response,
+            											vreq,
+            											rdfResultFormatParam);
+
+            if (dataSource != null) {
+
+            	/*
+            	 * This is side-effecting because the visualization content is added
+            	 * to the request object.
+            	 * */
+            	visRequestHandler.generateVisualization(dataSource);
+
+            } else {
+            	
+            	log.error("ERROR! Data Model Empty");
+            }
+
+    	} else if (COLLEGE_PUBLICATION_COUNT_VIS_URL_VALUE
+    			.equalsIgnoreCase(vreq.getParameter(VIS_TYPE_URL_HANDLE))) {
+    		
+    		edu.cornell.mannlib.vitro.webapp.visualization.collegepubcount.VisualizationRequestHandler visRequestHandler =
+    			new edu.cornell.mannlib.vitro.webapp.visualization.collegepubcount.VisualizationRequestHandler(vreq, request, response, log);
+
+            String rdfResultFormatParam = "RDF/XML-ABBREV";
+
+            DataSource dataSource = setupJENADataSource(request,
+            											response,
+            											vreq,
+            											rdfResultFormatParam);
+            
+            if (dataSource != null) {
+
+            	/*
+            	 * This is side-effecting because the visualization content is added
+            	 * to the request object.
+            	 * */
+            	visRequestHandler.generateVisualization(dataSource);
+
+            } else {
+            	log.error("ERROR! data model empoty");
+            }
+ 
+    	} else if (COAUTHORSHIP_VIS_URL_VALUE
+    			.equalsIgnoreCase(vreq.getParameter(VIS_TYPE_URL_HANDLE))) {
+    		
+    		edu.cornell.mannlib.vitro.webapp.visualization.coauthorship.VisualizationRequestHandler visRequestHandler =
+    			new edu.cornell.mannlib.vitro.webapp.visualization.coauthorship.VisualizationRequestHandler(vreq, request, response, log);
+
+            String rdfResultFormatParam = "RDF/XML-ABBREV";
+
+            DataSource dataSource = setupJENADataSource(request,
+            											response,
+            											vreq,
+            											rdfResultFormatParam);
+
+            if (dataSource != null) {
+
+            	/*
+            	 * This is side-effecting because the visualization content is added
+            	 * to the request object.
+            	 * */
+            	visRequestHandler.generateVisualization(dataSource);
+
+            } else {
+            	log.error("ERROR! data model empoty");
+            }
+ 
+    	} else if (PERSON_LEVEL_VIS_URL_VALUE
+    			.equalsIgnoreCase(vreq.getParameter(VIS_TYPE_URL_HANDLE))) {
+    		
+    		edu.cornell.mannlib.vitro.webapp.visualization.personlevel.VisualizationRequestHandler visRequestHandler =
+    			new edu.cornell.mannlib.vitro.webapp.visualization.personlevel.VisualizationRequestHandler(vreq, request, response, log);
+
+            String rdfResultFormatParam = "RDF/XML-ABBREV";
+
+            DataSource dataSource = setupJENADataSource(request,
+            											response,
+            											vreq,
+            											rdfResultFormatParam);
+
+            if (dataSource != null) {
+
+            	/*
+            	 * This is side-effecting because the visualization content is added
+            	 * to the request object.
+            	 * */
+            	visRequestHandler.generateVisualization(dataSource);
+
+            } else {
+            	log.error("ERROR! data model empoty");
+            }
+ 
+    	} else if (PDF_REPORT_VIS_URL_VALUE
+    			.equalsIgnoreCase(vreq.getParameter(VIS_TYPE_URL_HANDLE))) {
+ 
+    	} else if (UTILITIES_URL_VALUE
+    			.equalsIgnoreCase(vreq.getParameter(VIS_TYPE_URL_HANDLE))) {
+    		
+    		edu.cornell.mannlib.vitro.webapp.visualization.utilities.VisualizationRequestHandler visRequestHandler =
+    			new edu.cornell.mannlib.vitro.webapp.visualization.utilities.VisualizationRequestHandler(vreq, request, response, log);
+
+            String rdfResultFormatParam = "RDF/XML-ABBREV";
+
+            DataSource dataSource = setupJENADataSource(request,
+            											response,
+            											vreq,
+            											rdfResultFormatParam);
+
+            if (dataSource != null) {
+
+            	/*
+            	 * This is side-effecting because the visualization content is added
+            	 * to the request object.
+            	 * */
+            	visRequestHandler.generateVisualization(dataSource);
+
+            } else {
+            	log.error("ERROR! data model empoty");
+            }
+ 
+    	} else {
+    		
+    		log.debug("vis uqery parameter value -> " + vreq.getParameter("vis"));
+    		log.debug("uri uqery parameter value -> " + vreq.getParameter("uri"));
+    		log.debug("render_mode query parameter value -> " + vreq.getParameter("render_mode"));
+
+    		/*
+    		 * This is side-effecting because the error content is directly
+    		 * added to the request object. From where it is redirected to
+    		 * the error page.
+    		 * */
+    		handleMalformedParameters("Inappropriate query parameters were submitted. ", request, response);
+    	}
+
+        return;
+    }
+
+	private VitroRequest handleLoginAuthentication(HttpServletRequest request,
+			HttpServletResponse response) throws IOException {
+		//        This might not be required
+		        /*
+		         * why are there multiple places where the login is checked? shud be abtracted into
+		         * new methoid?
+		         * */
+//		        if( !checkLoginStatus(request, response) )
+//		        	return null;
+
+		        VitroRequest vreq = new VitroRequest(request);
+
+		        Object obj = vreq.getSession().getAttribute("loginHandler");
+		        LoginFormBean loginHandler = null;
+
+
+		        if( obj != null && obj instanceof LoginFormBean )
+		            loginHandler = ((LoginFormBean)obj);
+
+		        /*
+		         * what is the speciality of 5 in the conditions?
+		         *
+		        if( loginHandler == null ||
+		            ! "authenticated".equalsIgnoreCase(loginHandler.getLoginStatus()) ||
+		             Integer.parseInt(loginHandler.getLoginRole()) <= 5 ){
+		            HttpSession session = request.getSession(true);
+
+		            session.setAttribute("postLoginRequest",
+		                    vreq.getRequestURI()+( vreq.getQueryString()!=null?('?' + vreq.getQueryString()):"" ));
+		            String redirectURL = request.getContextPath() + Controllers.SITE_ADMIN + "?login=block";
+		            response.sendRedirect(redirectURL);
+		            return null;
+		        }
+		        */
+		return vreq;
+	}
+
+	private DataSource setupJENADataSource(HttpServletRequest request,
+			HttpServletResponse response, VitroRequest vreq,
+			String rdfResultFormatParam) {
+
+		Model model = vreq.getJenaOntModel(); // getModel()
+        if( model == null ){
+            doNoModelInContext(request,response);
+            return null;
+        }
+
+        log.debug("rdfResultFormat was: " + rdfResultFormatParam);
+
+        DataSource dataSource = DatasetFactory.create() ;
+        ModelMaker maker = (ModelMaker) getServletContext().getAttribute("vitroJenaModelMaker");
+
+        	dataSource.setDefaultModel(model) ;
+
+        return dataSource;
+	}
+
+    private void doNoModelInContext(HttpServletRequest request, HttpServletResponse res){
+        try {
+            res.setStatus(HttpServletResponse.SC_NOT_IMPLEMENTED);
+            ServletOutputStream sos = res.getOutputStream();
+            sos.println("<html><body>this service is not supporeted by the current " +
+                    "webapp configuration. A jena model is required in the servlet context.</body></html>" );
+        } catch (IOException e) {
+            log.error("Could not write to ServletOutputStream");
+        }
+    }
+
+
+    private void handleMalformedParameters(String errorMessage, HttpServletRequest request,
+    					HttpServletResponse response)
+    	throws ServletException, IOException {
+
+        VitroRequest vreq = new VitroRequest(request);
+        Portal portal = vreq.getPortal();
+
+        request.setAttribute("error", errorMessage);
+
+        RequestDispatcher requestDispatcher = request.getRequestDispatcher(Controllers.BASIC_JSP);
+        request.setAttribute("bodyJsp", "/templates/visualization/visualization_error.jsp");
+        request.setAttribute("portalBean", portal);
+        request.setAttribute("title", "Visualization Query Error");
+
+        try {
+            requestDispatcher.forward(request, response);
+        } catch (Exception e) {
+            log.error("EntityEditController could not forward to view.");
+            log.error(e.getMessage());
+            log.error(e.getStackTrace());
+        }
+    }
+
+}
+

webapp/src/edu/cornell/mannlib/vitro/webapp/controller/visualization/VisualizationFrameworkConstants.java

@@ -0,0 +1,20 @@
+package edu.cornell.mannlib.vitro.webapp.controller.visualization;
+
+public class VisualizationFrameworkConstants {
+	
+	public static final String VIS_TYPE_URL_HANDLE = "vis";
+	public static final String VIS_CONTAINER_URL_HANDLE = "container";
+	public static final String INDIVIDUAL_URI_URL_HANDLE = "uri";
+	public static final String VIS_MODE_URL_HANDLE = "vis_mode";
+	public static final String RENDER_MODE_URL_HANDLE = "render_mode";
+	
+	
+	
+	public static final String STANDALONE_RENDER_MODE_URL_VALUE = "standalone";
+	public static final String DYNAMIC_RENDER_MODE_URL_VALUE = "dynamic";
+	public static final String DATA_RENDER_MODE_URL_VALUE = "data";
+	public static final String PDF_RENDER_MODE_URL_VALUE = "pdf";
+	public static final String IMAGE_VIS_MODE_URL_VALUE = "image";
+	
+	
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/PDFDocument.java

@@ -0,0 +1,295 @@
+package edu.cornell.mannlib.vitro.webapp.visualization;
+
+import java.awt.BasicStroke;
+import java.awt.Color;
+import java.awt.Stroke;
+import java.io.IOException;
+import java.net.MalformedURLException;
+import java.net.URL;
+import java.util.Map;
+import java.util.Map.Entry;
+
+import com.itextpdf.text.BadElementException;
+import com.itextpdf.text.BaseColor;
+import com.itextpdf.text.Chunk;
+import com.itextpdf.text.Document;
+import com.itextpdf.text.DocumentException;
+import com.itextpdf.text.Element;
+import com.itextpdf.text.Font;
+import com.itextpdf.text.FontFactory;
+import com.itextpdf.text.Image;
+import com.itextpdf.text.Paragraph;
+import com.itextpdf.text.Phrase;
+import com.itextpdf.text.pdf.ColumnText;
+import com.itextpdf.text.pdf.PdfContentByte;
+import com.itextpdf.text.pdf.PdfGState;
+import com.itextpdf.text.pdf.PdfPCell;
+import com.itextpdf.text.pdf.PdfPTable;
+import com.itextpdf.text.pdf.PdfWriter;
+
+public class PDFDocument{
+
+	
+	static Stroke stroke = new BasicStroke(5.f, BasicStroke.CAP_ROUND,
+            BasicStroke.JOIN_ROUND);
+
+    final static Color bg = Color.green;
+
+    final static Color fg = Color.black;
+    
+	public PDFDocument(String authorName,
+					   Map<String, Integer> yearToPublicationCount, 
+					   Document document,
+					   PdfWriter pdfWriter) {
+		
+//        setPreferredSize(new Dimension(600,400));
+		
+		try {
+			
+		document.addTitle("PDF Pipeline iText Prototype");
+		document.addAuthor(authorName);
+		document.addSubject("This example tests text, color, image, transparency & table functionality.");
+		document.addKeywords("text, color, image, transparency, table");
+		document.addCreator("Standalone PDF Renderer using iText");
+
+		Paragraph header = new Paragraph();
+		
+		Font pageHeaderStyle = FontFactory.getFont(FontFactory.TIMES_ROMAN, 15, Font.BOLDITALIC | Font.UNDERLINE);
+		Font featureHeaderStyle = FontFactory.getFont(FontFactory.TIMES_ROMAN, 10, new BaseColor(Color.red));
+		
+		header.add(new Chunk("PDF Pipeline Prototype v2 using iText\n", 
+							 pageHeaderStyle));
+		
+		header.setSpacingAfter(15f);
+		
+		
+			document.add(header);
+		
+		
+		Paragraph content = new Paragraph();
+		
+		content.add(new Chunk("Publication Count - Author Name - " + authorName, 
+							 featureHeaderStyle));
+		
+		content.setSpacingAfter(15f);
+		
+		document.add(content);
+		// step4
+		
+		PdfPTable publicationCount = createTable(yearToPublicationCount);
+		
+		document.add(publicationCount);
+		
+		content = new Paragraph();
+		
+		content.add(new Chunk("Transparency of Shapes", 
+				 featureHeaderStyle));
+
+		content.setSpacingAfter(15f);
+		
+		document.add(content);
+		
+		createTransparencyShapes(document, pdfWriter);
+		
+		
+        createImage(document, pdfWriter, featureHeaderStyle);
+		
+		} catch (DocumentException e) {
+			// TODO Auto-generated catch block
+			e.printStackTrace();
+		} catch (Exception e) {
+			// TODO Auto-generated catch block
+			e.printStackTrace();
+		}
+						
+    }
+	
+	
+	private void createImage(Document document, PdfWriter writer,
+			Font featureHeaderStyle) throws BadElementException,
+			MalformedURLException, IOException, DocumentException {
+		Image imageSprite = Image.getInstance(new URL("http://lh3.ggpht.com/_4msVPAgKJv8/SCRYD-pPVKI/AAAAAAAAAYU/zUN963EPoZc/s1024/102_0609.JPG"));
+		imageSprite.setAbsolutePosition(400, 500);
+		imageSprite.scaleAbsolute(171.0f, 250.0f);
+		float imageSpriteY = document.getPageSize().getHeight() * 0.60f;
+		float imageSpriteX = document.getPageSize().getWidth() * 0.65f;
+		imageSprite.setAlignment(Image.UNDERLYING);
+
+		document.add(imageSprite);
+		
+		PdfContentByte cb = writer.getDirectContent();
+		ColumnText ct = new ColumnText(cb);
+		Chunk imageHeader = new Chunk("Images",
+									  featureHeaderStyle);
+		ct.addText(imageHeader);
+		ct.setAlignment(Element.ALIGN_LEFT);
+		ct.setSimpleColumn(imageSpriteX, imageSpriteY - imageSprite.getScaledHeight(), 
+				   imageSpriteX + imageSprite.getScaledWidth(), imageSpriteY + imageSprite.getScaledHeight() + 20);
+		ct.go();
+		
+		ct = new ColumnText(cb);
+		Chunk imageFooter = new Chunk("Footer to be set for a figure. Similar to 'image cpation'.",
+									  FontFactory.getFont(FontFactory.TIMES_ROMAN, 8));
+		ct.addText(imageFooter);
+		ct.setAlignment(Element.ALIGN_CENTER);
+		ct.setSimpleColumn(imageSpriteX, imageSpriteY - 150, imageSpriteX + imageSprite.getScaledWidth(), imageSpriteY);
+		ct.go();
+	}
+
+	private void createTransparencyShapes(Document document,
+			PdfWriter writer) throws Exception {
+		PdfContentByte cb = writer.getDirectContent();
+		
+		pictureBackdrop(document.leftMargin(), 350, cb);
+		cb.saveState();
+		PdfGState gs1 = new PdfGState();
+		gs1.setFillOpacity(0.5f);
+		cb.setGState(gs1);
+		pictureCircles(document.leftMargin(), 350, cb);
+		cb.restoreState();
+		
+        cb.resetRGBColorFill();
+	}
+	
+    /**
+     * Prints a square and fills half of it with a gray rectangle.
+     * @param x
+     * @param y
+     * @param cb
+     * @throws Exception
+     */
+    public void pictureBackdrop(float x, float y, PdfContentByte cb) throws Exception {
+        cb.setColorStroke(new BaseColor(Color.black));
+        cb.setColorFill(new BaseColor(Color.gray));
+        cb.rectangle(x, y, 100, 200);
+        cb.fill();
+        cb.setLineWidth(2);
+        cb.rectangle(x, y, 200, 200);
+        cb.stroke();
+    }
+
+    /**
+     * Prints 3 circles in different colors that intersect with eachother.
+     * @param x
+     * @param y
+     * @param cb
+     * @throws Exception
+     */
+    public void pictureCircles(float x, float y, PdfContentByte cb) throws Exception {
+    	
+		cb.saveState();
+		PdfGState gs1 = new PdfGState();
+		gs1.setFillOpacity(1.0f);
+		cb.setGState(gs1);
+        cb.setColorFill(new BaseColor(Color.red));
+        cb.circle(x + 70, y + 70, 50);
+        cb.fill();
+		cb.restoreState();
+
+        cb.setColorFill(new BaseColor(Color.yellow));
+        cb.circle(x + 100, y + 130, 50);
+        cb.fill();
+        cb.setColorFill(new BaseColor(Color.blue));
+        cb.circle(x + 130, y + 70, 50);
+        cb.fill();
+    }
+
+	private PdfPTable createTable(Map<String, Integer> yearToPublicationCount) {
+		
+		Font normalContentStyle = FontFactory.getFont(FontFactory.TIMES_ROMAN, 11);
+		Font summaryContentStyle = FontFactory.getFont(FontFactory.TIMES_ROMAN, 11, Font.BOLDITALIC);
+		BaseColor summaryBackgroundColor = new BaseColor(0xEE, 0xEE, 0xEE);
+		BaseColor headerBackgroundColor = new BaseColor(0xC3, 0xD9, 0xFF);
+		BaseColor bodyBackgroundColor = new BaseColor(Color.white);
+		
+		PdfPTable table = new PdfPTable(2);
+		table.setWidthPercentage(36.0f);
+		
+		table.setHorizontalAlignment(Element.ALIGN_LEFT);
+		table.getDefaultCell().setBorderWidth(0.0f);
+		table.setHeaderRows(2);
+		
+		PdfPCell cell;
+		cell = new PdfPCell(new Phrase("Publications per year", normalContentStyle));
+		setTableCaptionStyle(summaryBackgroundColor, cell);
+		table.addCell(cell);
+		
+		cell = new PdfPCell(new Phrase("Year", normalContentStyle));
+		setTableHeaderStyle(headerBackgroundColor, cell);
+		table.addCell(cell);
+		
+		cell.setPhrase(new Phrase("Publications", normalContentStyle));
+		table.addCell(cell);
+		
+		
+		
+		setTableBodyStyle(bodyBackgroundColor, cell);
+		int totalPublications = 0;
+		
+		for (Entry<String, Integer> currentEntry : yearToPublicationCount.entrySet()) {
+			
+			cell.setPhrase(new Phrase(currentEntry.getKey(), normalContentStyle));
+			table.addCell(cell);
+			
+			cell.setPhrase(new Phrase(currentEntry.getValue().toString(), normalContentStyle));
+			table.addCell(cell);
+			
+			totalPublications += currentEntry.getValue();
+		}
+		
+		setTableFooterStyle(summaryBackgroundColor, cell);
+		cell.setPhrase(new Phrase("Total", summaryContentStyle));
+		table.addCell(cell);
+		
+		cell.setPhrase(new Phrase(String.valueOf(totalPublications), summaryContentStyle));
+		table.addCell(cell);
+		
+		return table;
+	}
+	
+	private void setTableFooterStyle(BaseColor footerBackgroundColor,
+			  PdfPCell cell) {
+		cell.setBorderWidth(0.0f);
+		cell.setBackgroundColor(footerBackgroundColor);
+		cell.setHorizontalAlignment(Element.ALIGN_CENTER);
+		cell.setPaddingTop(5f);
+		cell.setPaddingRight(10f);
+		cell.setPaddingBottom(5f);
+		cell.setPaddingLeft(10f);
+	}
+
+	private void setTableBodyStyle(BaseColor bodyBackgroundColor,
+										  PdfPCell cell) {
+		cell.setBorderWidth(0.0f);
+		cell.setBackgroundColor(bodyBackgroundColor);
+		cell.setHorizontalAlignment(Element.ALIGN_CENTER);
+		cell.setPaddingTop(5f);
+		cell.setPaddingRight(10f);
+		cell.setPaddingBottom(5f);
+		cell.setPaddingLeft(10f);
+	}
+
+	private void setTableHeaderStyle(BaseColor headerBackgroundColor,
+			PdfPCell cell) {
+		cell.setBorderWidth(0.0f);
+		cell.setBackgroundColor(headerBackgroundColor);
+		cell.setHorizontalAlignment(Element.ALIGN_CENTER);
+		cell.setPaddingTop(5f);
+		cell.setPaddingRight(10f);
+		cell.setPaddingBottom(5f);
+		cell.setPaddingLeft(10f);
+	}
+	
+	private void setTableCaptionStyle(BaseColor summaryBackgroundColor,
+			PdfPCell cell) {
+		cell.setBorderWidth(0.0f);
+		cell.setBackgroundColor(summaryBackgroundColor);
+		cell.setHorizontalAlignment(Element.ALIGN_CENTER);
+		cell.setPaddingTop(5.0f);
+		cell.setPaddingRight(10.0f);
+		cell.setPaddingBottom(5.0f);
+		cell.setPaddingLeft(10.0f);
+		cell.setColspan(2);
+	}
+
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/TestJava.java

@@ -0,0 +1,192 @@
+package edu.cornell.mannlib.vitro.webapp.visualization;
+
+import java.util.Collections;
+import java.util.HashMap;
+import java.util.HashSet;
+import java.util.Map;
+import java.util.Set;
+import java.util.TreeMap;
+import java.util.Map.Entry;
+
+import org.apache.commons.collections.BidiMap;
+import org.apache.commons.collections.MapIterator;
+import org.apache.commons.collections.bidimap.TreeBidiMap;
+
+import com.google.gson.Gson;
+import com.hp.hpl.jena.iri.IRIFactory;
+
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.GenericQueryMap;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.Node;
+
+public class TestJava {
+
+	/**
+	 * @param args
+	 */
+	public static void main(String[] args) {
+		String uriStr = "http%3A%2F%2Fvivo.library.cornell.edu%2Fns%2F0.1%23individual8588";
+		IRIFactory factory = IRIFactory.jenaImplementation();
+		
+		String[] sampleBlurns = {"Gold, J R [Reprint Author, Author]; Perkins, G A; Erb, H N; Ainsworth, D M | Journal of Veterinary Internal Medicine, 2006; 20(3): 720",
+								 "Goldstein, Richard E; Lin, Rebecca C; Langston, Catherine E; Scrivani, Peter V; Erb, Hollis N; Barr, Stephen C | Journal of Veterinary Internal Medicine, 2006; 20(3): 489-494",
+								 "McClellan, Jennifer M; Goldstein, Richard E; Erb, Hollis N; Dykes, Ned L; Cowgill, Larry D | American Journal of Veterinary Research, 2006; 67(4): 715-722",
+								 "Cook, Christopher P; Scott, Danny W; Erb, Hollis N; Miller, William H | Vet Dermatol. 2005; 16(1): 47-51",
+								 "Estrada, Amara; Moise, N Sydney; Erb, Hollis N; McDonough, Sean P; Renaud, Farrell, Shari | Journal of Veterinary Internal Medicine, 2006; 20(4): 862-872",
+								 "Aguirre, A L [Reprint Author, Author]; Center, S A; Yeager, A E; Randolph, J F; Erb, H N | Journal of Veterinary Internal Medicine, 2006; 20(3): 787-788",
+								 "MacLeod, K D; Scott, D W; Erb, H N | Journal of Veterinary Medicine Series A, 2004; 51(9-10): 400-404",
+								 "Bailey, Dennis B; Rassnick, Kenneth M; Erb, Hollis N; Dykes, Nathan L; Hoopes, P Jack; Page, Rodney L | American Journal of Veterinary Research, 2004; 65(11): 1502-1507",
+								 "Ainsworth, Dorothy M; Wagner, Bettina; Franchini, Marco; Grunig, Gabriele; Erb, Hollis N; Tan, Jean Yin | American Journal of Veterinary Research, 2006; 67(4): 669-677",
+								 "Page, Richard B; Scrivani, Peter V; Dykes, Nathan L; Erb, Hollis N; Hobbs, Jeff M | Veterinary Radiology and Ultrasound, 2006; 47(2): 206-211",
+								 "Scrivani, Peter V; Dykes, Nathan L; Erb, Hollis N | Veterinary Radiology and Ultrasound, 2004; 45(5): 419-423",
+								 "Sepesy, Lisa M; Center, Sharon A; Randolph, John F; Warner, Karen L; Erb, Hollis N | Journal of the American Veterinary Medical Association, 2006; 229(2): 246-252",
+								 "Dereszynski, D [Reprint Author, Author]; Center, S; Hadden, A; Randolph, J; Brooks, M; Palyada, K; McDonough, S; Messick, J; Bischoff, K; Erb, H; Gluckman, S; Sanders, S | Journal of Veterinary Internal Medicine, 2006; 20(3): 751-752",
+								 "Kroll, Tracy L; Houpt, Katherine A; Erb, Hollis N | Journal of the American Animal Hospital Association, 2004; 40(1): 13-19",
+								 "Fortier, Lisa A; Gregg, Abigail J; Erb, Hollis N; Fubini, Susan L | Vet Surg. 33(6): 661-7",
+								 "Wagner, Bettina; Flaminio, Julia B F; Hillegas, Julie; Leibold, Wolfgang; Erb, Hollis N; Antczak, Douglas F | Veterinary Immunology and Immunopathology, 2006; 110(3-4): 269-278",
+								 "Chalmers, H J; Scrivani, Peter V; Dykes, Nathan L; Erb, Hollis N; Hobbs, J M; Hubble, Lorna J | Veterinary Radiology and Ultrasound, 2006; 47(5): 507-509",
+								 "Center, Sharon A; Warner, Karen L; McCabe, Jennifer; Foureman, Polly; Hoffmann, Walter E; Erb, Hollis N | Am J Vet Res. 2005; 66(2): 330-41"};
+
+		System.out.println(sampleBlurns);
+		for (String blurb : sampleBlurns) {
+			
+			System.out.println(blurb.contains("author"));
+		}
+		Map<String, Integer> yearToPublicationCount = new TreeMap<String, Integer>();
+
+		yearToPublicationCount.put("2003", 5);
+		yearToPublicationCount.put("2005", 3);
+		yearToPublicationCount.put("2002", 1);
+		yearToPublicationCount.put("2090", 5);
+		yearToPublicationCount.put("Unknown", 6);
+		
+		 BidiMap map1 = new TreeBidiMap(yearToPublicationCount);
+
+		
+		System.out.println(map1 + " ---  " + map1.inverseBidiMap());
+		
+		Node egoNode;
+		
+		
+		MapIterator mapIterator = map1.inverseBidiMap().mapIterator();
+
+		
+		while(mapIterator.hasNext()) {
+			
+			Object next = mapIterator.next();
+			
+			System.out.println(next + "  %%% " + next);
+			
+			
+		}
+		
+		
+		
+		
+		System.out.println();
+		
+		Map<String, Set<Integer>> biboDocumentURLToCoAuthors = new HashMap<String, Set<Integer>>();
+		
+		Set<Integer> coAuthorsForCurrentBiboDocument;
+		
+		if (biboDocumentURLToCoAuthors.containsKey("a")) {
+			coAuthorsForCurrentBiboDocument = biboDocumentURLToCoAuthors.get("a");
+		} else {
+			coAuthorsForCurrentBiboDocument = new HashSet<Integer>();
+			biboDocumentURLToCoAuthors.put("a", coAuthorsForCurrentBiboDocument);
+		}
+		
+		coAuthorsForCurrentBiboDocument.add(1);
+		
+		int actual_size = 4;
+//		int n = actual_size - 1;
+		
+		for (int ii = 0; ii < actual_size - 1; ii++) {
+			for (int jj = ii + 1; jj < actual_size; jj++) {
+				System.out.println(ii + " - " + jj );
+			}
+		}
+		
+		System.out.println(yearToPublicationCount);
+		
+
+		Map<String, Integer> saHashMap = new HashMap<String, Integer>(){{
+			put("sdsd", 4);
+			
+		}};
+		System.out.println(saHashMap.keySet());
+		
+		
+		Set<String> keySet = new HashSet<String>(yearToPublicationCount.keySet());
+		keySet.remove("Unknown");
+		
+		try {
+			System.out.println(Collections.min(keySet));
+		} catch (Exception e) {
+		} 
+		
+		
+		GenericQueryMap stringToSetOfStrings = new GenericQueryMap();
+		
+		stringToSetOfStrings.put("A", yearToPublicationCount.keySet());
+		stringToSetOfStrings.put("B", yearToPublicationCount.keySet());
+		stringToSetOfStrings.put("C", yearToPublicationCount.keySet());
+		stringToSetOfStrings.put("imageOffset", keySet);
+		
+		Set<String> what = new HashSet<String>();
+		
+		what.add("sup");
+		
+		stringToSetOfStrings.put("imageOffset2", what);
+		
+		
+		String emptyString = "";
+		System.out.println(emptyString.isEmpty());
+		
+		System.out.println(stringToSetOfStrings);
+		
+		Gson gson = new Gson();
+		String json = gson.toJson(stringToSetOfStrings); 
+		
+		
+		System.out.println(json);
+		
+		
+
+//		System.out.println(Collections.max(yearToPublicationCount.keySet()));
+//		System.out.println(Collections.min(yearToPublicationCount.keySet()));
+
+//		yearToPublicationCount.put("2087", testIt(5, yearToPublicationCount.get("2087")));
+
+//		try {
+//			factory.setEncoding("HEX");
+//		} catch (UnsupportedEncodingException e) {
+//			// TODO Auto-generated catch block
+//			e.printStackTrace();
+//		}
+
+		
+		/*
+		IRI iri = factory.create(uriStr);
+
+
+
+        if (iri.hasViolation(false) ) {
+            boolean validURI = false;
+            String errorMsg = ((Violation)iri.violations(false).next()).getShortMessage()+" ";
+            System.out.println("MURDER!!!!!" + errorMsg);
+
+        } else {
+        	System.out.println(iri.hasViolation(true));
+
+        }*/
+
+
+	}
+
+	private static Integer testIt(int i, Integer integer) {
+//		System.out.println("testit - " + i + " --- " + integer);
+		
+		return 10;
+	}
+
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/coauthorship/CoAuthorshipGraphMLWriter.java

@@ -0,0 +1,334 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.coauthorship;
+
+import java.io.UnsupportedEncodingException;
+import java.net.URLEncoder;
+import java.util.Map;
+import java.util.Set;
+
+import edu.cornell.mannlib.vitro.webapp.controller.visualization.VisualizationController;
+import edu.cornell.mannlib.vitro.webapp.controller.visualization.VisualizationFrameworkConstants;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.Edge;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.Node;
+
+public class CoAuthorshipGraphMLWriter {
+	
+	private StringBuilder coAuthorshipGraphMLContent;
+
+	private final String GRAPHML_HEADER = "<?xml version=\"1.0\" encoding=\"UTF-8\"?>\n" 
+			+ "	<graphml xmlns=\"http://graphml.graphdrawing.org/xmlns\"\n"
+			+ "  xmlns:xsi=\"http://www.w3.org/2001/XMLSchema-instance\"\n"
+	        + "  xsi:schemaLocation=\"http://graphml.graphdrawing.org/xmlns\n"
+	        + "  http://graphml.graphdrawing.org/xmlns/1.0/graphml.xsd\">\n\n";
+
+	private final String GRAPHML_FOOTER = "</graphml>";
+	
+	public CoAuthorshipGraphMLWriter(VisVOContainer visVOContainer) {
+		
+		coAuthorshipGraphMLContent = createCoAuthorshipGraphMLContent(visVOContainer);
+		
+	}
+
+	public StringBuilder getCoAuthorshipGraphMLContent() {
+		return coAuthorshipGraphMLContent;
+	}
+
+	private StringBuilder createCoAuthorshipGraphMLContent(
+			VisVOContainer visVOContainer) {
+		
+		StringBuilder graphMLContent = new StringBuilder();
+		
+		graphMLContent.append(GRAPHML_HEADER);
+		
+		/*
+		 * We are side-effecting "graphMLContent" object in this method since creating 
+		 * another String object to hold key definition data will be redundant & will
+		 * not serve the purpose.
+		 * */
+		generateKeyDefinitionContent(visVOContainer, graphMLContent);
+		
+		/*
+		 * Used to generate graph content. It will contain both the nodes & edge information.
+		 * We are side-effecting "graphMLContent".
+		 * */
+		generateGraphContent(visVOContainer, graphMLContent);
+		
+		graphMLContent.append(GRAPHML_FOOTER);
+		
+		return graphMLContent;
+	}
+
+	private void generateGraphContent(VisVOContainer visVOContainer,
+			StringBuilder graphMLContent) {
+
+		graphMLContent.append("\n<graph edgedefault=\"undirected\">\n");
+		
+		if (visVOContainer.getNodes() != null & visVOContainer.getNodes().size() > 0) {
+			generateNodeSectionContent(visVOContainer, graphMLContent);
+		}
+		
+		if (visVOContainer.getEdges() != null & visVOContainer.getEdges().size() > 0) {
+			generateEdgeSectionContent(visVOContainer, graphMLContent);
+		}
+		
+		graphMLContent.append("</graph>\n");
+		  
+		
+		
+		
+	}
+
+	private void generateEdgeSectionContent(VisVOContainer visVOContainer,
+			StringBuilder graphMLContent) {
+		
+		graphMLContent.append("<!-- edges -->\n");
+		
+		Set<Edge> edges = visVOContainer.getEdges();
+		
+
+		for (Edge currentEdge : edges) {
+			
+			/*
+			 * This method actually creates the XML code for a single edge. "graphMLContent"
+			 * is being side-effected. 
+			 * */
+			getEdgeContent(graphMLContent, currentEdge);
+			
+		}
+		
+	}
+
+	private void getEdgeContent(StringBuilder graphMLContent, Edge currentEdge) {
+		
+		graphMLContent.append("<edge " 
+									+ "id=\"" + currentEdge.getEdgeID() + "\" " 
+									+ "source=\"" + currentEdge.getSourceNode().getNodeID() + "\" "
+									+ "target=\"" + currentEdge.getTargetNode().getNodeID() + "\" "
+									+ ">\n");
+		
+		graphMLContent.append("\t<data key=\"collaborator1\">" + currentEdge.getSourceNode().getNodeName() + "</data>\n");
+		graphMLContent.append("\t<data key=\"collaborator2\">" + currentEdge.getTargetNode().getNodeName() + "</data>\n");
+		
+		graphMLContent.append("\t<data key=\"number_of_coauthored_works\">" 
+								+ currentEdge.getNumOfCoAuthoredWorks()
+							+ "</data>\n");
+		
+		if (currentEdge.getEarliestCollaborationYearCount() != null) {
+			
+			/*
+			 * There is no clean way of getting the map contents in java even though
+			 * we are sure to have only one entry on the map. So using the for loop.
+			 * I am feeling dirty just about now. 
+			 * */
+			for (Map.Entry<String, Integer> publicationInfo : 
+						currentEdge.getEarliestCollaborationYearCount().entrySet()) {
+				
+				graphMLContent.append("\t<data key=\"earliest_collaboration\">" 
+											+ publicationInfo.getKey() 
+										+ "</data>\n");
+
+				graphMLContent.append("\t<data key=\"num_earliest_collaboration\">" 
+											+ publicationInfo.getValue() 
+										+ "</data>\n");
+				
+				
+			}
+			
+		}
+		
+		if (currentEdge.getLatestCollaborationYearCount() != null) {
+			
+			for (Map.Entry<String, Integer> publicationInfo : 
+						currentEdge.getLatestCollaborationYearCount().entrySet()) {
+				
+				graphMLContent.append("\t<data key=\"latest_collaboration\">" 
+											+ publicationInfo.getKey() 
+										+ "</data>\n");
+
+				graphMLContent.append("\t<data key=\"num_latest_collaboration\">" 
+											+ publicationInfo.getValue() 
+										+ "</data>\n");
+			}
+			
+		}
+		
+		if (currentEdge.getUnknownCollaborationYearCount() != null) {
+			
+				graphMLContent.append("\t<data key=\"num_unknown_collaboration\">" 
+											+ currentEdge.getUnknownCollaborationYearCount() 
+										+ "</data>\n");
+				
+		}
+		
+		graphMLContent.append("</edge>\n");
+		
+		
+	}
+
+	private void generateNodeSectionContent(VisVOContainer visVOContainer,
+			StringBuilder graphMLContent) {
+		
+		graphMLContent.append("<!-- nodes -->\n");
+		
+		Node egoNode = visVOContainer.getEgoNode();
+		Set<Node> authorNodes = visVOContainer.getNodes();
+		
+		/*
+		 * This method actually creates the XML code for a single node. "graphMLContent"
+		 * is being side-effected. The egoNode is added first because this is the "requirement"
+		 * of the co-author vis. Ego should always come first.
+		 * 
+		 * */
+		getNodeContent(graphMLContent, egoNode);
+		
+		
+		for (Node currNode : authorNodes) {
+			
+			/*
+			 * We have already printed the Ego Node info.
+			 * */
+			if (currNode != egoNode) {
+				
+				getNodeContent(graphMLContent, currNode);
+				
+			}
+			
+		}
+		
+	}
+
+	private void getNodeContent(StringBuilder graphMLContent, Node node) {
+		
+		String profileURL = null;
+		try {
+			profileURL = "/individual?" 
+								+ VisualizationFrameworkConstants.INDIVIDUAL_URI_URL_HANDLE 
+								+ "=" + URLEncoder.encode(node.getNodeURL(),
+														  VisualizationController
+														  		.URL_ENCODING_SCHEME).toString();
+		} catch (UnsupportedEncodingException e) {
+			System.err.println("URL Encoding ERRor. Move this to use log.error ASAP");
+		}
+		
+		
+		
+		graphMLContent.append("<node id=\"" + node.getNodeID() + "\">\n");
+		graphMLContent.append("\t<data key=\"url\">" + node.getNodeURL() + "</data>\n");
+		graphMLContent.append("\t<data key=\"name\">" + node.getNodeName() + "</data>\n");
+		
+		if (profileURL != null) {
+			graphMLContent.append("\t<data key=\"profile_url\">" + profileURL + "</data>\n");
+		}
+		
+		
+		graphMLContent.append("\t<data key=\"number_of_authored_works\">" 
+								+ node.getNumOfAuthoredWorks() 
+							+ "</data>\n");
+		
+		if (node.getEarliestPublicationYearCount() != null) {
+			
+			/*
+			 * There is no clean way of getting the map contents in java even though
+			 * we are sure to have only one entry on the map. So using the for loop.
+			 * I am feeling dirty just about now. 
+			 * */
+			for (Map.Entry<String, Integer> publicationInfo : 
+						node.getEarliestPublicationYearCount().entrySet()) {
+				
+				graphMLContent.append("\t<data key=\"earliest_publication\">" 
+											+ publicationInfo.getKey() 
+										+ "</data>\n");
+
+				graphMLContent.append("\t<data key=\"num_earliest_publication\">" 
+											+ publicationInfo.getValue() 
+										+ "</data>\n");
+				
+				
+			}
+			
+		}
+		
+		if (node.getLatestPublicationYearCount() != null) {
+			
+			for (Map.Entry<String, Integer> publicationInfo : 
+						node.getLatestPublicationYearCount().entrySet()) {
+				
+				graphMLContent.append("\t<data key=\"latest_publication\">" 
+											+ publicationInfo.getKey() 
+										+ "</data>\n");
+
+				graphMLContent.append("\t<data key=\"num_latest_publication\">" 
+											+ publicationInfo.getValue() 
+										+ "</data>\n");
+				
+				
+			}
+			
+		}
+		
+		if (node.getUnknownPublicationYearCount() != null) {
+			
+				graphMLContent.append("\t<data key=\"num_unknown_publication\">" 
+											+ node.getUnknownPublicationYearCount() 
+										+ "</data>\n");
+				
+		}
+		
+		graphMLContent.append("</node>\n");
+	}
+
+	private void generateKeyDefinitionContent(VisVOContainer visVOContainer, 
+											  StringBuilder graphMLContent) {
+		
+		/*
+		 * Generate the key definition content for node. 
+		 * */
+		getKeyDefinitionFromSchema(visVOContainer.getNodeSchema(), graphMLContent);
+		
+		/*
+		 * Generate the key definition content for edge. 
+		 * */
+		getKeyDefinitionFromSchema(visVOContainer.getEdgeSchema(), graphMLContent);
+		
+		
+	}
+
+	private void getKeyDefinitionFromSchema(Set<Map<String, String>> schema,
+			StringBuilder graphMLContent) {
+		
+		for (Map<String, String> currentNodeSchemaAttribute : schema) {
+			
+			graphMLContent.append("\n<key ");
+			
+			for (Map.Entry<String, String> currentAttributeKey : currentNodeSchemaAttribute.entrySet()) {
+				
+				graphMLContent.append(currentAttributeKey.getKey() 
+										+ "=\"" + currentAttributeKey.getValue() 
+										+ "\" ");
+
+			}
+			
+			if (currentNodeSchemaAttribute.containsKey("default")) {
+				
+				graphMLContent.append(">\n");
+				graphMLContent.append("<default>");
+				graphMLContent.append(currentNodeSchemaAttribute.get("default"));
+				graphMLContent.append("</default>\n");
+				graphMLContent.append("</key>\n");
+				
+			} else {
+				graphMLContent.append("/>\n");
+			}
+			
+		}
+	}
+	
+	
+	
+	
+	
+	
+	
+	
+	
+
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/coauthorship/QueryHandler.java

@@ -0,0 +1,441 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.coauthorship;
+
+import java.util.ArrayList;
+import java.util.HashMap;
+import java.util.HashSet;
+import java.util.List;
+import java.util.Map;
+import java.util.Set;
+import java.util.TreeMap;
+
+import org.apache.commons.logging.Log;
+
+import com.hp.hpl.jena.iri.IRI;
+import com.hp.hpl.jena.iri.IRIFactory;
+import com.hp.hpl.jena.iri.Violation;
+import com.hp.hpl.jena.query.DataSource;
+import com.hp.hpl.jena.query.Query;
+import com.hp.hpl.jena.query.QueryExecution;
+import com.hp.hpl.jena.query.QueryExecutionFactory;
+import com.hp.hpl.jena.query.QueryFactory;
+import com.hp.hpl.jena.query.QuerySolution;
+import com.hp.hpl.jena.query.ResultSet;
+import com.hp.hpl.jena.query.Syntax;
+import com.hp.hpl.jena.rdf.model.RDFNode;
+
+import edu.cornell.mannlib.vitro.webapp.visualization.constants.QueryConstants;
+import edu.cornell.mannlib.vitro.webapp.visualization.constants.QueryFieldLabels;
+import edu.cornell.mannlib.vitro.webapp.visualization.exceptions.MalformedQueryParametersException;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.BiboDocument;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.Edge;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.Node;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.VivoCollegeOrSchool;
+import edu.cornell.mannlib.vitro.webapp.visualization.visutils.UniqueIDGenerator;
+
+
+
+/**
+ * Very dumb name of the class. change it.
+ * @author cdtank
+ *
+ */
+public class QueryHandler {
+
+	protected static final Syntax SYNTAX = Syntax.syntaxARQ;
+
+	private String egoURLParam, resultFormatParam, rdfResultFormatParam;
+	private Map<String, VivoCollegeOrSchool> collegeURLToVO = new HashMap<String, VivoCollegeOrSchool>();
+	private DataSource dataSource;
+
+	private Log log;
+
+	private UniqueIDGenerator nodeIDGenerator;
+
+	private UniqueIDGenerator edgeIDGenerator;
+
+	public QueryHandler(String egoURLParam,
+			String resultFormatParam, String rdfResultFormatParam,
+			DataSource dataSource, Log log) {
+
+		this.egoURLParam = egoURLParam;
+		this.resultFormatParam = resultFormatParam;
+		this.rdfResultFormatParam = rdfResultFormatParam;
+		this.dataSource = dataSource;
+		this.log = log;
+		
+		this.nodeIDGenerator = new UniqueIDGenerator();
+		this.edgeIDGenerator = new UniqueIDGenerator();
+
+	}
+
+	private VisVOContainer createJavaValueObjects(ResultSet resultSet) {
+		
+		Set<Node> nodes = new HashSet<Node>();
+		
+		Map<String, BiboDocument> biboDocumentURLToVO = new HashMap<String, BiboDocument>();
+		Map<String, Set<Node>> biboDocumentURLToCoAuthors = new HashMap<String, Set<Node>>();
+		Map<String, Node> nodeURLToVO = new HashMap<String, Node>();
+		
+		Node egoNode = null;
+
+		Set<Edge> edges = new HashSet<Edge>();
+		
+		while (resultSet.hasNext()) {
+			QuerySolution solution = resultSet.nextSolution();
+			
+			
+			/*
+			 * We only want to create only ONE ego node.
+			 * */
+			RDFNode egoAuthorURLNode = solution.get(QueryFieldLabels.AUTHOR_URL);
+			if (nodeURLToVO.containsKey(egoAuthorURLNode.toString())) {
+
+				egoNode = nodeURLToVO.get(egoAuthorURLNode.toString());
+				
+			} else {
+				
+				egoNode = new Node(egoAuthorURLNode.toString(), nodeIDGenerator);
+				nodes.add(egoNode);
+				nodeURLToVO.put(egoAuthorURLNode.toString(), egoNode);
+				
+				RDFNode authorLabelNode = solution.get(QueryFieldLabels.AUTHOR_LABEL);
+				if (authorLabelNode != null) {
+					egoNode.setNodeName(authorLabelNode.toString());
+				}
+			}
+			
+			RDFNode documentNode = solution.get(QueryFieldLabels.DOCUMENT_URL);
+			BiboDocument biboDocument;
+			
+			if (biboDocumentURLToVO.containsKey(documentNode.toString())) {
+				biboDocument = biboDocumentURLToVO.get(documentNode.toString());
+			} else {
+				biboDocument = createDocumentVO(solution, documentNode.toString());
+				biboDocumentURLToVO.put(documentNode.toString(), biboDocument);	
+			}
+			
+			egoNode.addAuthorDocument(biboDocument);
+			
+			/*
+			 * After some discussion we concluded that for the purpose of this visualization
+			 * we do not want a co-author node or edge if the publication has only one
+			 * author and that happens to be the ego.
+			 * */
+			if (solution.get(QueryFieldLabels.AUTHOR_URL).toString().equalsIgnoreCase(
+					solution.get(QueryFieldLabels.CO_AUTHOR_URL).toString())) {
+				continue;
+			}
+			
+			Node coAuthorNode;
+			
+			RDFNode coAuthorURLNode = solution.get(QueryFieldLabels.CO_AUTHOR_URL);
+			if (nodeURLToVO.containsKey(coAuthorURLNode.toString())) {
+
+				coAuthorNode = nodeURLToVO.get(coAuthorURLNode.toString());
+				
+			} else {
+				
+				coAuthorNode = new Node(coAuthorURLNode.toString(), nodeIDGenerator);
+				nodes.add(coAuthorNode);
+				nodeURLToVO.put(coAuthorURLNode.toString(), coAuthorNode);
+				
+				RDFNode coAuthorLabelNode = solution.get(QueryFieldLabels.CO_AUTHOR_LABEL);
+				if (coAuthorLabelNode != null) {
+					coAuthorNode.setNodeName(coAuthorLabelNode.toString());
+				}
+			}
+			
+			coAuthorNode.addAuthorDocument(biboDocument);
+			
+			Set<Node> coAuthorsForCurrentBiboDocument;
+			
+			if (biboDocumentURLToCoAuthors.containsKey(biboDocument.getDocumentURL())) {
+				coAuthorsForCurrentBiboDocument = biboDocumentURLToCoAuthors.get(biboDocument.getDocumentURL());
+			} else {
+				coAuthorsForCurrentBiboDocument = new HashSet<Node>();
+				biboDocumentURLToCoAuthors.put(biboDocument.getDocumentURL(), coAuthorsForCurrentBiboDocument);
+			}
+			
+			coAuthorsForCurrentBiboDocument.add(coAuthorNode);
+			
+			Edge egoCoAuthorEdge = getExistingEdge(egoNode, coAuthorNode, edges);
+			
+			/*
+			 * If "egoCoAuthorEdge" is null it means that no edge exists in between the egoNode & current 
+			 * coAuthorNode. Else create a new edge, add it to the edges set & add the collaborator document 
+			 * to it.
+			 * */
+			if (egoCoAuthorEdge != null) {
+				egoCoAuthorEdge.addCollaboratorDocument(biboDocument);
+			} else {
+				egoCoAuthorEdge = new Edge(egoNode, coAuthorNode, biboDocument, edgeIDGenerator);
+				edges.add(egoCoAuthorEdge);
+			}
+			
+			
+		}
+		
+		/*
+		 * We need to create edges between 2 co-authors. E.g. On a paper there were 3 authors
+		 * ego, A & B then we have already created edges like,
+		 * 		ego - A
+		 * 		ego - B
+		 * The below sub-routine will take care of,
+		 * 		A - B 
+		 * 
+		 * We are side-effecting "edges" here. The only reason to do this is because we are adding 
+		 * edges en masse for all the co-authors on all the publications considered so far. The other
+		 * reason being we dont want to compare against 2 sets of edges (edges created before & co-
+		 * author edges created during the course of this method) when we are creating a new edge.
+		 * */
+		createCoAuthorEdges(biboDocumentURLToVO, 
+							biboDocumentURLToCoAuthors,
+							edges);
+		
+		
+/*		System.out.println(collegeURLToVO);
+		System.out.println("------------------------------------------------------------");
+		System.out.println(departmentURLToVO);
+		System.out.println("------------------------------------------------------------");
+		System.out.println(employeeURLToVO);
+		System.out.println("------------------------------------------------------------");
+*/		
+		return new VisVOContainer(egoNode, nodes, edges);
+	}
+
+	private void createCoAuthorEdges(
+			Map<String, BiboDocument> biboDocumentURLToVO,
+			Map<String, Set<Node>> biboDocumentURLToCoAuthors, Set<Edge> edges) {
+		for (Map.Entry<String, Set<Node>> currentBiboDocumentEntry : biboDocumentURLToCoAuthors.entrySet()) {
+			/*
+			 * If there was only one co-author (other than ego) then we dont have to create any edges. so 
+			 * the below condition will take care of that.
+			 * */
+			if (currentBiboDocumentEntry.getValue().size() > 1) {
+			
+				/*
+				 * In order to leverage the nested "for loop" for making edges between all the co=authors
+				 * we need to create a list out of the set first. 
+				 * */
+				List<Node> coAuthorNodes = new ArrayList<Node>(currentBiboDocumentEntry.getValue());
+				
+				int numOfCoAuthors = coAuthorNodes.size();
+				
+				for (int ii = 0; ii < numOfCoAuthors - 1; ii++) {
+					for (int jj = ii + 1; jj < numOfCoAuthors; jj++) {
+						
+						Node coAuthor1 = coAuthorNodes.get(ii);
+						Node coAuthor2 = coAuthorNodes.get(jj);
+						
+						Edge coAuthor1_2Edge = getExistingEdge(coAuthor1, coAuthor2, edges);
+						
+						BiboDocument currentBiboDocument = biboDocumentURLToVO
+																.get(currentBiboDocumentEntry.getKey());
+			
+						if (coAuthor1_2Edge != null) {
+							coAuthor1_2Edge.addCollaboratorDocument(currentBiboDocument);
+						} else {
+							coAuthor1_2Edge = new Edge(coAuthor1, coAuthor2, currentBiboDocument, edgeIDGenerator);
+							edges.add(coAuthor1_2Edge);
+						}
+					}
+				}
+			
+			}
+			
+		}
+	}
+
+	private Edge getExistingEdge(
+			Node collaboratingNode1, 
+			Node collaboratingNode2, 
+			Set<Edge> edges) {
+		
+		Edge duplicateEdge = null;
+		
+		for (Edge currentEdge : edges) {
+			
+			/*
+			 * We first check if either the source or target node of the current edge is
+			 * the collaboratingNode1. If yes then we go on to check if the collaboratingNode2
+			 * matches either the source or the target node. We dont care about the directionality
+			 * of the edge. 
+			 * */
+			if (currentEdge.getSourceNode().getNodeID() == collaboratingNode1.getNodeID() 
+					|| currentEdge.getTargetNode().getNodeID() == collaboratingNode1.getNodeID()) {
+				
+				if (currentEdge.getSourceNode().getNodeID() == collaboratingNode2.getNodeID() 
+						|| currentEdge.getTargetNode().getNodeID() == collaboratingNode2.getNodeID()) {
+					
+					duplicateEdge = currentEdge;
+					break;
+				} 				
+			} 
+		}
+		
+		return duplicateEdge;
+	}
+
+	public Map<String, VivoCollegeOrSchool> getCollegeURLToVO() {
+		return collegeURLToVO;
+	}
+
+	private BiboDocument createDocumentVO(QuerySolution solution, String documentURL) {
+
+			BiboDocument biboDocument = new BiboDocument(documentURL);
+
+			RDFNode documentLabelNode = solution.get(QueryFieldLabels.DOCUMENT_LABEL);
+			if (documentLabelNode != null) {
+				biboDocument.setDocumentLabel(documentLabelNode.toString());
+			}
+
+			RDFNode documentBlurbNode = solution.get(QueryFieldLabels.DOCUMENT_BLURB);
+			if (documentBlurbNode != null) {
+				biboDocument.setDocumentBlurb(documentBlurbNode.toString());
+			}
+
+			RDFNode documentMonikerNode = solution.get(QueryFieldLabels.DOCUMENT_MONIKER);
+			if (documentMonikerNode != null) {
+				biboDocument.setDocumentMoniker(documentMonikerNode.toString());
+			}
+
+			RDFNode publicationYearNode = solution.get(QueryFieldLabels.DOCUMENT_PUBLICATION_YEAR);
+			if (publicationYearNode != null) {
+				biboDocument.setPublicationYear(publicationYearNode.toString());
+			}
+			
+			return biboDocument;
+	}
+	
+	private ResultSet executeQuery(String queryText,
+								   String resultFormatParam, 
+								   String rdfResultFormatParam, 
+								   DataSource dataSource) {
+
+        QueryExecution queryExecution = null;
+        try{
+            Query query = QueryFactory.create(queryText, SYNTAX);
+
+//            QuerySolutionMap qs = new QuerySolutionMap();
+//            qs.add("authPerson", queryParam); // bind resource to s
+            
+            queryExecution = QueryExecutionFactory.create(query, dataSource);
+            
+
+            //remocve this if loop after knowing what is describe & construct sparql stuff.
+            if (query.isSelectType()){
+                return queryExecution.execSelect();
+            }
+        } finally {
+            if(queryExecution != null) {
+            	queryExecution.close();
+            }
+
+        }
+		return null;
+    }
+
+	private String generateEgoCoAuthorshipSparqlQuery(String queryURI) {
+//		Resource uri1 = ResourceFactory.createResource(queryURI);
+
+		String sparqlQuery = QueryConstants.getSparqlPrefixQuery()
+							+ "SELECT "
+							+ "		(str(<" + queryURI + ">) as ?" + QueryFieldLabels.AUTHOR_URL + ") " 
+							+ "		(str(?authorLabel) as ?" + QueryFieldLabels.AUTHOR_LABEL + ") " 
+							+ "		(str(?coAuthorPerson) as ?" + QueryFieldLabels.CO_AUTHOR_URL + ") " 
+							+ "		(str(?coAuthorPersonLabel) as ?" + QueryFieldLabels.CO_AUTHOR_LABEL + ") "
+							+ "		(str(?document) as ?" + QueryFieldLabels.DOCUMENT_URL + ") "
+							+ "		(str(?documentLabel) as ?" + QueryFieldLabels.DOCUMENT_LABEL + ") "
+							+ "		(str(?documentMoniker) as ?" + QueryFieldLabels.DOCUMENT_MONIKER + ") "
+							+ "		(str(?documentBlurb) as ?" + QueryFieldLabels.DOCUMENT_BLURB + ") "
+							+ "		(str(?publicationYear) as ?" + QueryFieldLabels.DOCUMENT_PUBLICATION_YEAR + ") "
+							+ "WHERE { "
+							+ "<" + queryURI + "> rdf:type foaf:Person ; vivo:authorOf ?document ; rdfs:label ?authorLabel.  "
+							+ "?document rdf:type bibo:Document . " 
+							+ "?document rdfs:label ?documentLabel . " 
+							+ "?document vivo:hasAuthor ?coAuthorPerson . " 
+							+ "?coAuthorPerson rdfs:label ?coAuthorPersonLabel . "  
+							+ "OPTIONAL {  ?document vivo:publicationYear ?publicationYear } . " 
+							+ "OPTIONAL {  ?document vitro:moniker ?documentMoniker } . " 
+							+ "OPTIONAL {  ?document vitro:blurb ?documentBlurb } . " 
+							+ "OPTIONAL {  ?document vitro:description ?documentDescription } " 
+//							+ "FILTER (<" + queryURI + "> != ?coAuthorPerson ) . "
+							+ "}";
+
+		System.out.println(sparqlQuery);
+		
+		return sparqlQuery;
+	}
+
+	
+	public VisVOContainer getVisualizationJavaValueObjects()
+		throws MalformedQueryParametersException {
+
+        if (this.egoURLParam == null || "".equals(egoURLParam)) {
+        	throw new MalformedQueryParametersException("URI parameter is either null or empty.");
+        } else {
+
+        	/*
+        	 * To test for the validity of the URI submitted.
+        	 * */
+        	IRIFactory iRIFactory = IRIFactory.jenaImplementation();
+    		IRI iri = iRIFactory.create(this.egoURLParam);
+            if (iri.hasViolation(false)) {
+                String errorMsg = ((Violation)iri.violations(false).next()).getShortMessage()+" ";
+                log.error("Ego Co Authorship Vis Query " + errorMsg);
+                throw new MalformedQueryParametersException("URI provided for an individual is malformed.");
+            }
+        }
+
+		ResultSet resultSet	= executeQuery(generateEgoCoAuthorshipSparqlQuery(this.egoURLParam),
+										   this.resultFormatParam,
+										   this.rdfResultFormatParam,
+										   this.dataSource);
+
+		return createJavaValueObjects(resultSet);
+	}
+
+	public Map<String, Integer> getYearToPublicationCount(
+			Set<BiboDocument> authorDocuments) {
+
+    	/*
+    	 * Create a map from the year to number of publications. Use the BiboDocument's
+    	 * parsedPublicationYear to populate the data.
+    	 * */
+    	Map<String, Integer> yearToPublicationCount = new TreeMap<String, Integer>();
+
+    	for (BiboDocument curr : authorDocuments) {
+
+    		/*
+    		 * Increment the count because there is an entry already available for
+    		 * that particular year.
+    		 * */
+    		String publicationYear;
+    		if (curr.getPublicationYear() != null 
+    				&& curr.getPublicationYear().length() != 0 
+    				&& curr.getPublicationYear().trim().length() != 0) {
+    			publicationYear = curr.getPublicationYear();
+    		} else {
+    			publicationYear = curr.getParsedPublicationYear();
+    		}
+    		
+			if (yearToPublicationCount.containsKey(publicationYear)) {
+    			yearToPublicationCount.put(publicationYear,
+    									   yearToPublicationCount
+    									   		.get(publicationYear) + 1);
+
+    		} else {
+    			yearToPublicationCount.put(publicationYear, 1);
+    		}
+
+    	}
+
+//    	System.out.println("****************************\n" + yearToPublicationCount);
+		return yearToPublicationCount;
+	}
+
+
+
+
+
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/coauthorship/VisVOContainer.java

@@ -0,0 +1,232 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.coauthorship;
+
+import java.util.HashSet;
+import java.util.LinkedHashMap;
+import java.util.Map;
+import java.util.Set;
+
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.Edge;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.Node;
+
+public class VisVOContainer {
+	
+	private Set<Node> nodes;
+	private Set<Edge> edges;
+	private Node egoNode;
+	private Set<Map<String, String>> NODE_SCHEMA;
+	private Set<Map<String, String>> EDGE_SCHEMA;
+		
+	public VisVOContainer(Node egoNode, Set<Node> nodes, Set<Edge> edges) {
+		this.egoNode = egoNode;
+		this.nodes = nodes;
+		this.edges = edges;
+	}
+	
+	public Set<Node> getNodes() {
+		return nodes;
+	}
+
+	public Set<Edge> getEdges() {
+		return edges;
+	}	
+	
+	public Node getEgoNode() {
+		return egoNode;
+	}
+	
+	/*
+	 * Node Schema for graphML
+	 * */
+	public Set<Map<String, String>> getNodeSchema() {
+		
+		if (NODE_SCHEMA == null) {
+			NODE_SCHEMA = initializeNodeSchema();			
+		}
+		
+		return NODE_SCHEMA;
+	}
+	
+	/*
+	 * Edge Schema for graphML
+	 * */
+	public Set<Map<String, String>> getEdgeSchema() {
+		
+		if (EDGE_SCHEMA == null) {
+			EDGE_SCHEMA = initializeEdgeSchema();			
+		}
+		
+		return EDGE_SCHEMA;
+	}
+
+	private Set<Map<String, String>> initializeEdgeSchema() {
+
+		Set<Map<String, String>> edgeSchema = new HashSet<Map<String,String>>();
+		
+			Map<String, String> schemaAttributes = new LinkedHashMap<String, String>();
+			
+			schemaAttributes.put("id", "collaborator1");
+			schemaAttributes.put("for", "edge");
+			schemaAttributes.put("attr.name", "collaborator1");
+			schemaAttributes.put("attr.type", "string");
+		
+		edgeSchema.add(schemaAttributes);
+		
+			schemaAttributes = new LinkedHashMap<String, String>();
+			
+			schemaAttributes.put("id", "collaborator2");
+			schemaAttributes.put("for", "edge");
+			schemaAttributes.put("attr.name", "collaborator2");
+			schemaAttributes.put("attr.type", "string");
+		
+		edgeSchema.add(schemaAttributes);		
+		
+			schemaAttributes = new LinkedHashMap<String, String>();
+			
+			schemaAttributes.put("id", "number_of_coauthored_works");
+			schemaAttributes.put("for", "edge");
+			schemaAttributes.put("attr.name", "number_of_coauthored_works");
+			schemaAttributes.put("attr.type", "int");
+		
+		edgeSchema.add(schemaAttributes);
+		
+			schemaAttributes = new LinkedHashMap<String, String>();
+			
+			schemaAttributes.put("id", "earliest_collaboration");
+			schemaAttributes.put("for", "edge");
+			schemaAttributes.put("attr.name", "earliest_collaboration");
+			schemaAttributes.put("attr.type", "int");
+		
+		edgeSchema.add(schemaAttributes);
+		
+			schemaAttributes = new LinkedHashMap<String, String>();
+			
+			schemaAttributes.put("id", "num_earliest_collaboration");
+			schemaAttributes.put("for", "edge");
+			schemaAttributes.put("attr.name", "num_earliest_collaboration");
+			schemaAttributes.put("attr.type", "int");
+		
+		edgeSchema.add(schemaAttributes);
+		
+			schemaAttributes = new LinkedHashMap<String, String>();
+			
+			schemaAttributes.put("id", "latest_collaboration");
+			schemaAttributes.put("for", "edge");
+			schemaAttributes.put("attr.name", "latest_collaboration");
+			schemaAttributes.put("attr.type", "int");
+		
+		edgeSchema.add(schemaAttributes);
+		
+			schemaAttributes = new LinkedHashMap<String, String>();
+			
+			schemaAttributes.put("id", "num_latest_collaboration");
+			schemaAttributes.put("for", "edge");
+			schemaAttributes.put("attr.name", "num_latest_collaboration");
+			schemaAttributes.put("attr.type", "int");
+		
+		edgeSchema.add(schemaAttributes);
+		
+			schemaAttributes = new LinkedHashMap<String, String>();
+			
+			schemaAttributes.put("id", "num_unknown_collaboration");
+			schemaAttributes.put("for", "edge");
+			schemaAttributes.put("attr.name", "num_unknown_collaboration");
+			schemaAttributes.put("attr.type", "int");
+		
+		edgeSchema.add(schemaAttributes);
+		
+		return edgeSchema;
+	}
+	
+
+	private Set<Map<String, String>> initializeNodeSchema() {
+		
+		Set<Map<String, String>> nodeSchema = new HashSet<Map<String,String>>();
+
+			Map<String, String> schemaAttributes = new LinkedHashMap<String, String>();   
+			
+			schemaAttributes.put("id", "url");
+			schemaAttributes.put("for", "node");
+			schemaAttributes.put("attr.name", "url");
+			schemaAttributes.put("attr.type", "string");
+		
+		nodeSchema.add(schemaAttributes);
+	
+			schemaAttributes = new LinkedHashMap<String, String>();
+			
+			schemaAttributes.put("id", "name");
+			schemaAttributes.put("for", "node");
+			schemaAttributes.put("attr.name", "name");
+			schemaAttributes.put("attr.type", "string");
+		
+		nodeSchema.add(schemaAttributes);
+		
+			schemaAttributes = new LinkedHashMap<String, String>();
+		
+			schemaAttributes.put("id", "profile_url");
+			schemaAttributes.put("for", "node");
+			schemaAttributes.put("attr.name", "profile_url");
+			schemaAttributes.put("attr.type", "string");
+		
+		nodeSchema.add(schemaAttributes);
+	
+			schemaAttributes = new LinkedHashMap<String, String>();
+			
+			schemaAttributes.put("id", "number_of_authored_works");
+			schemaAttributes.put("for", "node");
+			schemaAttributes.put("attr.name", "number_of_authored_works");
+			schemaAttributes.put("attr.type", "int");
+		
+		nodeSchema.add(schemaAttributes);
+		
+			schemaAttributes = new LinkedHashMap<String, String>();
+			
+			schemaAttributes.put("id", "earliest_publication");
+			schemaAttributes.put("for", "node");
+			schemaAttributes.put("attr.name", "earliest_publication");
+			schemaAttributes.put("attr.type", "int");
+		
+		nodeSchema.add(schemaAttributes);
+		
+			schemaAttributes = new LinkedHashMap<String, String>();
+			
+			schemaAttributes.put("id", "num_earliest_publication");
+			schemaAttributes.put("for", "node");
+			schemaAttributes.put("attr.name", "num_earliest_publication");
+			schemaAttributes.put("attr.type", "int");
+		
+		nodeSchema.add(schemaAttributes);
+		
+			schemaAttributes = new LinkedHashMap<String, String>();
+			
+			schemaAttributes.put("id", "latest_publication");
+			schemaAttributes.put("for", "node");
+			schemaAttributes.put("attr.name", "latest_publication");
+			schemaAttributes.put("attr.type", "int");
+		
+		nodeSchema.add(schemaAttributes);
+		
+			schemaAttributes = new LinkedHashMap<String, String>();
+			
+			schemaAttributes.put("id", "num_latest_publication");
+			schemaAttributes.put("for", "node");
+			schemaAttributes.put("attr.name", "num_latest_publication");
+			schemaAttributes.put("attr.type", "int");
+		
+		nodeSchema.add(schemaAttributes);
+		
+			schemaAttributes = new LinkedHashMap<String, String>();
+			
+			schemaAttributes.put("id", "num_unknown_publication");
+			schemaAttributes.put("for", "node");
+			schemaAttributes.put("attr.name", "num_unknown_publication");
+			schemaAttributes.put("attr.type", "int");
+		
+		nodeSchema.add(schemaAttributes);
+		
+		
+		return nodeSchema;
+	}
+	
+	
+	
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/coauthorship/VisualizationCodeGenerator.java

@@ -0,0 +1,643 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.coauthorship;
+
+import java.io.UnsupportedEncodingException;
+import java.net.URLEncoder;
+import java.util.Calendar;
+import java.util.Collections;
+import java.util.HashMap;
+import java.util.HashSet;
+import java.util.Map;
+import java.util.NoSuchElementException;
+import java.util.Set;
+import java.util.Map.Entry;
+
+import org.apache.commons.logging.Log;
+
+import edu.cornell.mannlib.vitro.webapp.controller.visualization.VisualizationController;
+import edu.cornell.mannlib.vitro.webapp.controller.visualization.VisualizationFrameworkConstants;
+import edu.cornell.mannlib.vitro.webapp.visualization.constants.VOConstants;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.SparklineVOContainer;
+
+
+public class VisualizationCodeGenerator {
+
+	private final static Map<String, String> visDivNames = new HashMap<String, String>() {{
+
+		put("SHORT_SPARK", "unique_coauthors_short_sparkline_vis");
+		put("FULL_SPARK", "unique_coauthors_full_sparkline_vis");
+
+	}};
+
+	private static final String visualizationStyleClass = "sparkline_style";
+	
+	private static final String defaultVisContainerDivID = "unique_coauthors_vis_container";
+	
+	public static final String SHORT_SPARKLINE_MODE_URL_HANDLE = "short";
+	
+	public static final String FULL_SPARKLINE_MODE_URL_HANDLE = "full";
+	
+	private Map<String, Integer> yearToUniqueCoauthorsCount;
+
+	private Log log;
+
+	private SparklineVOContainer valueObjectContainer;
+
+	private String contextPath;
+
+	private String individualURIParam;
+
+	public VisualizationCodeGenerator(String contextPath, 
+									  String individualURIParam, 
+									  String visMode, 
+									  String visContainer, 
+									  Map<String, Integer> yearToUniqueCoauthorsCount, 
+									  SparklineVOContainer valueObjectContainer, 
+									  Log log) {
+		
+		this.contextPath = contextPath;
+		this.individualURIParam = individualURIParam;
+		
+		this.yearToUniqueCoauthorsCount = yearToUniqueCoauthorsCount;
+		this.valueObjectContainer = valueObjectContainer;
+		
+		this.log = log;
+		
+		
+		generateVisualizationCode(visMode, 
+				  visContainer);
+		
+		
+	}
+	
+	private void generateVisualizationCode(String visMode,
+										   String visContainer) {
+		
+    	valueObjectContainer.setSparklineContent(getMainVisualizationCode(visMode, 
+    																	  visContainer));
+    	
+    	
+    	valueObjectContainer.setSparklineContext(getVisualizationContextCode(visMode));
+    	
+	}
+
+	private String getMainVisualizationCode(String visMode,
+										    String providedVisContainerID) {
+
+		int numOfYearsToBeRendered = 0;
+		int currentYear = Calendar.getInstance().get(Calendar.YEAR);
+		int shortSparkMinYear = currentYear - 10 + 1;
+		
+    	/*
+    	 * This is required because when deciding the range of years over which the vis
+    	 * was rendered we dont want to be influenced by the "DEFAULT_PUBLICATION_YEAR".
+    	 * */
+		Set<String> publishedYears = new HashSet(yearToUniqueCoauthorsCount.keySet());
+    	publishedYears.remove(VOConstants.DEFAULT_PUBLICATION_YEAR);
+		
+		/*
+		 * We are setting the default value of minPublishedYear to be 10 years before 
+		 * the current year (which is suitably represented by the shortSparkMinYear),
+		 * this in case we run into invalid set of published years.
+		 * */
+		int minPublishedYear = shortSparkMinYear;
+		
+		String visContainerID = null;
+		
+		StringBuilder visualizationCode = new StringBuilder();
+
+//		System.out.println(yearToPublicationCount);
+		if (yearToUniqueCoauthorsCount.size() > 0) {
+			try {
+				minPublishedYear = Integer.parseInt(Collections.min(publishedYears));
+				System.out.println("min pub year - " + minPublishedYear);
+			} catch (NoSuchElementException e1) {
+				log.debug("vis: " + e1.getMessage() + " error occurred for " + yearToUniqueCoauthorsCount.toString());
+			} catch (NumberFormatException e2) {
+				log.debug("vis: " + e2.getMessage() + " error occurred for " + yearToUniqueCoauthorsCount.toString());
+			}
+		}
+		
+		int minPubYearConsidered = 0;
+		
+		/*
+		 * There might be a case that the author has made his first publication within the 
+		 * last 10 years but we want to make sure that the sparkline is representative of 
+		 * at least the last 10 years, so we will set the minPubYearConsidered to 
+		 * "currentYear - 10" which is also given by "shortSparkMinYear".
+		 * */
+		if (minPublishedYear > shortSparkMinYear) {
+			minPubYearConsidered = shortSparkMinYear;
+		} else {
+			minPubYearConsidered = minPublishedYear;
+		}
+		
+		numOfYearsToBeRendered = currentYear - minPubYearConsidered + 1;
+		
+		visualizationCode.append("<style type='text/css'>" +
+										"." + visualizationStyleClass + " table{" +
+										"		margin: 0;" +
+										"  		padding: 0;" +
+										"  		width: auto;" +
+										"  		border-collapse: collapse;" +
+										"    	border-spacing: 0;" +
+										"    	vertical-align: inherit;" +
+										"}" +
+										/*".sparkline_wrapper_table table{" +
+										"    	vertical-align: bottom;" +
+										"}" +*/
+										"td.sparkline_number { text-align:right; padding-right:5px; }" +
+										"td.sparkline_text   {text-align:left;}" +
+										/*"#sparkline_data_table {" +
+												"width: auto;" +
+										"}" +
+										"#sparkline_data_table tfoot {" +
+												"color: red;" +
+												"font-size:0.9em;" +
+										"}" +
+										".sparkline_text {" +
+												"margin-left:72px;" +
+												"position:absolute;" +
+										"}" +
+										".sparkline_range {" +
+												"color:#7BA69E;" +
+												"font-size:0.9em;" +
+												"font-style:italic;" +
+										"}" +*/
+								"</style>\n");
+		
+//		.sparkline {display:inline; margin:0; padding:0; width:600px }
+
+
+
+//		td.sparkline-img  {margin:0; padding:0; } 
+		
+
+		visualizationCode.append("<script type=\"text/javascript\">\n" +
+								"function drawUniqueCoauthorCountVisualization(providedSparklineImgTD) {\n" +
+									"var data = new google.visualization.DataTable();\n" +
+									"data.addColumn('string', 'Year');\n" +
+									"data.addColumn('number', 'Unique co-authors');\n" +
+									"data.addRows(" + numOfYearsToBeRendered + ");\n");
+
+		int uniqueCoAuthorCounter = 0;
+		int totalUniqueCoAuthors = 0;
+		int renderedFullSparks = 0;
+
+		
+		for (int publicationYear = minPubYearConsidered; publicationYear <= currentYear; publicationYear++) {
+
+				String stringPublishedYear = String.valueOf(publicationYear);
+				Integer currentPublications = yearToUniqueCoauthorsCount.get(stringPublishedYear);
+
+				if (currentPublications == null) {
+					currentPublications = 0;
+				}
+
+				visualizationCode.append("data.setValue("
+												+ uniqueCoAuthorCounter
+												+ ", 0, '"
+												+ stringPublishedYear
+												+ "');\n");
+
+				visualizationCode.append("data.setValue("
+												+ uniqueCoAuthorCounter
+												+ ", 1, "
+												+ currentPublications
+												+ ");\n");
+
+				totalUniqueCoAuthors += currentPublications;
+				uniqueCoAuthorCounter++;
+		}
+
+		/*
+		 * Sparks that will be rendered in full mode will always be the one's which has any year
+		 * associated with it. Hence.
+		 * */
+		renderedFullSparks = totalUniqueCoAuthors;
+
+		/*
+		 * Total publications will also consider publications that have no year associated with
+		 * it. Hence.
+		 * */
+		if (yearToUniqueCoauthorsCount.get(VOConstants.DEFAULT_PUBLICATION_YEAR) != null) {
+			totalUniqueCoAuthors += yearToUniqueCoauthorsCount.get(VOConstants.DEFAULT_PUBLICATION_YEAR);
+		}
+
+		String sparklineDisplayOptions = "{width: 63, height: 21, showAxisLines: false, " +
+										  "showValueLabels: false, labelPosition: 'none'}";
+		
+		if (providedVisContainerID != null) {
+			visContainerID = providedVisContainerID;
+		} else {
+			visContainerID = defaultVisContainerDivID;
+		}
+		
+		
+		/*
+		 * By default these represents the range of the rendered sparks. Only in case of
+		 * "short" sparkline mode we will set the Earliest RenderedPublication year to
+		 * "currentYear - 10". 
+		 * */
+		valueObjectContainer.setEarliestRenderedPublicationYear(minPublishedYear);
+		valueObjectContainer.setLatestRenderedPublicationYear(currentYear);
+		
+		/*
+		 * The Full Sparkline will be rendered by default. Only if the url has specific mention of
+		 * SHORT_SPARKLINE_MODE_URL_HANDLE then we render the short sparkline and not otherwise.
+		 * */
+		
+		
+		/*
+		 * Since building StringBuilder objects (which is being used to store the vis code) is 
+		 * essentially a side-effecting process, we have both the activators method as side-effecting.
+		 * They both side-effect "visualizationCode" 
+		 * */
+		if (SHORT_SPARKLINE_MODE_URL_HANDLE.equalsIgnoreCase(visMode)) {
+			
+			valueObjectContainer.setEarliestRenderedPublicationYear(shortSparkMinYear);
+			generateShortSparklineVisualizationContent(currentYear,
+													   shortSparkMinYear, 
+													   visContainerID, 
+													   visualizationCode,
+													   totalUniqueCoAuthors, 
+													   sparklineDisplayOptions);	
+		} else {
+			generateFullSparklineVisualizationContent(currentYear,
+					   								  minPubYearConsidered,
+					   								  visContainerID,
+													  visualizationCode, 
+													  totalUniqueCoAuthors, 
+													  renderedFullSparks,
+													  sparklineDisplayOptions);
+		}
+		
+		
+		
+		
+		
+
+//		System.out.println("+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++");
+		log.debug(visualizationCode);
+//		System.out.println("+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++");
+
+		return visualizationCode.toString();
+	}
+	
+	private void generateShortSparklineVisualizationContent(int currentYear,
+			int shortSparkMinYear, String visContainerID,
+			StringBuilder visualizationCode, int totalUniqueCoAuthors,
+			String sparklineDisplayOptions) {
+		
+		/*
+		 * Create a view of the data containing only the column pertaining to publication count.  
+		 * */
+		visualizationCode.append("var shortSparklineView = new google.visualization.DataView(data);\n" +
+								 "shortSparklineView.setColumns([1]);\n");		
+
+		/*
+		 * For the short view we only want the last 10 year's view of publication count, 
+		 * hence we filter the data we actually want to use for render.
+		 * */
+		visualizationCode.append("shortSparklineView.setRows(" +
+									"data.getFilteredRows([{column: 0, " +
+										"minValue: '" + shortSparkMinYear + "', " +
+										"maxValue: '" + currentYear+ "'}])" +
+								 ");\n");
+
+		/*
+		 * Create the vis object and draw it in the div pertaining to short-sparkline.
+		 * */
+		visualizationCode.append("var short_spark = new google.visualization.ImageSparkLine(" +
+//														"document.getElementById('" + visDivNames.get("SHORT_SPARK") + "')" +
+														"providedSparklineImgTD[0]" +
+								 ");\n" +
+								 "short_spark.draw(shortSparklineView, " + sparklineDisplayOptions + ");\n");
+
+		/*
+		 * We want to display how many publication counts were considered, so this is used 
+		 * to calculate this.
+		 * */
+		visualizationCode.append("var shortSparkRows = shortSparklineView.getViewRows();\n" +
+								 "var renderedShortSparks = 0;\n" +
+								 "$.each(shortSparkRows, function(index, value) {" +
+								 		"renderedShortSparks += data.getValue(value, 1);" +
+								 "});\n");
+
+		
+		
+		/*
+		 * Generate the text introducing the vis.
+		 * */
+		visualizationCode.append("$('#" + visDivNames.get("SHORT_SPARK") + " td.sparkline_number').text(renderedShortSparks);");
+		visualizationCode.append("var shortSparksText = ''" +
+														"+ ' Unique co-authors with year from '" +
+														"+ ' " + totalUniqueCoAuthors + " '" +
+														"+ ' total " +
+														"<span class=\"sparkline_range\">" +
+														"(" + shortSparkMinYear + " - " + currentYear + ")" +
+														"</span>'" +
+														"+ '';" +
+								"$('#" + visDivNames.get("SHORT_SPARK") + " td.sparkline_text').html(shortSparksText);");
+
+		visualizationCode.append("}\n ");
+		
+		/*
+		 * Generate the code that will activate the visualization. It takes care of creating div elements to hold 
+		 * the actual sparkline image and then calling the drawUniqueCoauthorCountVisualization function. 
+		 * */
+		visualizationCode.append(generateVisualizationActivator(visDivNames.get("SHORT_SPARK"), visContainerID));
+		
+	}
+	
+	private void generateFullSparklineVisualizationContent(
+			int currentYear, int minPubYearConsidered, String visContainerID, StringBuilder visualizationCode,
+			int totalUniqueCoAuthors, int renderedFullSparks,
+			String sparklineDisplayOptions) {
+		
+		String csvDownloadURLHref = ""; 
+		
+		try {
+			if (getCSVDownloadURL() != null) {
+				
+				csvDownloadURLHref = "<a href=\"" + getCSVDownloadURL() + "\" class=\"inline_href\">(.CSV File)</a>";
+				
+			} else {
+				
+				csvDownloadURLHref = "";
+				
+			}
+
+		} catch (UnsupportedEncodingException e) {
+			csvDownloadURLHref = "";
+		}
+		
+		
+		visualizationCode.append("var fullSparklineView = new google.visualization.DataView(data);\n" +
+								 "fullSparklineView.setColumns([1]);\n");
+		
+		visualizationCode.append("var full_spark = new google.visualization.ImageSparkLine(" +
+//												"document.getElementById('" + visDivNames.get("FULL_SPARK") + "')" +
+														"providedSparklineImgTD[0]" +
+								");\n" +
+								"full_spark.draw(fullSparklineView, " + sparklineDisplayOptions + ");\n");
+		
+		visualizationCode.append("$('#" + visDivNames.get("FULL_SPARK") + " td.sparkline_number').text('" + renderedFullSparks + "');");
+		
+		visualizationCode.append("var allSparksText = ''" +
+												 "+ ' Unique co-authors '" +
+												 "+ ' <span class=\"sparkline_range\">" +
+												"(" + minPubYearConsidered + " - " + currentYear + ")" +
+												"</span> '" +
+												"+ ' " + csvDownloadURLHref + " ';" +
+								"$('#" + visDivNames.get("FULL_SPARK") + " td.sparkline_text').html(allSparksText);");
+		
+		visualizationCode.append("}\n ");
+		
+		visualizationCode.append(generateVisualizationActivator(visDivNames.get("FULL_SPARK"), visContainerID));
+		
+	}
+	private String generateVisualizationActivator(String sparklineID, String visContainerID) {
+		
+		String sparklineTableWrapper = "\n" +
+				"var table = $('<table>');" +
+				"table.attr('class', 'sparkline_wrapper_table');" +
+				"var row = $('<tr>');" +
+				"sparklineImgTD = $('<td>');" +
+				"sparklineImgTD.attr('id', '" + sparklineID + "_img');" +
+				"sparklineImgTD.attr('width', '65');" +
+				"sparklineImgTD.attr('align', 'right');" +
+				"sparklineImgTD.attr('class', '" + visualizationStyleClass + "');" +
+				"row.append(sparklineImgTD);" +
+				"var sparklineNumberTD = $('<td>');" +
+				"sparklineNumberTD.attr('width', '36');" +
+				"sparklineNumberTD.attr('align', 'right');" +
+				"sparklineNumberTD.attr('class', 'sparkline_number');" +
+				"row.append(sparklineNumberTD);" +
+				"var sparklineTextTD = $('<td>');" +
+				"sparklineTextTD.attr('width', '350');" +
+				"sparklineTextTD.attr('class', 'sparkline_text');" +
+				"row.append(sparklineTextTD);" +
+				"table.append(row);" +
+				"table.prependTo('#" + sparklineID + "');\n";
+		
+		return "$(document).ready(function() {" +
+								
+								"var sparklineImgTD; " +
+								
+		
+								/*
+								 * This is a nuclear option (creating the container in which everything goes)
+								 * the only reason this will be ever used is the API user never submitted a 
+								 * container ID in which everything goes. The alternative was to let the 
+								 * vis not appear in the calling page at all. So now atleast vis appears but 
+								 * appended at the bottom of the body.
+								 * */
+								"if ($('#" + visContainerID + "').length === 0) {" +
+								"	$('<div/>', {'id': '" + visContainerID + "'" +
+								"     }).appendTo('body');" +
+								"}" +
+								
+								"if ($('#" + sparklineID + "').length === 0) {" +
+								
+								"$('<div/>', {'id': '" + sparklineID + "'," +
+											 "'class': '" + visualizationStyleClass + "'" +
+										"}).prependTo('#" + visContainerID + "');" +
+								
+								sparklineTableWrapper +
+										
+								"}" +
+								
+								"drawUniqueCoauthorCountVisualization(sparklineImgTD);" +
+								"});" +
+								"</script>\n";
+	}
+
+	private String getVisualizationContextCode(String visMode) {
+
+		String visualizationContextCode = "";
+		if (SHORT_SPARKLINE_MODE_URL_HANDLE.equalsIgnoreCase(visMode)) {
+			visualizationContextCode = generateShortVisContext();
+		} else {
+			visualizationContextCode = generateFullVisContext();
+		}
+		
+		
+		
+		
+		
+
+//		System.out.println("+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++");
+		log.debug(visualizationContextCode);
+//		System.out.println("+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++");
+
+		return visualizationContextCode;
+	}
+	
+	private String generateFullVisContext() {
+		
+		StringBuilder divContextCode = new StringBuilder();
+		
+		String csvDownloadURLHref = ""; 
+		
+		if (yearToUniqueCoauthorsCount.size() > 0) {
+			
+			try {
+				if (getCSVDownloadURL() != null) {
+					
+					csvDownloadURLHref = "Download data as <a href='" + getCSVDownloadURL() + "'>.csv</a> file.<br />";
+					valueObjectContainer.setDownloadDataLink(getCSVDownloadURL());
+					
+				} else {
+					
+					csvDownloadURLHref = "";
+					
+				}
+
+			} catch (UnsupportedEncodingException e) {
+				csvDownloadURLHref = "";
+			}
+			
+			
+		} else {
+			csvDownloadURLHref = "No data available to export.<br />";
+		}
+		
+		String tableCode = generateDataTable();
+		
+		divContextCode.append("<p>" + tableCode +
+					csvDownloadURLHref + "</p>");
+		
+		valueObjectContainer.setTable(tableCode);
+		
+		return divContextCode.toString();
+		
+	}
+
+	private String getCSVDownloadURL()
+			throws UnsupportedEncodingException {
+		
+		if (yearToUniqueCoauthorsCount.size() > 0) {
+			
+		String secondaryContextPath = "";
+		if (!contextPath.contains("/admin/visQuery")) {
+			secondaryContextPath = "/admin/visQuery";
+		}
+			
+			
+		String downloadURL = contextPath
+							 + secondaryContextPath
+							 + "?" + VisualizationFrameworkConstants.INDIVIDUAL_URI_URL_HANDLE 
+							 + "=" + URLEncoder.encode(individualURIParam, 
+									 				   VisualizationController.URL_ENCODING_SCHEME).toString() 
+							 + "&" + VisualizationFrameworkConstants.VIS_TYPE_URL_HANDLE 
+							 + "=" + URLEncoder.encode(VisualizationController
+									 						.COAUTHORSHIP_VIS_URL_VALUE, 
+									 				   VisualizationController.URL_ENCODING_SCHEME).toString() 
+							 + "&" + VisualizationFrameworkConstants.VIS_MODE_URL_HANDLE
+							 + "=" + URLEncoder.encode("sparkline", 
+									 				   VisualizationController.URL_ENCODING_SCHEME).toString() 									 				   
+							 + "&" + VisualizationFrameworkConstants.RENDER_MODE_URL_HANDLE 
+							 + "=" + URLEncoder.encode(VisualizationFrameworkConstants.DATA_RENDER_MODE_URL_VALUE, 
+					 				 				   VisualizationController.URL_ENCODING_SCHEME).toString();
+		
+		System.out.println(" ----- >>>> " + contextPath + " XX " + individualURIParam + " XX " + downloadURL);
+		
+			return downloadURL;
+		} else {
+			return null;
+		}
+		
+	}
+	
+	
+	private String generateShortVisContext() {
+
+		StringBuilder divContextCode = new StringBuilder();
+		
+		try {
+		
+		String fullTimelineLink;
+		if (yearToUniqueCoauthorsCount.size() > 0) {
+			
+			String secondaryContextPath = "";
+			if (!contextPath.contains("/admin/visQuery")) {
+				secondaryContextPath = "/admin/visQuery";
+			}
+			
+			String fullTimelineNetworkURL = contextPath
+							+ secondaryContextPath
+							+ "?" 
+							+ VisualizationFrameworkConstants.INDIVIDUAL_URI_URL_HANDLE 
+							+ "=" + URLEncoder.encode(individualURIParam, 
+					 				 VisualizationController.URL_ENCODING_SCHEME).toString()
+					 	    + "&"
+		 				    + VisualizationFrameworkConstants.VIS_TYPE_URL_HANDLE 
+							+ "=" + URLEncoder.encode("person_level", 
+					 				 VisualizationController.URL_ENCODING_SCHEME).toString()
+					 	    + "&"
+		 				    + VisualizationFrameworkConstants.VIS_CONTAINER_URL_HANDLE 
+							+ "=" + URLEncoder.encode("ego_sparkline", 
+					 				 VisualizationController.URL_ENCODING_SCHEME).toString()						 				 
+		 				    + "&"
+		 				    + VisualizationFrameworkConstants.RENDER_MODE_URL_HANDLE
+							+ "=" + URLEncoder.encode(VisualizationFrameworkConstants.STANDALONE_RENDER_MODE_URL_VALUE, 
+					 				 VisualizationController.URL_ENCODING_SCHEME).toString();
+			
+			System.out.println("context parth full n/w " + contextPath);
+			
+			fullTimelineLink = "<a href='" + fullTimelineNetworkURL + "'>View full timeline and co-author network</a><br />";
+			
+			valueObjectContainer.setFullTimelineNetworkLink(fullTimelineNetworkURL);
+			
+		} else {
+			
+			fullTimelineLink = "No data available to render full timeline.<br />";
+		
+		}
+		
+		divContextCode.append("<p>" + fullTimelineLink + "</p>");
+		
+		} catch (UnsupportedEncodingException e) {
+		e.printStackTrace();
+		}
+		
+		return divContextCode.toString();
+		
+	}
+	
+	
+	private String generateDataTable() {
+		
+		StringBuilder dataTable = new StringBuilder();
+		
+		dataTable.append("<table id='sparkline_data_table'>" +
+								"<caption>Unique Co-Authors per year</caption>" +
+								"<thead>" +
+										"<tr>" +
+											"<th>Year</th>" +
+											"<th>Count</th>" +
+										"</tr>" +
+								"</thead>" +
+								"<tbody>");
+		
+		for (Entry<String, Integer> currentEntry : yearToUniqueCoauthorsCount.entrySet()) {
+			dataTable.append("<tr>" +
+								"<td>" + currentEntry.getKey() + "</td>" +
+								"<td>" + currentEntry.getValue() + "</td>" +
+							"</tr>");
+		}
+										
+		dataTable.append("</tbody>\n" +
+//						"<tfoot>" +
+//								"<tr><td colspan='2'>*DNA - Data not available</td></tr>" +
+//						"</tfoot>\n" +
+						"</table>\n");
+		
+		
+		return dataTable.toString();
+	}
+	
+	
+	
+
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/coauthorship/VisualizationRequestHandler.java

@@ -0,0 +1,343 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.coauthorship;
+
+import java.io.IOException;
+import java.io.PrintWriter;
+import java.util.HashSet;
+import java.util.Iterator;
+import java.util.Map;
+import java.util.Set;
+import java.util.TreeMap;
+import java.util.Map.Entry;
+
+import javax.servlet.RequestDispatcher;
+import javax.servlet.ServletException;
+import javax.servlet.http.HttpServletRequest;
+import javax.servlet.http.HttpServletResponse;
+
+import org.apache.commons.logging.Log;
+import org.skife.csv.CSVWriter;
+import org.skife.csv.SimpleWriter;
+
+import com.hp.hpl.jena.query.DataSource;
+
+import edu.cornell.mannlib.vitro.webapp.beans.Portal;
+import edu.cornell.mannlib.vitro.webapp.controller.Controllers;
+import edu.cornell.mannlib.vitro.webapp.controller.VitroRequest;
+import edu.cornell.mannlib.vitro.webapp.controller.visualization.VisualizationFrameworkConstants;
+import edu.cornell.mannlib.vitro.webapp.visualization.exceptions.MalformedQueryParametersException;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.Node;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.VivoCollegeOrSchool;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.VivoDepartmentOrDivision;
+import edu.cornell.mannlib.vitro.webapp.visualization.visutils.UtilityFunctions;
+
+public class VisualizationRequestHandler {
+
+	private VitroRequest vitroRequest;
+	private HttpServletRequest request;
+	private HttpServletResponse response;
+	private Log log;
+	
+	public VisualizationRequestHandler(VitroRequest vitroRequest,
+			HttpServletRequest request, HttpServletResponse response, Log log) {
+
+		this.vitroRequest = vitroRequest;
+		this.request = request;
+		this.response = response;
+		this.log = log;
+
+	}
+
+	public void generateVisualization(DataSource dataSource) {
+
+		String resultFormatParam = "RS_TEXT";
+        String rdfResultFormatParam = "RDF/XML-ABBREV";
+
+        String egoURIParam = vitroRequest.getParameter(VisualizationFrameworkConstants.INDIVIDUAL_URI_URL_HANDLE);
+
+        String renderMode = vitroRequest.getParameter(VisualizationFrameworkConstants.RENDER_MODE_URL_HANDLE);
+        
+        String visMode = vitroRequest.getParameter(VisualizationFrameworkConstants.VIS_MODE_URL_HANDLE);
+
+        String visContainer = vitroRequest.getParameter(VisualizationFrameworkConstants.VIS_CONTAINER_URL_HANDLE);
+        
+        String sparklineVisMode = "sparkline";
+        
+        QueryHandler queryManager =
+        	new QueryHandler(egoURIParam,
+						     resultFormatParam,
+						     rdfResultFormatParam,
+						     dataSource,
+						     
+						     log);
+
+		try {
+			
+			VisVOContainer authorNodesAndEdges = queryManager.getVisualizationJavaValueObjects();
+			
+	    	/*
+	    	 * In order to avoid unneeded computations we have pushed this "if" condition up.
+	    	 * This case arises when the render mode is data. In that case we dont want to generate 
+	    	 * HTML code to render sparkline, tables etc. Ideally I would want to avoid this flow.
+	    	 * It is ugly!
+	    	 * */
+	    	
+			if (VisualizationFrameworkConstants.DATA_RENDER_MODE_URL_VALUE.equalsIgnoreCase(renderMode)) {
+				
+		    	/* 
+		    	 * We will be using the same visualization package for both sparkline & coauthorship flash 
+		    	 * vis. We will use "VIS_MODE_URL_HANDLE" as a modifier to differentiate between these two.
+		    	 * The defualt will be to render the coauthorship network vis.
+		    	 * */ 
+				
+				if (sparklineVisMode.equalsIgnoreCase(visMode)) { 
+	    			/*
+	    			 * When the csv file is required - based on which sparkline visualization will 
+	    			 * be rendered.
+	    			 * */
+						prepareVisualizationQuerySparklineDataResponse(authorNodesAndEdges);
+						return;
+		    		
+				} else {
+		    			/*
+		    			 * When the graphML file is required - based on which coauthorship network visualization 
+		    			 * will be rendered.
+		    			 * */
+		    			prepareVisualizationQueryNetworkDataResponse(authorNodesAndEdges);
+						return;
+				}
+			}
+	    			
+			
+	    	
+	    	/*
+	    	 * Computations required to generate HTML for the sparklines & related context.
+	    	 * */
+	    	
+	    	/*
+	    	 * This is required because when deciding the range of years over which the vis
+	    	 * was rendered we dont want to be influenced by the "DEFAULT_PUBLICATION_YEAR".
+	    	 * */
+//	    	publishedYearsForCollege.remove(VOConstants.DEFAULT_PUBLICATION_YEAR);
+
+	    	/*
+	    	VisualizationCodeGenerator visualizationCodeGenerator = 
+	    		new VisualizationCodeGenerator(yearToPublicationCount, log);
+	    	
+			String visContentCode = visualizationCodeGenerator
+										.getMainVisualizationCode(authorDocuments,
+															  	  publishedYears,
+															  	  visMode,
+															  	  visContainer);
+
+			String visContextCode = visualizationCodeGenerator
+										.getVisualizationContextCode(vitroRequest.getRequestURI(), 
+																	 collegeURIParam,
+																	 visMode);
+																	 */
+
+	    	/*
+	    	 * This is side-effecting because the response of this method is just to redirect to
+	    	 * a page with visualization on it.
+	    	 * */
+			
+			RequestDispatcher requestDispatcher = null;
+
+	    	prepareVisualizationQueryStandaloneResponse(egoURIParam, request, response, vitroRequest);
+
+//		    	requestDispatcher = request.getRequestDispatcher(Controllers.BASIC_JSP);
+		    	requestDispatcher = request.getRequestDispatcher("/templates/page/blankPage.jsp");
+
+	    	try {
+	            requestDispatcher.forward(request, response);
+	        } catch (Exception e) {
+	            log.error("EntityEditController could not forward to view.");
+	            log.error(e.getMessage());
+	            log.error(e.getStackTrace());
+	        }
+
+		} catch (MalformedQueryParametersException e) {
+			try {
+				handleMalformedParameters(e.getMessage());
+			} catch (ServletException e1) {
+				log.error(e1.getStackTrace());
+			} catch (IOException e1) {
+				log.error(e1.getStackTrace());
+			}
+			return;
+		}
+
+	}
+
+	private void prepareVisualizationQueryNetworkDataResponse(VisVOContainer authorNodesAndEdges) {
+
+		response.setContentType("text/xml");
+		
+		try {
+		
+		PrintWriter responseWriter = response.getWriter();
+		
+		/*
+		 * We are side-effecting responseWriter since we are directly manipulating the response 
+		 * object of the servlet.
+		 * */
+		
+		CoAuthorshipGraphMLWriter coAuthorShipGraphMLWriter = new CoAuthorshipGraphMLWriter(authorNodesAndEdges);
+		
+		responseWriter.append(coAuthorShipGraphMLWriter.getCoAuthorshipGraphMLContent());
+		
+		responseWriter.close();
+		
+		} catch (IOException e) {
+			e.printStackTrace();
+		}
+	}
+	
+	private void prepareVisualizationQuerySparklineDataResponse(VisVOContainer authorNodesAndEdges) {
+		
+		String outputFileName = "";
+		Map<String, Set<Node>> yearToCoauthors = new TreeMap<String, Set<Node>>();
+		
+		if (authorNodesAndEdges.getNodes() == null || authorNodesAndEdges.getNodes().size() < 1 ) {
+			
+			outputFileName = "no-coauthors" + ".csv";
+			
+		} else {
+			
+			outputFileName = UtilityFunctions.slugify(authorNodesAndEdges.getEgoNode().getNodeName()) 
+			+ "-coauthors" + ".csv";
+			
+			yearToCoauthors = getCoAuthorsStats(authorNodesAndEdges);
+			
+		}
+		
+		 
+			
+		response.setContentType("application/octet-stream");
+		response.setHeader("Content-Disposition", "attachment;filename=" + outputFileName);
+		
+		try {
+		
+		PrintWriter responseWriter = response.getWriter();
+		
+		/*
+		 * We are side-effecting responseWriter since we are directly manipulating the response 
+		 * object of the servlet.
+		 * */
+		generateCsvFileBuffer(yearToCoauthors, 
+							  responseWriter);
+
+		responseWriter.close();
+		
+		} catch (IOException e) {
+		e.printStackTrace();
+		}
+	}
+	
+	private void generateCsvFileBuffer(Map<String, Set<Node>> yearToCoauthors, PrintWriter printWriter) {
+		
+        	printWriter.append("\"Year\", \"Number of Co-Authors\", \"Co-Author(s)\"\n");
+			
+			for (Entry<String, Set<Node>> currentEntry : yearToCoauthors.entrySet()) {
+				
+				printWriter.append("\"" + currentEntry.getKey() + "\"," 
+								   + "\"" + currentEntry.getValue().size() + "\","
+								   + "\"" + getCoauthorsString(currentEntry.getValue()) + "\"\n"
+											  );
+				
+				
+			}
+			
+		printWriter.flush();
+		
+	}
+	
+	private String getCoauthorsString(Set<Node> coAuthors) {
+		
+		StringBuilder coAuthorsMerged = new StringBuilder();
+		
+		for (Node currCoAuthor : coAuthors) {
+			coAuthorsMerged.append(currCoAuthor.getNodeName() + "; ");
+		}
+		
+		return coAuthorsMerged.toString();
+	}
+	
+	private Map<String, Set<Node>> getCoAuthorsStats(VisVOContainer authorNodesAndEdges) {
+
+		Map<String, Set<Node>> yearToCoAuthors = new TreeMap<String, Set<Node>>();
+		
+		Node egoNode = authorNodesAndEdges.getEgoNode();
+		
+		for (Node currNode : authorNodesAndEdges.getNodes()) {
+					
+				/*
+				 * We have already printed the Ego Node info.
+				 * */
+				if (currNode != egoNode) {
+					
+					for (String year : currNode.getYearToPublicationCount().keySet()) {
+						
+						Set<Node> coAuthorNodes;
+						
+						if (yearToCoAuthors.containsKey(year)) {
+							
+							coAuthorNodes = yearToCoAuthors.get(year);
+							coAuthorNodes.add(currNode);
+							
+						} else {
+							
+							coAuthorNodes = new HashSet<Node>();
+							coAuthorNodes.add(currNode);
+							yearToCoAuthors.put(year, coAuthorNodes);
+						}
+						
+					}
+					
+				}
+		}
+		
+		
+		return yearToCoAuthors;
+	}
+
+	private void prepareVisualizationQueryStandaloneResponse(String egoURIParam, 
+															 HttpServletRequest request,
+															 HttpServletResponse response, 
+															 VitroRequest vreq) {
+
+        Portal portal = vreq.getPortal();
+
+//        request.setAttribute("visContentCode", visContentCode);
+//        request.setAttribute("visContextCode", visContextCode);
+
+        request.setAttribute("egoURIParam", egoURIParam);
+        
+        request.setAttribute("bodyJsp", "/templates/visualization/co_authorship.jsp");
+        request.setAttribute("portalBean", portal);
+//        request.setAttribute("title", "Individual Publication Count Visualization");
+//        request.setAttribute("scripts", "/templates/visualization/visualization_scripts.jsp");
+
+	}
+
+	private void handleMalformedParameters(String errorMessage)
+			throws ServletException, IOException {
+
+		Portal portal = vitroRequest.getPortal();
+
+		request.setAttribute("error", errorMessage);
+
+		RequestDispatcher requestDispatcher = request.getRequestDispatcher(Controllers.BASIC_JSP);
+		request.setAttribute("bodyJsp", "/templates/visualization/visualization_error.jsp");
+		request.setAttribute("portalBean", portal);
+		request.setAttribute("title", "Visualization Query Error - Individual Publication Count");
+
+		try {
+			requestDispatcher.forward(request, response);
+		} catch (Exception e) {
+			log.error("EntityEditController could not forward to view.");
+			log.error(e.getMessage());
+			log.error(e.getStackTrace());
+		}
+	}
+
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/collegepubcount/QueryHandler.java

@@ -0,0 +1,364 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.collegepubcount;
+
+import java.util.HashMap;
+import java.util.HashSet;
+import java.util.Map;
+import java.util.Set;
+import java.util.TreeMap;
+
+import org.apache.commons.logging.Log;
+
+import com.hp.hpl.jena.iri.IRI;
+import com.hp.hpl.jena.iri.IRIFactory;
+import com.hp.hpl.jena.iri.Violation;
+import com.hp.hpl.jena.query.DataSource;
+import com.hp.hpl.jena.query.Query;
+import com.hp.hpl.jena.query.QueryExecution;
+import com.hp.hpl.jena.query.QueryExecutionFactory;
+import com.hp.hpl.jena.query.QueryFactory;
+import com.hp.hpl.jena.query.QuerySolution;
+import com.hp.hpl.jena.query.ResultSet;
+import com.hp.hpl.jena.query.Syntax;
+import com.hp.hpl.jena.rdf.model.RDFNode;
+
+import edu.cornell.mannlib.vitro.webapp.visualization.constants.QueryConstants;
+import edu.cornell.mannlib.vitro.webapp.visualization.constants.QueryFieldLabels;
+import edu.cornell.mannlib.vitro.webapp.visualization.constants.VOConstants.EmployeeType;
+import edu.cornell.mannlib.vitro.webapp.visualization.exceptions.MalformedQueryParametersException;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.BiboDocument;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.VivoCollegeOrSchool;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.VivoDepartmentOrDivision;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.VivoEmployee;
+
+
+
+/**
+ * Very dumb name of the class. change it.
+ * @author cdtank
+ *
+ */
+public class QueryHandler {
+
+	protected static final Syntax SYNTAX = Syntax.syntaxARQ;
+
+	private String collegeURIParam, resultFormatParam, rdfResultFormatParam;
+	private Map<String, VivoCollegeOrSchool> collegeURLToVO = new HashMap<String, VivoCollegeOrSchool>();
+	private DataSource dataSource;
+
+	private Log log;
+
+	public QueryHandler(String collegeURIParam,
+			String resultFormatParam, String rdfResultFormatParam,
+			DataSource dataSource, Log log) {
+
+		this.collegeURIParam = collegeURIParam;
+		this.resultFormatParam = resultFormatParam;
+		this.rdfResultFormatParam = rdfResultFormatParam;
+		this.dataSource = dataSource;
+		this.log = log;
+
+	}
+
+	private Set<VivoEmployee> createJavaValueObjects(ResultSet resultSet) {
+		
+		Set<VivoEmployee> collegeAcademicEmployees = new HashSet<VivoEmployee>();
+		
+		Map<String, VivoDepartmentOrDivision> departmentURLToVO = new HashMap<String, VivoDepartmentOrDivision>();
+		Map<String, VivoEmployee> employeeURLToVO = new HashMap<String, VivoEmployee>();
+		
+		while (resultSet.hasNext()) {
+			QuerySolution solution = resultSet.nextSolution();
+
+			String collegeURL = solution.get(QueryFieldLabels.COLLEGE_URL).toString();
+			
+			VivoCollegeOrSchool currentCollege;
+			
+			if (collegeURLToVO.containsKey(collegeURL)) {
+				currentCollege = collegeURLToVO.get(collegeURL);
+			} else {
+				currentCollege = new VivoCollegeOrSchool(collegeURL);
+				collegeURLToVO.put(collegeURL, currentCollege);
+				
+				RDFNode collegeLabelNode = solution.get(QueryFieldLabels.COLLEGE_LABEL);
+				if (collegeLabelNode != null) {
+					currentCollege.setCollegeLabel(collegeLabelNode.toString());
+				}
+			}
+
+			String departmentURL = solution.get(QueryFieldLabels.DEPARTMENT_URL).toString();
+			
+			VivoDepartmentOrDivision currentDepartment;
+			
+			if (departmentURLToVO.containsKey(departmentURL)) {
+				currentDepartment = departmentURLToVO.get(departmentURL);
+				currentDepartment.addParentCollege(currentCollege);
+			} else {
+				currentDepartment = new VivoDepartmentOrDivision(departmentURL, currentCollege);
+				departmentURLToVO.put(departmentURL, currentDepartment);
+
+				RDFNode departmentLabelNode = solution.get(QueryFieldLabels.DEPARTMENT_LABEL);
+				if (departmentLabelNode != null) {
+					currentDepartment.setDepartmentLabel(departmentLabelNode.toString());
+				}
+			}
+
+			currentCollege.addDepartment(currentDepartment);
+			
+			RDFNode employeeNode = solution.get(QueryFieldLabels.ACADEMIC_FACULTY_EMPLOYEE_URL);
+			EmployeeType currentEmployeeType;
+			VivoEmployee currentEmployee;
+			
+			if (employeeNode != null) {
+				currentEmployeeType = EmployeeType.ACADEMIC_FACULTY_EMPLOYEE;
+			} else {
+				currentEmployeeType = EmployeeType.ACADEMIC_STAFF_EMPLOYEE;
+				employeeNode = solution.get(QueryFieldLabels.ACADEMIC_STAFF_EMPLOYEE_URL);
+			}
+			
+			if (employeeURLToVO.containsKey(employeeNode.toString())) {
+				currentEmployee = employeeURLToVO.get(employeeNode.toString());
+				currentEmployee.addParentDepartment(currentDepartment);
+			} else {
+				currentEmployee = new VivoEmployee(employeeNode.toString(), currentEmployeeType, currentDepartment);
+				RDFNode authorLabelNode = solution.get(QueryFieldLabels.AUTHOR_LABEL);
+				if (authorLabelNode != null) {
+					currentEmployee.setIndividualLabel(authorLabelNode.toString());
+				}
+				employeeURLToVO.put(employeeNode.toString(), currentEmployee);
+			}
+			
+			RDFNode documentNode = solution.get(QueryFieldLabels.DOCUMENT_URL);
+			if (documentNode != null) {
+				
+				/*
+				 * A document can have multiple authors but if the same author serves in multiple departments
+				 * then we need to account for "An Authored Document" only once. This check will make sure that
+				 * a document by same author is not added twice just because that author serves in 2 distinct 
+				 * department.
+				 * */
+				boolean isNewDocumentAlreadyAdded = testForDuplicateEntryOfDocument(
+															currentEmployee, 
+															documentNode);
+				
+				if (!isNewDocumentAlreadyAdded) {
+					currentEmployee.addAuthorDocument(createAuthorDocumentsVO(solution, documentNode.toString()));
+				}
+				
+			}
+			
+			collegeAcademicEmployees.add(currentEmployee);
+		}
+		
+		
+/*		System.out.println(collegeURLToVO);
+		System.out.println("------------------------------------------------------------");
+		System.out.println(departmentURLToVO);
+		System.out.println("------------------------------------------------------------");
+		System.out.println(employeeURLToVO);
+		System.out.println("------------------------------------------------------------");
+*/		
+		return collegeAcademicEmployees;
+	}
+
+	private boolean testForDuplicateEntryOfDocument(
+			VivoEmployee currentEmployee, RDFNode documentNode) {
+		boolean isNewDocumentAlreadyAdded = false;
+		
+		for (BiboDocument currentAuthoredDocument : currentEmployee.getAuthorDocuments()) {
+			if (currentAuthoredDocument.getDocumentURL().equalsIgnoreCase(documentNode.toString())) {
+				isNewDocumentAlreadyAdded = true;
+				break;
+			}
+		}
+		return isNewDocumentAlreadyAdded;
+	}
+
+	public Map<String, VivoCollegeOrSchool> getCollegeURLToVO() {
+		return collegeURLToVO;
+	}
+
+	private BiboDocument createAuthorDocumentsVO(QuerySolution solution, String documentURI) {
+
+			BiboDocument biboDocument = new BiboDocument(documentURI);
+
+			RDFNode documentLabelNode = solution.get(QueryFieldLabels.DOCUMENT_LABEL);
+			if (documentLabelNode != null) {
+				biboDocument.setDocumentLabel(documentLabelNode.toString());
+			}
+
+			RDFNode documentBlurbNode = solution.get(QueryFieldLabels.DOCUMENT_BLURB);
+			if (documentBlurbNode != null) {
+				biboDocument.setDocumentBlurb(documentBlurbNode.toString());
+			}
+
+			RDFNode documentMonikerNode = solution.get(QueryFieldLabels.DOCUMENT_MONIKER);
+			if (documentMonikerNode != null) {
+				biboDocument.setDocumentMoniker(documentMonikerNode.toString());
+			}
+
+			RDFNode documentDescriptionNode = solution.get(QueryFieldLabels.DOCUMENT_DESCRIPTION);
+			if (documentDescriptionNode != null) {
+				biboDocument.setDocumentDescription(documentDescriptionNode.toString());
+			}
+
+			RDFNode publicationYearNode = solution.get(QueryFieldLabels.DOCUMENT_PUBLICATION_YEAR);
+			if (publicationYearNode != null) {
+				biboDocument.setPublicationYear(publicationYearNode.toString());
+			}
+			
+			return biboDocument;
+	}
+	
+	private ResultSet executeQuery(String queryText,
+								   String resultFormatParam, 
+								   String rdfResultFormatParam, 
+								   DataSource dataSource) {
+
+        QueryExecution queryExecution = null;
+        try{
+            Query query = QueryFactory.create(queryText, SYNTAX);
+
+//            QuerySolutionMap qs = new QuerySolutionMap();
+//            qs.add("authPerson", queryParam); // bind resource to s
+            
+            queryExecution = QueryExecutionFactory.create(query, dataSource);
+            
+
+            //remocve this if loop after knowing what is describe & construct sparql stuff.
+            if (query.isSelectType()){
+                return queryExecution.execSelect();
+            }
+        } finally {
+            if(queryExecution != null) {
+            	queryExecution.close();
+            }
+
+        }
+		return null;
+    }
+
+	private String generateCollegeEmployeeSparqlQuery(String queryURI) {
+//		Resource uri1 = ResourceFactory.createResource(queryURI);
+
+		String sparqlQuery = QueryConstants.getSparqlPrefixQuery()
+							+ "SELECT (str(?collegeLabel) as ?" + QueryFieldLabels.COLLEGE_LABEL + ") " 
+							+ "		(str(?department) as ?" + QueryFieldLabels.DEPARTMENT_URL + ") " 
+							+ "		(str(?departmentLabel) as ?" + QueryFieldLabels.DEPARTMENT_LABEL + ") " 
+							+ "		(str(?academicFacultyEmployee) as ?" + QueryFieldLabels.ACADEMIC_FACULTY_EMPLOYEE_URL + ") " 
+							+ "		(str(?academicStaffEmployee) as ?" + QueryFieldLabels.ACADEMIC_STAFF_EMPLOYEE_URL + ") "
+							+ "		(str(<" + queryURI + ">) as ?" + QueryFieldLabels.COLLEGE_URL + ") "
+							+ "		(str(?authorLabel) as ?" + QueryFieldLabels.AUTHOR_LABEL + ") "
+							+ "		(str(?document) as ?" + QueryFieldLabels.DOCUMENT_URL + ") "
+							+ "		(str(?documentMoniker) as ?" + QueryFieldLabels.DOCUMENT_MONIKER + ") "
+							+ "		(str(?documentLabel) as ?" + QueryFieldLabels.DOCUMENT_LABEL + ") "
+							+ "		(str(?documentBlurb) as ?" + QueryFieldLabels.DOCUMENT_BLURB + ") "
+							+ "		(str(?documentDescription) as ?" + QueryFieldLabels.DOCUMENT_DESCRIPTION + ") "
+							+ "		(str(?publicationYear) as ?" + QueryFieldLabels.DOCUMENT_PUBLICATION_YEAR + ") "
+							+ "WHERE { "
+							+ "<" + queryURI + "> rdf:type vivo:CollegeOrSchoolWithinUniversity; " +
+									"rdfs:label ?collegeLabel; " +
+									"vivo:hasAcademicDepartmentOrDivision ?department . "
+							+ "?department rdfs:label ?departmentLabel ."
+							+ "{ "
+							+ getAcademicEmployeePublicationsSparqlQuery("academicFacultyEmployee", "vivo:hasEmployeeAcademicFacultyMember")
+							+ " UNION " 
+							+ getAcademicEmployeePublicationsSparqlQuery("academicStaffEmployee", "vivo:hasEmployeeAcademicStaffMember")
+							+ "}"
+							+ "}";
+
+		System.out.println(sparqlQuery);
+		
+		return sparqlQuery;
+	}
+
+	
+	private String getAcademicEmployeePublicationsSparqlQuery(String employeeHandle, 
+															  String ontologyHandle) {
+		
+		String sparqlQuery = " {?department " + ontologyHandle + " ?" + employeeHandle + " . " 
+							+ "?" + employeeHandle + " rdf:type foaf:Person; rdfs:label ?authorLabel. " 
+							+ "OPTIONAL { ?" + employeeHandle + " vivo:authorOf ?document ." +
+										" ?document rdf:type bibo:Document ." +
+										" ?document rdfs:label ?documentLabel ." +
+										" OPTIONAL { ?document vitro:moniker ?documentMoniker } ." +
+										" OPTIONAL { ?document vitro:blurb ?documentBlurb } ." +
+										" OPTIONAL { ?document vitro:description ?documentDescription } ." +
+										" OPTIONAL { ?document vivo:publicationYear ?publicationYear } ." +
+										"}" +
+								"} ";
+		
+		return sparqlQuery;
+		
+	}
+	
+	public Set<VivoEmployee> getVisualizationJavaValueObjects()
+		throws MalformedQueryParametersException {
+
+        if (this.collegeURIParam == null || "".equals(collegeURIParam)) {
+        	throw new MalformedQueryParametersException("URI parameter is either null or empty.");
+        } else {
+
+        	/*
+        	 * To test for the validity of the URI submitted.
+        	 * */
+        	IRIFactory iRIFactory = IRIFactory.jenaImplementation();
+    		IRI iri = iRIFactory.create(this.collegeURIParam);
+            if (iri.hasViolation(false)) {
+                String errorMsg = ((Violation)iri.violations(false).next()).getShortMessage()+" ";
+                log.error("Pub Count Vis Query " + errorMsg);
+                throw new MalformedQueryParametersException("URI provided for an individual is malformed.");
+            }
+        }
+
+		ResultSet resultSet	= executeQuery(generateCollegeEmployeeSparqlQuery(this.collegeURIParam),
+										   this.resultFormatParam,
+										   this.rdfResultFormatParam,
+										   this.dataSource);
+
+		return createJavaValueObjects(resultSet);
+	}
+
+	public Map<String, Integer> getYearToPublicationCount(
+			Set<BiboDocument> authorDocuments) {
+
+    	/*
+    	 * Create a map from the year to number of publications. Use the BiboDocument's
+    	 * parsedPublicationYear to populate the data.
+    	 * */
+    	Map<String, Integer> yearToPublicationCount = new TreeMap<String, Integer>();
+
+    	for (BiboDocument curr : authorDocuments) {
+
+    		/*
+    		 * Increment the count because there is an entry already available for
+    		 * that particular year.
+    		 * */
+    		String publicationYear;
+    		if (curr.getPublicationYear() != null 
+    				&& curr.getPublicationYear().length() != 0 
+    				&& curr.getPublicationYear().trim().length() != 0) {
+    			publicationYear = curr.getPublicationYear();
+    		} else {
+    			publicationYear = curr.getParsedPublicationYear();
+    		}
+    		
+			if (yearToPublicationCount.containsKey(publicationYear)) {
+    			yearToPublicationCount.put(publicationYear,
+    									   yearToPublicationCount
+    									   		.get(publicationYear) + 1);
+
+    		} else {
+    			yearToPublicationCount.put(publicationYear, 1);
+    		}
+
+    	}
+
+//    	System.out.println("****************************\n" + yearToPublicationCount);
+		return yearToPublicationCount;
+	}
+
+
+
+
+
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/collegepubcount/VisualizationRequestHandler.java

@@ -0,0 +1,457 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.collegepubcount;
+
+import java.io.ByteArrayOutputStream;
+import java.io.IOException;
+import java.io.PrintWriter;
+import java.util.HashMap;
+import java.util.HashSet;
+import java.util.Iterator;
+import java.util.List;
+import java.util.Map;
+import java.util.Set;
+import java.util.TreeMap;
+import java.util.Map.Entry;
+
+import javax.servlet.RequestDispatcher;
+import javax.servlet.ServletException;
+import javax.servlet.ServletOutputStream;
+import javax.servlet.http.HttpServletRequest;
+import javax.servlet.http.HttpServletResponse;
+
+import org.apache.commons.logging.Log;
+import org.skife.csv.CSVWriter;
+import org.skife.csv.SimpleWriter;
+
+import com.hp.hpl.jena.query.DataSource;
+import com.itextpdf.text.Document;
+import com.itextpdf.text.DocumentException;
+import com.itextpdf.text.pdf.PdfWriter;
+
+import edu.cornell.mannlib.vitro.webapp.beans.Portal;
+import edu.cornell.mannlib.vitro.webapp.controller.Controllers;
+import edu.cornell.mannlib.vitro.webapp.controller.VitroRequest;
+import edu.cornell.mannlib.vitro.webapp.controller.visualization.VisualizationFrameworkConstants;
+import edu.cornell.mannlib.vitro.webapp.visualization.PDFDocument;
+import edu.cornell.mannlib.vitro.webapp.visualization.constants.VOConstants;
+import edu.cornell.mannlib.vitro.webapp.visualization.constants.VisConstants;
+import edu.cornell.mannlib.vitro.webapp.visualization.exceptions.MalformedQueryParametersException;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.BiboDocument;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.Individual;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.VivoCollegeOrSchool;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.VivoDepartmentOrDivision;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.VivoEmployee;
+import edu.cornell.mannlib.vitro.webapp.visualization.visutils.UtilityFunctions;
+
+public class VisualizationRequestHandler {
+
+	private VitroRequest vitroRequest;
+	private HttpServletRequest request;
+	private HttpServletResponse response;
+	private Log log;
+
+
+	
+	public VisualizationRequestHandler(VitroRequest vitroRequest,
+			HttpServletRequest request, HttpServletResponse response, Log log) {
+
+		this.vitroRequest = vitroRequest;
+		this.request = request;
+		this.response = response;
+		this.log = log;
+
+	}
+
+	public void generateVisualization(DataSource dataSource) {
+
+		String resultFormatParam = "RS_TEXT";
+        String rdfResultFormatParam = "RDF/XML-ABBREV";
+
+        String collegeURIParam = vitroRequest.getParameter(VisualizationFrameworkConstants.INDIVIDUAL_URI_URL_HANDLE);
+
+        String renderMode = vitroRequest.getParameter(VisualizationFrameworkConstants.RENDER_MODE_URL_HANDLE);
+        
+        String visMode = vitroRequest.getParameter(VisualizationFrameworkConstants.VIS_MODE_URL_HANDLE);
+
+        String visContainer = vitroRequest.getParameter(VisualizationFrameworkConstants.VIS_CONTAINER_URL_HANDLE);
+
+        QueryHandler queryManager =
+        	new QueryHandler(collegeURIParam,
+						     resultFormatParam,
+						     rdfResultFormatParam,
+						     dataSource,
+						     log);
+
+		try {
+			
+			Set<VivoEmployee> employees = queryManager.getVisualizationJavaValueObjects();
+			
+			Map<VivoDepartmentOrDivision, Map<String, Integer>> departmentToPublicationsOverTime = 
+				new HashMap<VivoDepartmentOrDivision, Map<String,Integer>>();
+			
+			Set<String> publishedYearsForCollege = new HashSet<String>();
+			
+			for (VivoEmployee currentEmployee : employees) {
+				
+				Map<String, Integer> currentEmployeeYearToPublicationCount = 
+					queryManager.getYearToPublicationCount(currentEmployee.getAuthorDocuments());
+				
+				if (currentEmployeeYearToPublicationCount.size() > 0) {
+					
+					
+					publishedYearsForCollege.addAll(currentEmployeeYearToPublicationCount.keySet());
+				
+					for (VivoDepartmentOrDivision currentDepartment : currentEmployee.getParentDepartments()) {
+						
+						departmentToPublicationsOverTime.put(currentDepartment, 
+															 getUpdatedDepartmentPublicationsOverTime(
+																	 currentEmployeeYearToPublicationCount,
+																	 departmentToPublicationsOverTime
+																	 		.get(currentDepartment)));
+						
+					}
+				
+				}
+			}
+
+
+	    	/*
+	    	 * In order to avoid unneeded computations we have pushed this "if" condition up.
+	    	 * This case arises when the render mode is data. In that case we dont want to generate 
+	    	 * HTML code to render sparkline, tables etc. Ideally I would want to avoid this flow.
+	    	 * It is ugly! 
+	    	 * */
+	    	if (VisualizationFrameworkConstants.DATA_RENDER_MODE_URL_VALUE.equalsIgnoreCase(renderMode)) { 
+				prepareVisualizationQueryDataResponse(
+													  departmentToPublicationsOverTime,
+													  queryManager.getCollegeURLToVO());
+				
+				log.debug(publishedYearsForCollege);
+				return;
+			}
+	    	
+	    	
+	    	
+	    	/*
+	    	if (PDF_RENDER_MODE_URL_VALUE.equalsIgnoreCase(renderMode)) { 
+				prepareVisualizationQueryPDFResponse(authorDocuments,
+													  yearToPublicationCount);
+				return;
+			}
+	    	*/
+	    	
+	    	/*
+	    	 * Computations required to generate HTML for the sparklines & related context.
+	    	 * */
+	    	
+	    	/*
+	    	 * This is required because when deciding the range of years over which the vis
+	    	 * was rendered we dont want to be influenced by the "DEFAULT_PUBLICATION_YEAR".
+	    	 * */
+	    	publishedYearsForCollege.remove(VOConstants.DEFAULT_PUBLICATION_YEAR);
+
+	    	/*
+	    	VisualizationCodeGenerator visualizationCodeGenerator = 
+	    		new VisualizationCodeGenerator(yearToPublicationCount, log);
+	    	
+			String visContentCode = visualizationCodeGenerator
+										.getMainVisualizationCode(authorDocuments,
+															  	  publishedYears,
+															  	  visMode,
+															  	  visContainer);
+
+			String visContextCode = visualizationCodeGenerator
+										.getVisualizationContextCode(vitroRequest.getRequestURI(), 
+																	 collegeURIParam,
+																	 visMode);
+																	 */
+
+	    	/*
+	    	 * This is side-effecting because the response of this method is just to redirect to
+	    	 * a page with visualization on it.
+	    	 * */
+			
+			/*
+			RequestDispatcher requestDispatcher = null;
+
+			if (DYNAMIC_RENDER_MODE_URL_VALUE.equalsIgnoreCase(renderMode)) {
+
+				prepareVisualizationQueryDynamicResponse(request, response, vitroRequest,
+		    			visContentCode, visContextCode);
+		    	requestDispatcher = request.getRequestDispatcher("/templates/page/blankPage.jsp");
+
+			} else {
+		    	prepareVisualizationQueryStandaloneResponse(request, response, vitroRequest,
+		    			visContentCode, visContextCode);
+
+		    	requestDispatcher = request.getRequestDispatcher(Controllers.BASIC_JSP);
+			}
+
+	    	try {
+	            requestDispatcher.forward(request, response);
+	        } catch (Exception e) {
+	            log.error("EntityEditController could not forward to view.");
+	            log.error(e.getMessage());
+	            log.error(e.getStackTrace());
+	        }
+
+*/
+		} catch (MalformedQueryParametersException e) {
+			try {
+				handleMalformedParameters(e.getMessage());
+			} catch (ServletException e1) {
+				log.error(e1.getStackTrace());
+			} catch (IOException e1) {
+				log.error(e1.getStackTrace());
+			}
+			return;
+		}
+
+	}
+
+	private Map<String, Integer> getUpdatedDepartmentPublicationsOverTime(
+										Map<String, Integer> currentEmployeeYearToPublicationCount,
+										Map<String, Integer> currentDepartmentYearToPublicationCount) {
+		
+		Map<String, Integer> departmentYearToPublicationCount;
+		
+//		System.out.println("inside get updated dept pub obr time");
+		
+		/*
+		 * In case this is the first time we are consolidating publication counts over time for a department.
+		 * */
+		if (currentDepartmentYearToPublicationCount == null) {
+			departmentYearToPublicationCount = new TreeMap<String, Integer>();
+			
+//			System.out.println("new dept yr pub cnt");
+			
+		} else {
+			departmentYearToPublicationCount = currentDepartmentYearToPublicationCount;
+		}
+		
+		
+		Iterator employeePubCountIterator = currentEmployeeYearToPublicationCount.entrySet().iterator();
+		
+		while (employeePubCountIterator.hasNext()) {
+			Map.Entry<String, Integer> employeePubCountEntry = (Map.Entry) employeePubCountIterator.next();
+			
+			String employeePublicationYear = employeePubCountEntry.getKey();
+			Integer employeePublicationCount = employeePubCountEntry.getValue();
+			
+			try {
+			if (departmentYearToPublicationCount.containsKey(employeePublicationYear)) {
+				departmentYearToPublicationCount.put(employeePublicationYear,
+															departmentYearToPublicationCount
+																.get(employeePublicationYear) 
+															+ employeePublicationCount);
+
+    		} else {
+    			departmentYearToPublicationCount.put(employeePublicationYear, employeePublicationCount);
+    		}	
+			} catch (Exception e) {
+				e.printStackTrace();
+			}
+		}
+		
+		return departmentYearToPublicationCount;
+	}
+
+	private void prepareVisualizationQueryPDFResponse(Individual college, 
+													  List<BiboDocument> authorDocuments,
+													  Map<String, Integer> yearToPublicationCount) {
+		
+		String authorName = null; 
+		
+		/*
+		 * To protect against cases where there are no author documents associated with the
+		 * individual. 
+		 * */
+		if (authorDocuments.size() > 0) {
+			authorName = college.getIndividualLabel();
+		}
+		
+		/*
+		 * To make sure that null/empty records for author names do not cause any mischief.
+		 * */
+		if (authorName == null) {
+			authorName = "";
+		}
+		
+		String outputFileName = UtilityFunctions.slugify(authorName + "-report") 
+								+ ".pdf";
+		
+		response.setContentType("application/pdf");
+		response.setHeader("Content-Disposition","attachment;filename=" + outputFileName);
+ 
+			ServletOutputStream responseOutputStream;
+			try {
+				responseOutputStream = response.getOutputStream();
+				
+				
+				Document document = new Document();
+				ByteArrayOutputStream baos = new ByteArrayOutputStream();
+				PdfWriter pdfWriter = PdfWriter.getInstance(document, baos);
+				document.open();
+				
+				PDFDocument pdfDocument = new PDFDocument(authorName, 
+														  yearToPublicationCount, 
+														  document, 
+														  pdfWriter);
+				document.close();
+
+				response.setHeader("Expires", "0");
+				response.setHeader("Cache-Control", "must-revalidate, post-check=0, pre-check=0");
+				response.setHeader("Pragma", "public");
+				response.setContentLength(baos.size());
+				
+				baos.writeTo(responseOutputStream);
+				responseOutputStream.flush();
+				responseOutputStream.close();
+				
+			} catch (IOException e) {
+				e.printStackTrace();
+			} catch (DocumentException e) {
+				e.printStackTrace();
+			}
+	}
+
+	private void prepareVisualizationQueryDataResponse(
+				Map<VivoDepartmentOrDivision, Map<String, Integer>> departmentToPublicationsOverTime,
+				Map<String, VivoCollegeOrSchool> collegeURLToVO) {
+
+		String collegeName = null; 
+		
+		/*
+		* To protect against cases where there are no author documents associated with the
+		* individual. 
+		* */
+//		System.out.println(collegeURLToVO);
+		if (collegeURLToVO.size() > 0) {
+			collegeName = ((VivoCollegeOrSchool) collegeURLToVO.values().iterator().next()).getCollegeLabel();
+		}
+		
+		/*
+		* To make sure that null/empty records for author names do not cause any mischief.
+		* */
+		if (collegeName == null) {
+		collegeName = "";
+		}
+		
+		String outputFileName = UtilityFunctions.slugify(collegeName) + "depts-pub-count" + ".csv";
+		
+		response.setContentType("application/octet-stream");
+		response.setHeader("Content-Disposition","attachment;filename=" + outputFileName);
+		
+		try {
+		
+		PrintWriter responseWriter = response.getWriter();
+		
+		/*
+		 * We are side-effecting responseWriter since we are directly manipulating the response 
+		 * object of the servlet.
+		 * */
+		generateCsvFileBuffer(departmentToPublicationsOverTime, 
+							  collegeURLToVO, 
+							  responseWriter);
+
+		responseWriter.close();
+		
+		} catch (IOException e) {
+		e.printStackTrace();
+		}
+	}
+	
+	private void generateCsvFileBuffer(
+			Map<VivoDepartmentOrDivision, Map<String, Integer>> departmentToPublicationsOverTime,
+			Map<String, VivoCollegeOrSchool> collegeURLToVO, PrintWriter printWriter) {
+		
+        CSVWriter csvWriter = new SimpleWriter(printWriter);
+        
+        try {
+			csvWriter.append(new String[]{"School", "Department", "Year", "Publications"});
+			
+			Iterator<VivoCollegeOrSchool> collegeIterator = collegeURLToVO.values().iterator();
+			
+			while (collegeIterator.hasNext()) {
+				VivoCollegeOrSchool college = collegeIterator.next();
+				String collegeLabel = college.getCollegeLabel();
+				for (VivoDepartmentOrDivision currentDepartment : college.getDepartments()) {
+					
+					Map<String, Integer> currentDepartmentPublicationsOverTime = departmentToPublicationsOverTime.get(currentDepartment);
+					
+					/*
+					 * This because many departments might not have any publication.
+					 * */
+					if (currentDepartmentPublicationsOverTime != null) {
+						
+					for (Entry<String, Integer> currentEntry : currentDepartmentPublicationsOverTime.entrySet()) {
+						csvWriter.append(new Object[]{collegeLabel,
+													  currentDepartment.getDepartmentLabel(),
+													  currentEntry.getKey(), 
+													  currentEntry.getValue()});
+					}
+					
+					}
+					
+				}
+			}
+	        
+		} catch (IOException e) {
+			e.printStackTrace();
+		}
+		
+		printWriter.flush();
+		
+	}
+
+	private void prepareVisualizationQueryStandaloneResponse(HttpServletRequest request,
+			HttpServletResponse response, VitroRequest vreq,
+			String visContentCode, String visContextCode) {
+
+        Portal portal = vreq.getPortal();
+
+        request.setAttribute("visContentCode", visContentCode);
+        request.setAttribute("visContextCode", visContextCode);
+
+        request.setAttribute("bodyJsp", "/templates/visualization/publication_count.jsp");
+        request.setAttribute("portalBean", portal);
+        request.setAttribute("title", "Individual Publication Count Visualization");
+        request.setAttribute("scripts", "/templates/visualization/visualization_scripts.jsp");
+
+	}
+
+	private void prepareVisualizationQueryDynamicResponse(HttpServletRequest request,
+			HttpServletResponse response, VitroRequest vreq,
+			String visContentCode, String visContextCode) {
+
+        Portal portal = vreq.getPortal();
+
+        request.setAttribute("visContentCode", visContentCode);
+        request.setAttribute("visContextCode", visContextCode);
+
+        request.setAttribute("portalBean", portal);
+        request.setAttribute("bodyJsp", "/templates/visualization/ajax_vis_content.jsp");
+
+	}
+
+	private void handleMalformedParameters(String errorMessage)
+			throws ServletException, IOException {
+
+		Portal portal = vitroRequest.getPortal();
+
+		request.setAttribute("error", errorMessage);
+
+		RequestDispatcher requestDispatcher = request.getRequestDispatcher(Controllers.BASIC_JSP);
+		request.setAttribute("bodyJsp", "/templates/visualization/visualization_error.jsp");
+		request.setAttribute("portalBean", portal);
+		request.setAttribute("title", "Visualization Query Error - Individual Publication Count");
+
+		try {
+			requestDispatcher.forward(request, response);
+		} catch (Exception e) {
+			log.error("EntityEditController could not forward to view.");
+			log.error(e.getMessage());
+			log.error(e.getStackTrace());
+		}
+	}
+
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/constants/QueryConstants.java

@@ -0,0 +1,59 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.constants;
+
+import java.util.HashMap;
+import java.util.Map;
+
+public class QueryConstants {
+	
+	public static final Map<String, String> PREFIX_TO_NAMESPACE = new HashMap<String, String>() {{
+		
+			put("rdf", "http://www.w3.org/1999/02/22-rdf-syntax-ns#");
+			put("rdfs", "http://www.w3.org/2000/01/rdf-schema#");
+			put("xsd", "http://www.w3.org/2001/XMLSchema#");
+			put("owl", "http://www.w3.org/2002/07/owl#");
+			put("swrl", "http://www.w3.org/2003/11/swrl#");
+			put("swrlb", "http://www.w3.org/2003/11/swrlb#");
+			put("vitro", "http://vitro.mannlib.cornell.edu/ns/vitro/0.7#");
+			put("far", "http://vitro.mannlib.cornell.edu/ns/reporting#");
+			put("ai", "http://vitro.mannlib.cornell.edu/ns/hotel#");
+			put("aktp", "http://www.aktors.org/ontology/portal#");
+			put("akts", "http://www.aktors.org/ontology/support#");
+			put("bibo", "http://purl.org/ontology/bibo/");
+			put("hr", "http://vivo.cornell.edu/ns/hr/0.9/hr.owl#");
+			put("dcterms", "http://purl.org/dc/terms/");
+			put("dcelem", "http://purl.org/dc/elements/1.1/");
+			put("event", "http://purl.org/NET/c4dm/event.owl#");
+			put("foaf", "http://xmlns.com/foaf/0.1/");
+			put("geo", "http://aims.fao.org/aos/geopolitical.owl#");
+			put("mann", "http://vivo.cornell.edu/ns/mannadditions/0.1#");
+			put("pubmed", "http://vitro.mannlib.cornell.edu/ns/pubmed#");
+			put("rdfs", "http://www.w3.org/2000/01/rdf-schema#");
+			put("rdfsyn", "http://www.w3.org/1999/02/22-rdf-syntax-ns#");
+			put("skos", "http://www.w3.org/2004/02/skos/core#");
+			put("socsci", "http://vivo.library.cornell.edu/ns/vivo/socsci/0.1#");
+			put("stars", "http://vitro.mannlib.cornell.edu/ns/cornell/stars/classes#");
+			put("temp", "http://vitro.mannlib.cornell.edu/ns/temp#");
+			put("wos", "http://vivo.mannlib.cornell.edu/ns/ThomsonWOS/0.1#");
+			put("core", "http://vivoweb.org/ontology/core#");
+			put("vivo", "http://vivo.library.cornell.edu/ns/0.1#");
+		
+	}};
+	
+	
+	public static String getSparqlPrefixQuery() {
+		
+		StringBuilder prefixSection = new StringBuilder(); 
+		
+		for (Map.Entry prefixEntry : PREFIX_TO_NAMESPACE.entrySet()) {
+			prefixSection.append("PREFIX " + prefixEntry.getKey() + ": <" + prefixEntry.getValue() + ">\n");
+		}
+		
+		
+		return prefixSection.toString();
+		
+	}
+	
+	
+}
+
+

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/constants/QueryFieldLabels.java

@@ -0,0 +1,53 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.constants;
+
+public class QueryFieldLabels {
+	
+	/*
+	 * Generic Query related field labels 
+	 * */
+	public static final String PREDICATE = "predicateLit";
+	public static final String OBJECT = "objectLit";
+	
+	
+	/*
+	 * Document related field labels 
+	 * */
+	public static final String DOCUMENT_URL = "documentLit";
+	public static final String DOCUMENT_MONIKER = "documentMonikerLit";
+	public static final String DOCUMENT_LABEL = "documentLabelLit";
+	public static final String DOCUMENT_BLURB = "documentBlurbLit";
+	public static final String DOCUMENT_DESCRIPTION = "documentDescriptionLit";
+	public static final String DOCUMENT_PUBLICATION_YEAR = "publicationYearLit";
+	
+	
+	/*
+	 * Author related field labels
+	 * */
+	public static final String AUTHOR_URL = "authPersonLit";
+	public static final String AUTHOR_LABEL = "authorLabelLit";
+	
+	/*
+	 * Co-Author related field labels
+	 * */
+	public static final String CO_AUTHOR_URL = "coAuthPersonLit";
+	public static final String CO_AUTHOR_LABEL = "coAuthPersonLabelLit";
+	
+	/*
+	 * College related field labels 
+	 * */
+	public static final String COLLEGE_URL = "collegeLit";
+	public static final String COLLEGE_LABEL = "collegeLabelLit";
+	
+	/*
+	 * Department related field labels 
+	 * */
+	public static final String DEPARTMENT_URL = "departmentLit";
+	public static final String DEPARTMENT_LABEL = "departmentLabelLit";
+	
+	/*
+	 * Employee related field labels 
+	 * */
+	public static final String ACADEMIC_FACULTY_EMPLOYEE_URL = "academicFacultyEmployeeLit";
+	public static final String ACADEMIC_STAFF_EMPLOYEE_URL = "academicStaffEmployeeLit";
+	
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/constants/VOConstants.java

@@ -0,0 +1,16 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.constants;
+
+public class VOConstants {
+	
+	public static final String DEFAULT_PUBLICATION_YEAR = "Unknown";
+	
+	/*
+	 * Employee related constants 
+	 * */
+	public static enum EmployeeType {
+		ACADEMIC_FACULTY_EMPLOYEE, ACADEMIC_STAFF_EMPLOYEE
+	} 
+	
+	
+	
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/constants/VisConstants.java

@@ -0,0 +1,8 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.constants;
+
+public class VisConstants {
+	
+	public static final int MAX_NAME_TEXT_LENGTH = 10;
+	
+	
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/exceptions/DocumentFieldNotFoundException.java

@@ -0,0 +1,19 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.exceptions;
+
+public class DocumentFieldNotFoundException extends Exception {
+
+	private static final long serialVersionUID = 1L;
+	
+	public DocumentFieldNotFoundException(String message) {
+		super(message);
+	}
+	
+	public DocumentFieldNotFoundException(Exception cause) {
+		super(createMessage(cause), cause);
+	}
+
+	private static String createMessage(Exception cause) {
+		return "Document Field is empty " + cause.getMessage();
+	}
+
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/exceptions/MalformedQueryParametersException.java

@@ -0,0 +1,19 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.exceptions;
+
+public class MalformedQueryParametersException extends Exception {
+
+	private static final long serialVersionUID = 1L;
+	
+	public MalformedQueryParametersException(String message) {
+		super(message);
+	}
+	
+	public MalformedQueryParametersException(Exception cause) {
+		super(createMessage(cause), cause);
+	}
+
+	private static String createMessage(Exception cause) {
+		return "Malformed Query Params " + cause.getMessage();
+	}
+
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/personlevel/VisualizationRequestHandler.java

@@ -0,0 +1,423 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.personlevel;
+
+import java.io.IOException;
+import java.io.PrintWriter;
+import java.util.HashSet;
+import java.util.List;
+import java.util.Map;
+import java.util.Set;
+import java.util.TreeMap;
+import java.util.Map.Entry;
+
+import javax.servlet.RequestDispatcher;
+import javax.servlet.ServletException;
+import javax.servlet.http.HttpServletRequest;
+import javax.servlet.http.HttpServletResponse;
+
+import org.apache.commons.logging.Log;
+
+import com.hp.hpl.jena.query.DataSource;
+
+import edu.cornell.mannlib.vitro.webapp.beans.Portal;
+import edu.cornell.mannlib.vitro.webapp.controller.Controllers;
+import edu.cornell.mannlib.vitro.webapp.controller.VitroRequest;
+import edu.cornell.mannlib.vitro.webapp.controller.visualization.VisualizationFrameworkConstants;
+import edu.cornell.mannlib.vitro.webapp.visualization.coauthorship.CoAuthorshipGraphMLWriter;
+import edu.cornell.mannlib.vitro.webapp.visualization.coauthorship.VisVOContainer;
+import edu.cornell.mannlib.vitro.webapp.visualization.exceptions.MalformedQueryParametersException;
+import edu.cornell.mannlib.vitro.webapp.visualization.personpubcount.VisualizationCodeGenerator;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.BiboDocument;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.Node;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.SparklineVOContainer;
+import edu.cornell.mannlib.vitro.webapp.visualization.visutils.UtilityFunctions;
+
+public class VisualizationRequestHandler {
+
+	private VitroRequest vitroRequest;
+	private HttpServletRequest request;
+	private HttpServletResponse response;
+	private Log log;
+	
+	public VisualizationRequestHandler(VitroRequest vitroRequest,
+			HttpServletRequest request, HttpServletResponse response, Log log) {
+
+		this.vitroRequest = vitroRequest;
+		this.request = request;
+		this.response = response;
+		this.log = log;
+
+	}
+
+	public void generateVisualization(DataSource dataSource) {
+
+		String resultFormatParam = "RS_TEXT";
+        String rdfResultFormatParam = "RDF/XML-ABBREV";
+
+        String egoURIParam = vitroRequest.getParameter(VisualizationFrameworkConstants.INDIVIDUAL_URI_URL_HANDLE);
+
+        String renderMode = vitroRequest.getParameter(VisualizationFrameworkConstants.RENDER_MODE_URL_HANDLE);
+        
+        String visMode = vitroRequest.getParameter(VisualizationFrameworkConstants.VIS_MODE_URL_HANDLE);
+        
+        String coAuthorsListMode = "coauthors";
+
+        String egoPubSparklineVisContainerID = "ego_pub_sparkline";
+        String uniqueCoauthorsSparklineVisContainerID = "unique_coauthors_sparkline";
+        
+        edu.cornell.mannlib.vitro.webapp.visualization.coauthorship.QueryHandler coAuthorshipQueryManager =
+        	new edu.cornell.mannlib.vitro.webapp.visualization.coauthorship.QueryHandler(egoURIParam,
+						     resultFormatParam,
+						     rdfResultFormatParam,
+						     dataSource,
+						     log);
+        
+        edu.cornell.mannlib.vitro.webapp.visualization.personpubcount.QueryHandler publicationQueryManager =
+        	new edu.cornell.mannlib.vitro.webapp.visualization.personpubcount.QueryHandler(egoURIParam,
+						   	 resultFormatParam,
+						     rdfResultFormatParam,
+						     dataSource,
+						     log);
+
+		try {
+			
+			edu.cornell.mannlib.vitro.webapp.visualization.coauthorship.VisVOContainer coAuthorshipVO = 
+					coAuthorshipQueryManager.getVisualizationJavaValueObjects();
+			
+	    	/*
+	    	 * In order to avoid unneeded computations we have pushed this "if" condition up.
+	    	 * This case arises when the render mode is data. In that case we dont want to generate 
+	    	 * HTML code to render sparkline, tables etc. Ideally I would want to avoid this flow.
+	    	 * It is ugly! 
+	    	 * */
+	    	if (VisualizationFrameworkConstants.DATA_RENDER_MODE_URL_VALUE.equalsIgnoreCase(renderMode)) { 
+			
+					/* 
+			    	 * We will be using the same visualization package for providing data for both 
+			    	 * list of unique coauthors & network of coauthors (used in the flash vis). We will 
+			    	 * use "VIS_MODE_URL_HANDLE" as a modifier to differentiate between these two.
+			    	 * The defualt will be to provide data used to render the coauthorship network vis.
+			    	 * */ 
+					
+					if (coAuthorsListMode.equalsIgnoreCase(visMode)) { 
+		    			/*
+		    			 * When the csv file is required - containing the unique co-authors vs how many times
+		    			 * they have co-authored with the ego.
+		    			 * */
+							prepareVisualizationQueryListCoauthorsDataResponse(coAuthorshipVO);
+							return;
+			    		
+					} else {
+			    			/*
+			    			 * When the graphML file is required - based on which coauthorship network visualization 
+			    			 * will be rendered.
+			    			 * */
+			    			prepareVisualizationQueryNetworkDataResponse(coAuthorshipVO);
+							return;
+					}
+	    		
+	    		
+			}
+					
+			List<BiboDocument> authorDocuments = publicationQueryManager.getVisualizationJavaValueObjects();
+			
+	    	/*
+	    	 * Create a map from the year to number of publications. Use the BiboDocument's
+	    	 * parsedPublicationYear to populate the data.
+	    	 * */
+	    	Map<String, Integer> yearToPublicationCount = publicationQueryManager
+	    														.getYearToPublicationCount(authorDocuments);
+	    														
+	    	Map<String, Integer> yearToUniqueCoauthorCount = getUniqueCoauthorsCountPerYear(coAuthorshipVO);
+	    		
+	    														
+	    	/*
+	    	 * Computations required to generate HTML for the sparklines & related context.
+	    	 * */
+	    	
+	    	SparklineVOContainer publicationSparklineVO = new SparklineVOContainer();
+	    	SparklineVOContainer uniqueCoauthorsSparklineVO = new SparklineVOContainer();
+
+	    	edu.cornell.mannlib.vitro.webapp.visualization.personpubcount.VisualizationCodeGenerator personPubCountVisCodeGenerator = 
+	    		new edu.cornell.mannlib.vitro.webapp.visualization.personpubcount.VisualizationCodeGenerator(
+	    			vitroRequest.getRequestURI(),
+	    			egoURIParam,
+	    			VisualizationCodeGenerator.FULL_SPARKLINE_MODE_URL_HANDLE,
+	    			egoPubSparklineVisContainerID,
+	    			authorDocuments,
+	    			yearToPublicationCount,
+	    			publicationSparklineVO,
+	    			log);	  
+	    	
+	    	edu.cornell.mannlib.vitro.webapp.visualization.coauthorship.VisualizationCodeGenerator uniqueCoauthorsVisCodeGenerator = 
+	    		new edu.cornell.mannlib.vitro.webapp.visualization.coauthorship.VisualizationCodeGenerator(
+	    			vitroRequest.getRequestURI(),
+	    			egoURIParam,
+	    			VisualizationCodeGenerator.FULL_SPARKLINE_MODE_URL_HANDLE,
+	    			uniqueCoauthorsSparklineVisContainerID,
+	    			yearToUniqueCoauthorCount,
+	    			uniqueCoauthorsSparklineVO,
+	    			log);
+			
+			
+			RequestDispatcher requestDispatcher = null;
+
+	    	prepareVisualizationQueryStandaloneResponse(egoURIParam, 
+	    												publicationSparklineVO,
+	    												uniqueCoauthorsSparklineVO,
+	    												coAuthorshipVO,
+	    												egoPubSparklineVisContainerID,
+	    												uniqueCoauthorsSparklineVisContainerID,
+	    												request, 
+	    												response, 
+	    												vitroRequest);
+
+//	    	requestDispatcher = request.getRequestDispatcher("/templates/page/blankPage.jsp");
+			requestDispatcher = request.getRequestDispatcher(Controllers.BASIC_JSP);
+
+	    	try {
+	            requestDispatcher.forward(request, response);
+	        } catch (Exception e) {
+	            log.error("EntityEditController could not forward to view.");
+	            log.error(e.getMessage());
+	            log.error(e.getStackTrace());
+	        }
+
+		} catch (MalformedQueryParametersException e) {
+			try {
+				handleMalformedParameters(e.getMessage());
+			} catch (ServletException e1) {
+				log.error(e1.getStackTrace());
+			} catch (IOException e1) {
+				log.error(e1.getStackTrace());
+			}
+			return;
+		}
+
+	}
+
+	private Map<String, Integer> getUniqueCoauthorsCountPerYear(
+			edu.cornell.mannlib.vitro.webapp.visualization.coauthorship.VisVOContainer coAuthorshipVO) {
+		Map<String, Integer> yearToUniqueCoauthorCount = new TreeMap<String, Integer>();
+		
+		Map<String, Set<Node>> yearToUniqueCoauthors = getUniqueCoAuthorsPerYear(coAuthorshipVO);
+			
+		for (Entry<String, Set<Node>> currentEntry : yearToUniqueCoauthors.entrySet()) {
+			
+			yearToUniqueCoauthorCount.put(currentEntry.getKey(), currentEntry.getValue().size());
+			
+		}
+		return yearToUniqueCoauthorCount;
+	}
+	
+	private Map<String, Set<Node>> getUniqueCoAuthorsPerYear(edu.cornell.mannlib.vitro.webapp.visualization.coauthorship.VisVOContainer authorNodesAndEdges) {
+
+		Map<String, Set<Node>> yearToCoAuthors = new TreeMap<String, Set<Node>>();
+		
+		Node egoNode = authorNodesAndEdges.getEgoNode();
+		
+		for (Node currNode : authorNodesAndEdges.getNodes()) {
+					
+				/*
+				 * We have already printed the Ego Node info.
+				 * */
+				if (currNode != egoNode) {
+					
+					for (String year : currNode.getYearToPublicationCount().keySet()) {
+						
+						Set<Node> coAuthorNodes;
+						
+						if (yearToCoAuthors.containsKey(year)) {
+							
+							coAuthorNodes = yearToCoAuthors.get(year);
+							coAuthorNodes.add(currNode);
+							
+						} else {
+							
+							coAuthorNodes = new HashSet<Node>();
+							coAuthorNodes.add(currNode);
+							yearToCoAuthors.put(year, coAuthorNodes);
+						}
+						
+					}
+					
+				}
+		}
+		
+		
+		return yearToCoAuthors;
+	}
+
+	private void prepareVisualizationQueryNetworkDataResponse(VisVOContainer coAuthorsipVO) {
+
+		String outputFileName = "";
+		
+		if (coAuthorsipVO.getNodes() == null || coAuthorsipVO.getNodes().size() < 1) {
+			
+			outputFileName = "no-coauthorship-net" + ".csv";
+			
+		} else {
+			
+			outputFileName = UtilityFunctions.slugify(coAuthorsipVO.getEgoNode().getNodeName()) 
+			+ "-coauthor-net" + ".graphml";
+			
+		}
+		
+		
+		
+		response.setContentType("application/octet-stream");
+		response.setHeader("Content-Disposition", "attachment;filename=" + outputFileName);
+		
+		try {
+		
+		PrintWriter responseWriter = response.getWriter();
+		
+		/*
+		 * We are side-effecting responseWriter since we are directly manipulating the response 
+		 * object of the servlet.
+		 * */
+		CoAuthorshipGraphMLWriter coAuthorShipGraphMLWriter = new CoAuthorshipGraphMLWriter(coAuthorsipVO);
+		
+		responseWriter.append(coAuthorShipGraphMLWriter.getCoAuthorshipGraphMLContent());
+		
+		responseWriter.close();
+		
+		} catch (IOException e) {
+			e.printStackTrace();
+		}
+	}
+	
+	private void prepareVisualizationQueryListCoauthorsDataResponse(VisVOContainer coAuthorsipVO) {
+
+		String outputFileName = "";
+		Map<String, Integer> coAuthorsToCount = new TreeMap<String, Integer>();
+		
+		if (coAuthorsipVO.getNodes() == null || coAuthorsipVO.getNodes().size() < 1 ) {
+			
+			outputFileName = "no-coauthors-list" + ".csv";
+			
+		} else {
+			
+			outputFileName = UtilityFunctions.slugify(coAuthorsipVO.getEgoNode().getNodeName()) 
+										+ "-coauthors-list" + ".csv";
+			
+			coAuthorsToCount = getCoAuthorsList(coAuthorsipVO);
+			
+		}
+			
+		response.setContentType("application/octet-stream");
+		response.setHeader("Content-Disposition", "attachment;filename=" + outputFileName);
+		
+		try {
+		
+		PrintWriter responseWriter = response.getWriter();
+		
+		/*
+		 * We are side-effecting responseWriter since we are directly manipulating the response 
+		 * object of the servlet.
+		 * */
+		generateCsvFileBuffer(coAuthorsToCount, 
+							  responseWriter);
+
+		responseWriter.close();
+		
+		} catch (IOException e) {
+		e.printStackTrace();
+		}
+	}
+	
+	
+	private Map<String, Integer> getCoAuthorsList(VisVOContainer coAuthorsipVO) {
+		
+		Map<String, Integer> coAuthorsToCount = new TreeMap<String, Integer>();
+		
+		for (Node currNode : coAuthorsipVO.getNodes()) {
+			
+			/*
+			 * We have already printed the Ego Node info.
+			 * */
+			if (currNode != coAuthorsipVO.getEgoNode()) {
+				
+				coAuthorsToCount.put(currNode.getNodeName(), currNode.getNumOfAuthoredWorks());
+				
+			}
+			
+		}
+		
+		
+		return coAuthorsToCount;
+	}
+
+	private void generateCsvFileBuffer(Map<String, Integer> coAuthorsToCount, PrintWriter printWriter) {
+		
+	    	printWriter.append("\"Co-Author\", \"Count\"\n");
+			
+			for (Entry<String, Integer> currentEntry : coAuthorsToCount.entrySet()) {
+				
+				printWriter.append("\"" + currentEntry.getKey() + "\"," 
+								   + "\"" + currentEntry.getValue() + "\"\n"
+											  );
+			}
+			
+		printWriter.flush();
+	}
+	
+	
+	private void prepareVisualizationQueryStandaloneResponse(
+		String egoURIParam, 
+		SparklineVOContainer egoPubSparklineVO, 
+		SparklineVOContainer uniqueCoauthorsSparklineVO, 
+		VisVOContainer coAuthorshipVO, 
+		String egoPubSparklineVisContainer, 
+		String uniqueCoauthorsSparklineVisContainer, 
+		HttpServletRequest request,
+		HttpServletResponse response, 
+		VitroRequest vreq) {
+
+        Portal portal = vreq.getPortal();
+        
+        request.setAttribute("egoURIParam", egoURIParam);
+        
+        if (coAuthorshipVO.getNodes() != null) {
+        	request.setAttribute("numOfAuthors", coAuthorshipVO.getNodes().size());
+		}
+		
+		if (coAuthorshipVO.getEdges() != null) {
+			request.setAttribute("numOfCoAuthorShips", coAuthorshipVO.getEdges().size());
+		}
+		
+        
+        request.setAttribute("egoPubSparklineVO", egoPubSparklineVO);
+        request.setAttribute("uniqueCoauthorsSparklineVO", uniqueCoauthorsSparklineVO);
+        
+        request.setAttribute("egoPubSparklineContainerID", egoPubSparklineVisContainer);
+        request.setAttribute("uniqueCoauthorsSparklineVisContainerID", uniqueCoauthorsSparklineVisContainer);
+        
+        request.setAttribute("title", "Person Level Visualization");
+        request.setAttribute("portalBean", portal);
+        request.setAttribute("scripts", "/templates/visualization/person_level_inject_head.jsp");
+        
+        request.setAttribute("bodyJsp", "/templates/visualization/person_level.jsp");
+	}
+
+	private void handleMalformedParameters(String errorMessage)
+			throws ServletException, IOException {
+
+		Portal portal = vitroRequest.getPortal();
+
+		request.setAttribute("error", errorMessage);
+
+		RequestDispatcher requestDispatcher = request.getRequestDispatcher(Controllers.BASIC_JSP);
+		request.setAttribute("bodyJsp", "/templates/visualization/visualization_error.jsp");
+		request.setAttribute("portalBean", portal);
+		request.setAttribute("title", "Visualization Query Error - Individual Publication Count");
+
+		try {
+			requestDispatcher.forward(request, response);
+		} catch (Exception e) {
+			log.error("EntityEditController could not forward to view.");
+			log.error(e.getMessage());
+			log.error(e.getStackTrace());
+		}
+	}
+
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/personpubcount/QueryHandler.java

@@ -0,0 +1,255 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.personpubcount;
+
+import java.util.ArrayList;
+import java.util.List;
+import java.util.Map;
+import java.util.TreeMap;
+
+import org.apache.commons.logging.Log;
+
+import com.hp.hpl.jena.iri.IRI;
+import com.hp.hpl.jena.iri.IRIFactory;
+import com.hp.hpl.jena.iri.Violation;
+import com.hp.hpl.jena.query.DataSource;
+import com.hp.hpl.jena.query.Query;
+import com.hp.hpl.jena.query.QueryExecution;
+import com.hp.hpl.jena.query.QueryExecutionFactory;
+import com.hp.hpl.jena.query.QueryFactory;
+import com.hp.hpl.jena.query.QuerySolution;
+import com.hp.hpl.jena.query.ResultSet;
+import com.hp.hpl.jena.query.Syntax;
+import com.hp.hpl.jena.rdf.model.RDFNode;
+
+import edu.cornell.mannlib.vitro.webapp.visualization.constants.QueryConstants;
+import edu.cornell.mannlib.vitro.webapp.visualization.constants.QueryFieldLabels;
+import edu.cornell.mannlib.vitro.webapp.visualization.exceptions.MalformedQueryParametersException;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.BiboDocument;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.Individual;
+
+
+
+/**
+ * Very dumb name of the class. change it.
+ * @author cdtank
+ *
+ */
+public class QueryHandler {
+
+	protected static final Syntax SYNTAX = Syntax.syntaxARQ;
+
+	private String queryParam, resultFormatParam, rdfResultFormatParam;
+	private DataSource dataSource;
+
+	private Individual author; 
+
+	public Individual getAuthor() {
+		return author;
+	}
+
+	private Log log;
+
+	private static final String SPARQL_QUERY_COMMON_SELECT_CLAUSE = "" +
+			"SELECT (str(?authorLabel) as ?authorLabelLit) " +
+			"		(str(?document) as ?documentLit) " +
+			"		(str(?documentMoniker) as ?documentMonikerLit) " +
+			"		(str(?documentLabel) as ?documentLabelLit) " +
+			"		(str(?documentBlurb) as ?documentBlurbLit) " +
+			"		(str(?publicationYear) as ?publicationYearLit) " +
+			"		(str(?documentDescription) as ?documentDescriptionLit) ";
+
+	private static final String SPARQL_QUERY_COMMON_WHERE_CLAUSE = "" +
+			"?document rdf:type bibo:Document ." +
+			"?document rdfs:label ?documentLabel ." +
+			"OPTIONAL {  ?document vivo:publicationYear ?publicationYear } ." +
+			"OPTIONAL {  ?document vitro:moniker ?documentMoniker } ." +
+			"OPTIONAL {  ?document vitro:blurb ?documentBlurb } ." +
+			"OPTIONAL {  ?document vitro:description ?documentDescription }";
+
+	public QueryHandler(String queryParam,
+			String resultFormatParam, String rdfResultFormatParam,
+			DataSource dataSource, Log log) {
+
+		this.queryParam = queryParam;
+		this.resultFormatParam = resultFormatParam;
+		this.rdfResultFormatParam = rdfResultFormatParam;
+		this.dataSource = dataSource;
+		this.log = log;
+
+	}
+
+	private List<BiboDocument> createJavaValueObjects(ResultSet resultSet) {
+		List<BiboDocument> authorDocuments = new ArrayList<BiboDocument>();
+		
+		while (resultSet.hasNext()) {
+			QuerySolution solution = resultSet.nextSolution();
+
+			BiboDocument biboDocument = new BiboDocument(
+											solution.get(QueryFieldLabels.DOCUMENT_URL)
+												.toString());
+
+			RDFNode documentLabelNode = solution.get(QueryFieldLabels.DOCUMENT_LABEL);
+			if (documentLabelNode != null) {
+				biboDocument.setDocumentLabel(documentLabelNode.toString());
+			}
+
+
+			RDFNode documentBlurbNode = solution.get(QueryFieldLabels.DOCUMENT_BLURB);
+			if (documentBlurbNode != null) {
+				biboDocument.setDocumentBlurb(documentBlurbNode.toString());
+			}
+
+			RDFNode documentmonikerNode = solution.get(QueryFieldLabels.DOCUMENT_MONIKER);
+			if (documentmonikerNode != null) {
+				biboDocument.setDocumentMoniker(documentmonikerNode.toString());
+			}
+
+			RDFNode documentDescriptionNode = solution.get(QueryFieldLabels.DOCUMENT_DESCRIPTION);
+			if (documentDescriptionNode != null) {
+				biboDocument.setDocumentDescription(documentDescriptionNode.toString());
+			}
+
+			RDFNode publicationYearNode = solution.get(QueryFieldLabels.DOCUMENT_PUBLICATION_YEAR);
+			if (publicationYearNode != null) {
+				biboDocument.setPublicationYear(publicationYearNode.toString());
+			}
+			
+			/*
+			 * Since we are getting publication count for just one author at a time we need
+			 * to create only one "Individual" instance. We test against the null for "author" to
+			 * make sure that it has not already been instantiated. 
+			 * */
+			RDFNode authorURLNode = solution.get(QueryFieldLabels.AUTHOR_URL);
+			if (authorURLNode != null && author == null) {
+				author = new Individual(authorURLNode.toString());
+				RDFNode authorLabelNode = solution.get(QueryFieldLabels.AUTHOR_LABEL);
+				if (authorLabelNode != null) {
+					author.setIndividualLabel(authorLabelNode.toString());
+				}
+				
+			}
+
+			authorDocuments.add(biboDocument);
+		}
+		return authorDocuments;
+	}
+
+	private ResultSet executeQuery(String queryURI,
+            String resultFormatParam, String rdfResultFormatParam, DataSource dataSource) {
+
+        QueryExecution queryExecution = null;
+        try{
+            Query query = QueryFactory.create(generateSparqlQuery(queryURI), SYNTAX);
+
+//            QuerySolutionMap qs = new QuerySolutionMap();
+//            qs.add("authPerson", queryParam); // bind resource to s
+            
+            queryExecution = QueryExecutionFactory.create(query, dataSource);
+            
+
+            //remocve this if loop after knowing what is describe & construct sparql stuff.
+            if( query.isSelectType() ){
+                return queryExecution.execSelect();
+            }
+        } finally {
+            if(queryExecution != null) {
+            	queryExecution.close();
+            }
+
+        }
+		return null;
+    }
+
+	private String generateSparqlQuery(String queryURI) {
+//		Resource uri1 = ResourceFactory.createResource(queryURI);
+
+		String sparqlQuery = QueryConstants.getSparqlPrefixQuery()
+							+ SPARQL_QUERY_COMMON_SELECT_CLAUSE
+							+ "(str(<" + queryURI + ">) as ?authPersonLit) "
+							+ "WHERE { "
+							+ "<" + queryURI + "> rdf:type foaf:Person ; vivo:authorOf ?document ; rdfs:label ?authorLabel.  "
+							+  SPARQL_QUERY_COMMON_WHERE_CLAUSE
+							+ "}";
+
+		log.debug("SPARQL query for person pub count -> \n" + sparqlQuery);
+
+		return sparqlQuery;
+	}
+
+	public List<BiboDocument> getVisualizationJavaValueObjects()
+		throws MalformedQueryParametersException {
+
+        if(this.queryParam == null || "".equals(queryParam)) {
+        	throw new MalformedQueryParametersException("URL parameter is either null or empty.");
+        } else {
+
+        	/*
+        	 * To test for the validity of the URI submitted.
+        	 * */
+        	IRIFactory iRIFactory = IRIFactory.jenaImplementation();
+    		IRI iri = iRIFactory.create(this.queryParam);
+            if (iri.hasViolation(false)) {
+                String errorMsg = ((Violation)iri.violations(false).next()).getShortMessage()+" ";
+                log.error("Pub Count vis Query " + errorMsg);
+                throw new MalformedQueryParametersException("URI provided for an individual is malformed.");
+            }
+        }
+
+
+
+		ResultSet resultSet	= executeQuery(this.queryParam,
+										   this.resultFormatParam,
+										   this.rdfResultFormatParam,
+										   this.dataSource);
+
+		return createJavaValueObjects(resultSet);
+	}
+
+	public Map<String, Integer> getYearToPublicationCount(
+			List<BiboDocument> authorDocuments) {
+
+		//List<Integer> publishedYears = new ArrayList<Integer>();
+
+    	/*
+    	 * Create a map from the year to number of publications. Use the BiboDocument's
+    	 * parsedPublicationYear to populate the data.
+    	 * */
+    	Map<String, Integer> yearToPublicationCount = new TreeMap<String, Integer>();
+
+    	for (BiboDocument curr : authorDocuments) {
+
+    		/*
+    		 * Increment the count because there is an entry already available for
+    		 * that particular year.
+    		 * */
+    		String publicationYear;
+    		if (curr.getPublicationYear() != null 
+    				&& curr.getPublicationYear().length() != 0 
+    				&& curr.getPublicationYear().trim().length() != 0) {
+    			publicationYear = curr.getPublicationYear();
+    		} else {
+    			publicationYear = curr.getParsedPublicationYear();
+    		}
+    		
+			if (yearToPublicationCount.containsKey(publicationYear)) {
+    			yearToPublicationCount.put(publicationYear,
+    									   yearToPublicationCount
+    									   		.get(publicationYear) + 1);
+
+    		} else {
+    			yearToPublicationCount.put(publicationYear, 1);
+    		}
+
+//    		if (!parsedPublicationYear.equalsIgnoreCase(BiboDocument.DEFAULT_PUBLICATION_YEAR)) {
+//    			publishedYears.add(Integer.parseInt(parsedPublicationYear));
+//    		}
+
+    	}
+
+		return yearToPublicationCount;
+	}
+
+
+
+
+
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/personpubcount/VisualizationCodeGenerator.java

@@ -0,0 +1,660 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.personpubcount;
+
+import java.io.UnsupportedEncodingException;
+import java.net.URLEncoder;
+import java.util.Calendar;
+import java.util.Collections;
+import java.util.HashMap;
+import java.util.HashSet;
+import java.util.List;
+import java.util.Map;
+import java.util.NoSuchElementException;
+import java.util.Set;
+import java.util.Map.Entry;
+
+import org.apache.commons.logging.Log;
+
+import edu.cornell.mannlib.vitro.webapp.controller.visualization.VisualizationController;
+import edu.cornell.mannlib.vitro.webapp.controller.visualization.VisualizationFrameworkConstants;
+import edu.cornell.mannlib.vitro.webapp.visualization.constants.VOConstants;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.BiboDocument;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.SparklineVOContainer;
+
+
+public class VisualizationCodeGenerator {
+
+	private final static Map<String, String> visDivNames = new HashMap<String, String>() {{
+
+		put("SHORT_SPARK", "pub_count_short_sparkline_vis");
+		put("FULL_SPARK", "pub_count_full_sparkline_vis");
+
+	}};
+
+	private static final String visualizationStyleClass = "sparkline_style";
+	
+	private static final String defaultVisContainerDivID = "pub_count_vis_container";
+	
+	public static final String SHORT_SPARKLINE_MODE_URL_HANDLE = "short";
+	
+	public static final String FULL_SPARKLINE_MODE_URL_HANDLE = "full";
+	
+	private Map<String, Integer> yearToPublicationCount;
+
+	private Log log;
+
+	private SparklineVOContainer valueObjectContainer;
+
+	private String contextPath;
+
+	private String individualURIParam;
+
+	public VisualizationCodeGenerator(String contextPath, 
+									  String individualURIParam, 
+									  String visMode, 
+									  String visContainer, 
+									  List<BiboDocument> authorDocuments, 
+									  Map<String, Integer> yearToPublicationCount, 
+									  SparklineVOContainer valueObjectContainer, 
+									  Log log) {
+		
+		this.contextPath = contextPath;
+		this.individualURIParam = individualURIParam;
+		
+		this.yearToPublicationCount = yearToPublicationCount;
+		this.valueObjectContainer = valueObjectContainer;
+		
+		this.log = log;
+		
+		
+		generateVisualizationCode(visMode, 
+				  visContainer, 
+				  authorDocuments);
+		
+		
+	}
+	
+	private void generateVisualizationCode(String visMode,
+										   String visContainer, 
+										   List<BiboDocument> authorDocuments) {
+		
+    	valueObjectContainer.setSparklineContent(getMainVisualizationCode(authorDocuments, 
+    																	  visMode, 
+    																	  visContainer));
+    	
+    	
+    	valueObjectContainer.setSparklineContext(getVisualizationContextCode(visMode));
+    	
+	}
+
+	private String getMainVisualizationCode(List<BiboDocument> authorDocuments,
+										    String visMode, 
+										    String providedVisContainerID) {
+
+		int numOfYearsToBeRendered = 0;
+		int currentYear = Calendar.getInstance().get(Calendar.YEAR);
+		int shortSparkMinYear = currentYear - 10 + 1;
+		
+    	/*
+    	 * This is required because when deciding the range of years over which the vis
+    	 * was rendered we dont want to be influenced by the "DEFAULT_PUBLICATION_YEAR".
+    	 * */
+		Set<String> publishedYears = new HashSet(yearToPublicationCount.keySet());
+    	publishedYears.remove(VOConstants.DEFAULT_PUBLICATION_YEAR);
+		
+		/*
+		 * We are setting the default value of minPublishedYear to be 10 years before 
+		 * the current year (which is suitably represented by the shortSparkMinYear),
+		 * this in case we run into invalid set of published years.
+		 * */
+		int minPublishedYear = shortSparkMinYear;
+		
+		String visContainerID = null;
+		
+		StringBuilder visualizationCode = new StringBuilder();
+
+//		System.out.println(yearToPublicationCount);
+		if (yearToPublicationCount.size() > 0) {
+			try {
+				minPublishedYear = Integer.parseInt(Collections.min(publishedYears));
+				System.out.println("min pub year - " + minPublishedYear);
+			} catch (NoSuchElementException e1) {
+				log.debug("vis: " + e1.getMessage() + " error occurred for " + yearToPublicationCount.toString());
+			} catch (NumberFormatException e2) {
+				log.debug("vis: " + e2.getMessage() + " error occurred for " + yearToPublicationCount.toString());
+			}
+		}
+		
+		int minPubYearConsidered = 0;
+		
+		/*
+		 * There might be a case that the author has made his first publication within the 
+		 * last 10 years but we want to make sure that the sparkline is representative of 
+		 * at least the last 10 years, so we will set the minPubYearConsidered to 
+		 * "currentYear - 10" which is also given by "shortSparkMinYear".
+		 * */
+		if (minPublishedYear > shortSparkMinYear) {
+			minPubYearConsidered = shortSparkMinYear;
+		} else {
+			minPubYearConsidered = minPublishedYear;
+		}
+		
+		numOfYearsToBeRendered = currentYear - minPubYearConsidered + 1;
+		
+		visualizationCode.append("<style type='text/css'>" +
+										"." + visualizationStyleClass + " table{" +
+										"		margin: 0;" +
+										"  		padding: 0;" +
+										"  		width: auto;" +
+										"  		border-collapse: collapse;" +
+										"    	border-spacing: 0;" +
+										"    	vertical-align: inherit;" +
+										"}" +
+										"table.sparkline_wrapper_table td, th {" +
+										"	vertical-align: bottom;" +
+										"}" +
+										".vis_link a{" +
+										"	padding-top: 5px;" +
+										"}" +
+										"td.sparkline_number { text-align:right; padding-right:5px; }" +
+										"td.sparkline_text   {text-align:left;}" +
+										/*"#sparkline_data_table {" +
+												"width: auto;" +
+										"}" +
+										"#sparkline_data_table tfoot {" +
+												"color: red;" +
+												"font-size:0.9em;" +
+										"}" +
+										".sparkline_text {" +
+												"margin-left:72px;" +
+												"position:absolute;" +
+										"}" +
+										".sparkline_range {" +
+												"color:#7BA69E;" +
+												"font-size:0.9em;" +
+												"font-style:italic;" +
+										"}" +*/
+								"</style>\n");
+		
+//		.sparkline {display:inline; margin:0; padding:0; width:600px }
+
+
+
+//		td.sparkline-img  {margin:0; padding:0; } 
+		
+
+		visualizationCode.append("<script type=\"text/javascript\">\n" +
+								"function drawPubCountVisualization(providedSparklineImgTD) {\n" +
+									"var data = new google.visualization.DataTable();\n" +
+									"data.addColumn('string', 'Year');\n" +
+									"data.addColumn('number', 'Publications');\n" +
+									"data.addRows(" + numOfYearsToBeRendered + ");\n");
+
+		int publicationCounter = 0;
+		int totalPublications = 0;
+		int renderedFullSparks = 0;
+
+		
+		for (int publicationYear = minPubYearConsidered; publicationYear <= currentYear; publicationYear++) {
+
+				String stringPublishedYear = String.valueOf(publicationYear);
+				Integer currentPublications = yearToPublicationCount.get(stringPublishedYear);
+
+				if (currentPublications == null) {
+					currentPublications = 0;
+				}
+
+				visualizationCode.append("data.setValue("
+												+ publicationCounter
+												+ ", 0, '"
+												+ stringPublishedYear
+												+ "');\n");
+
+				visualizationCode.append("data.setValue("
+												+ publicationCounter
+												+ ", 1, "
+												+ currentPublications
+												+ ");\n");
+
+				totalPublications += currentPublications;
+				publicationCounter++;
+		}
+
+		/*
+		 * Sparks that will be rendered in full mode will always be the one's which has any year
+		 * associated with it. Hence.
+		 * */
+		renderedFullSparks = totalPublications;
+
+		/*
+		 * Total publications will also consider publications that have no year associated with
+		 * it. Hence.
+		 * */
+		if (yearToPublicationCount.get(VOConstants.DEFAULT_PUBLICATION_YEAR) != null) {
+			totalPublications += yearToPublicationCount.get(VOConstants.DEFAULT_PUBLICATION_YEAR);
+		}
+
+		String sparklineDisplayOptions = "{width: 63, height: 21, showAxisLines: false, " +
+										  "showValueLabels: false, labelPosition: 'none'}";
+		
+		if (providedVisContainerID != null) {
+			visContainerID = providedVisContainerID;
+		} else {
+			visContainerID = defaultVisContainerDivID;
+		}
+		
+		
+		/*
+		 * By default these represents the range of the rendered sparks. Only in case of
+		 * "short" sparkline mode we will set the Earliest RenderedPublication year to
+		 * "currentYear - 10". 
+		 * */
+		valueObjectContainer.setEarliestRenderedPublicationYear(minPublishedYear);
+		valueObjectContainer.setLatestRenderedPublicationYear(currentYear);
+		
+		/*
+		 * The Full Sparkline will be rendered by default. Only if the url has specific mention of
+		 * SHORT_SPARKLINE_MODE_URL_HANDLE then we render the short sparkline and not otherwise.
+		 * */
+		
+		
+		/*
+		 * Since building StringBuilder objects (which is being used to store the vis code) is 
+		 * essentially a side-effecting process, we have both the activators method as side-effecting.
+		 * They both side-effect "visualizationCode" 
+		 * */
+		if (SHORT_SPARKLINE_MODE_URL_HANDLE.equalsIgnoreCase(visMode)) {
+			
+			valueObjectContainer.setEarliestRenderedPublicationYear(shortSparkMinYear);
+			generateShortSparklineVisualizationContent(currentYear,
+													   shortSparkMinYear, 
+													   visContainerID, 
+													   visualizationCode,
+													   totalPublications, 
+													   sparklineDisplayOptions);	
+		} else {
+			generateFullSparklineVisualizationContent(currentYear,
+					   								  minPubYearConsidered,
+					   								  visContainerID,
+													  visualizationCode, 
+													  totalPublications, 
+													  renderedFullSparks,
+													  sparklineDisplayOptions);
+		}
+		
+		
+		
+		
+		
+
+//		System.out.println("+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++");
+		log.debug(visualizationCode);
+//		System.out.println("+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++");
+
+		return visualizationCode.toString();
+	}
+	
+	private void generateShortSparklineVisualizationContent(int currentYear,
+			int shortSparkMinYear, String visContainerID,
+			StringBuilder visualizationCode, int totalPublications,
+			String sparklineDisplayOptions) {
+		
+		/*
+		 * Create a view of the data containing only the column pertaining to publication count.  
+		 * */
+		visualizationCode.append("var shortSparklineView = new google.visualization.DataView(data);\n" +
+								 "shortSparklineView.setColumns([1]);\n");		
+
+		/*
+		 * For the short view we only want the last 10 year's view of publication count, 
+		 * hence we filter the data we actually want to use for render.
+		 * */
+		visualizationCode.append("shortSparklineView.setRows(" +
+									"data.getFilteredRows([{column: 0, " +
+										"minValue: '" + shortSparkMinYear + "', " +
+										"maxValue: '" + currentYear+ "'}])" +
+								 ");\n");
+
+		/*
+		 * Create the vis object and draw it in the div pertaining to short-sparkline.
+		 * */
+		visualizationCode.append("var short_spark = new google.visualization.ImageSparkLine(" +
+//														"document.getElementById('" + visDivNames.get("SHORT_SPARK") + "')" +
+														"providedSparklineImgTD[0]" +
+								 ");\n" +
+								 "short_spark.draw(shortSparklineView, " + sparklineDisplayOptions + ");\n");
+
+		/*
+		 * We want to display how many publication counts were considered, so this is used 
+		 * to calculate this.
+		 * */
+		visualizationCode.append("var shortSparkRows = shortSparklineView.getViewRows();\n" +
+								 "var renderedShortSparks = 0;\n" +
+								 "$.each(shortSparkRows, function(index, value) {" +
+								 		"renderedShortSparks += data.getValue(value, 1);" +
+								 "});\n");
+
+		
+		
+		/*
+		 * Generate the text introducing the vis.
+		 * */
+		visualizationCode.append("$('#" + visDivNames.get("SHORT_SPARK") + " td.sparkline_number').text(renderedShortSparks);");
+		visualizationCode.append("var shortSparksText = ''" +
+														"+ ' Papers with year from '" +
+														"+ ' " + totalPublications + " '" +
+														"+ ' total " +
+														"<span class=\"sparkline_range\">" +
+														"(" + shortSparkMinYear + " - " + currentYear + ")" +
+														"</span>'" +
+														"+ '';" +
+								"$('#" + visDivNames.get("SHORT_SPARK") + " td.sparkline_text').html(shortSparksText);");
+
+		visualizationCode.append("}\n ");
+		
+		/*
+		 * Generate the code that will activate the visualization. It takes care of creating div elements to hold 
+		 * the actual sparkline image and then calling the drawPubCountVisualization function. 
+		 * */
+		visualizationCode.append(generateVisualizationActivator(visDivNames.get("SHORT_SPARK"), visContainerID));
+		
+	}
+	
+	private void generateFullSparklineVisualizationContent(
+			int currentYear, int minPubYearConsidered, String visContainerID, StringBuilder visualizationCode,
+			int totalPublications, int renderedFullSparks,
+			String sparklineDisplayOptions) {
+		
+		String csvDownloadURLHref = ""; 
+		
+		try {
+			if (getCSVDownloadURL() != null) {
+				
+				csvDownloadURLHref = "<a href=\"" + getCSVDownloadURL() + "\" class=\"inline_href\">(.CSV File)</a>";
+				
+			} else {
+				
+				csvDownloadURLHref = "";
+				
+			}
+
+		} catch (UnsupportedEncodingException e) {
+			csvDownloadURLHref = "";
+		}
+		
+		
+		visualizationCode.append("var fullSparklineView = new google.visualization.DataView(data);\n" +
+								 "fullSparklineView.setColumns([1]);\n");
+		
+		visualizationCode.append("var full_spark = new google.visualization.ImageSparkLine(" +
+//												"document.getElementById('" + visDivNames.get("FULL_SPARK") + "')" +
+														"providedSparklineImgTD[0]" +
+								");\n" +
+								"full_spark.draw(fullSparklineView, " + sparklineDisplayOptions + ");\n");
+		
+		visualizationCode.append("$('#" + visDivNames.get("FULL_SPARK") + " td.sparkline_number').text('" + renderedFullSparks + "');");
+		
+		visualizationCode.append("var allSparksText = ''" +
+												 "+ ' papers with year from '" +
+												 "+ ' " + totalPublications + " '" +
+												 "+ ' total " +
+												"<span class=\"sparkline_range\">" +
+												"(" + minPubYearConsidered + " - " + currentYear + ")" +
+												"</span> '" +
+												"+ ' " + csvDownloadURLHref + " ';" +
+								"$('#" + visDivNames.get("FULL_SPARK") + " td.sparkline_text').html(allSparksText);");
+		
+		visualizationCode.append("}\n ");
+		
+		visualizationCode.append(generateVisualizationActivator(visDivNames.get("FULL_SPARK"), visContainerID));
+		
+	}
+	private String generateVisualizationActivator(String sparklineID, String visContainerID) {
+		
+		String sparklineTableWrapper = "\n" +
+				"var table = $('<table>');" +
+				"table.attr('class', 'sparkline_wrapper_table');" +
+				"var row = $('<tr>');" +
+				"sparklineImgTD = $('<td>');" +
+				"sparklineImgTD.attr('id', '" + sparklineID + "_img');" +
+				"sparklineImgTD.attr('width', '65');" +
+				"sparklineImgTD.attr('align', 'right');" +
+				"sparklineImgTD.attr('class', '" + visualizationStyleClass + "');" +
+				"row.append(sparklineImgTD);" +
+				"var sparklineNumberTD = $('<td>');" +
+				"sparklineNumberTD.attr('width', '36');" +
+				"sparklineNumberTD.attr('align', 'right');" +
+				"sparklineNumberTD.attr('class', 'sparkline_number');" +
+				"row.append(sparklineNumberTD);" +
+				"var sparklineTextTD = $('<td>');" +
+				"sparklineTextTD.attr('width', '350');" +
+				"sparklineTextTD.attr('class', 'sparkline_text');" +
+				"row.append(sparklineTextTD);" +
+				"table.append(row);" +
+				"table.prependTo('#" + sparklineID + "');\n";
+		
+		return "$(document).ready(function() {" +
+								
+								"var sparklineImgTD; " +
+								
+		
+								/*
+								 * This is a nuclear option (creating the container in which everything goes)
+								 * the only reason this will be ever used is the API user never submitted a 
+								 * container ID in which everything goes. The alternative was to let the 
+								 * vis not appear in the calling page at all. So now atleast vis appears but 
+								 * appended at the bottom of the body.
+								 * */
+								"if ($('#" + visContainerID + "').length === 0) {" +
+								"	$('<div/>', {'id': '" + visContainerID + "'" +
+								"     }).appendTo('body');" +
+								"}" +
+								
+								"if ($('#" + sparklineID + "').length === 0) {" +
+								
+								"$('<div/>', {'id': '" + sparklineID + "'," +
+											 "'class': '" + visualizationStyleClass + "'" +
+										"}).prependTo('#" + visContainerID + "');" +
+								
+								sparklineTableWrapper +
+										
+								"}" +
+								
+								"drawPubCountVisualization(sparklineImgTD);" +
+								"});" +
+								"</script>\n";
+	}
+
+	private String getVisualizationContextCode(String visMode) {
+
+		String visualizationContextCode = "";
+		if (SHORT_SPARKLINE_MODE_URL_HANDLE.equalsIgnoreCase(visMode)) {
+			visualizationContextCode = generateShortVisContext();
+		} else {
+			visualizationContextCode = generateFullVisContext();
+		}
+		
+		
+		
+		
+		
+
+//		System.out.println("+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++");
+		log.debug(visualizationContextCode);
+//		System.out.println("+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++");
+
+		return visualizationContextCode;
+	}
+	
+	private String generateFullVisContext() {
+		
+		StringBuilder divContextCode = new StringBuilder();
+		
+		String csvDownloadURLHref = ""; 
+		
+		if (yearToPublicationCount.size() > 0) {
+			
+			try {
+				if (getCSVDownloadURL() != null) {
+					
+					csvDownloadURLHref = "Download data as <a href='" + getCSVDownloadURL() + "'>.csv</a> file.<br />";
+					valueObjectContainer.setDownloadDataLink(getCSVDownloadURL());
+					
+				} else {
+					
+					csvDownloadURLHref = "";
+					
+				}
+
+			} catch (UnsupportedEncodingException e) {
+				csvDownloadURLHref = "";
+			}
+			
+			
+		} else {
+			csvDownloadURLHref = "No data available to export.<br />";
+		}
+		
+		String tableCode = generateDataTable();
+		
+		divContextCode.append("<p>" + tableCode +
+					csvDownloadURLHref + "</p>");
+		
+		valueObjectContainer.setTable(tableCode);
+		
+		return divContextCode.toString();
+		
+	}
+
+	private String getCSVDownloadURL()
+			throws UnsupportedEncodingException {
+		
+		if (yearToPublicationCount.size() > 0) {
+			
+			String secondaryContextPath = "";
+			if (!contextPath.contains("/admin/visQuery")) {
+				secondaryContextPath = "/admin/visQuery";
+			}
+			
+			
+		String downloadURL = contextPath
+							 + secondaryContextPath
+							 + "?" + VisualizationFrameworkConstants.INDIVIDUAL_URI_URL_HANDLE 
+							 + "=" + URLEncoder.encode(individualURIParam, 
+									 				   VisualizationController.URL_ENCODING_SCHEME).toString() 
+							 + "&" + VisualizationFrameworkConstants.VIS_TYPE_URL_HANDLE 
+							 + "=" + URLEncoder.encode(VisualizationController
+									 						.PERSON_PUBLICATION_COUNT_VIS_URL_VALUE, 
+									 				   VisualizationController.URL_ENCODING_SCHEME).toString() 
+							 + "&" + VisualizationFrameworkConstants.RENDER_MODE_URL_HANDLE 
+							 + "=" + URLEncoder.encode(VisualizationFrameworkConstants.DATA_RENDER_MODE_URL_VALUE, 
+					 				 				   VisualizationController.URL_ENCODING_SCHEME).toString();
+		System.out.println(" ----- >>>> " + contextPath + " XX " + individualURIParam + " XX " + downloadURL);
+			return downloadURL;
+		} else {
+			return null;
+		}
+		
+	}
+	
+	
+	private String generateShortVisContext() {
+
+		StringBuilder divContextCode = new StringBuilder();
+		
+		try {
+		
+		String fullTimelineLink;
+		if (yearToPublicationCount.size() > 0) {
+			
+			String secondaryContextPath = "";
+			if (!contextPath.contains("/admin/visQuery")) {
+				secondaryContextPath = "/admin/visQuery";
+			}
+			
+			String fullTimelineNetworkURL = contextPath
+							+ secondaryContextPath
+							+ "?" 
+							+ VisualizationFrameworkConstants.INDIVIDUAL_URI_URL_HANDLE 
+							+ "=" + URLEncoder.encode(individualURIParam, 
+					 				 VisualizationController.URL_ENCODING_SCHEME).toString()
+					 	    + "&"
+		 				    + VisualizationFrameworkConstants.VIS_TYPE_URL_HANDLE 
+							+ "=" + URLEncoder.encode("person_level", 
+					 				 VisualizationController.URL_ENCODING_SCHEME).toString()
+		 				    + "&"
+		 				    + VisualizationFrameworkConstants.RENDER_MODE_URL_HANDLE
+							+ "=" + URLEncoder.encode(VisualizationFrameworkConstants.STANDALONE_RENDER_MODE_URL_VALUE, 
+					 				 VisualizationController.URL_ENCODING_SCHEME).toString();
+			
+			System.out.println("context parth full n/w " + contextPath);
+			
+			fullTimelineLink = "<a href='" + fullTimelineNetworkURL + "'>View full timeline and co-author network</a><br />";
+			
+			valueObjectContainer.setFullTimelineNetworkLink(fullTimelineNetworkURL);
+			
+		} else {
+			
+			fullTimelineLink = "No data available to render full timeline.<br />";
+		
+		}
+		
+		divContextCode.append("<span class=\"vis_link\">" + fullTimelineLink + "</span>");
+		
+		} catch (UnsupportedEncodingException e) {
+		e.printStackTrace();
+		}
+		
+		return divContextCode.toString();
+		
+	}
+	
+	
+	private String generateDataTable() {
+		
+		String csvDownloadURLHref = ""; 
+		
+		try {
+			if (getCSVDownloadURL() != null) {
+				
+				csvDownloadURLHref = "<a href=\"" + getCSVDownloadURL() + "\">(.CSV File)</a>";
+				
+			} else {
+				
+				csvDownloadURLHref = "";
+				
+			}
+
+		} catch (UnsupportedEncodingException e) {
+			csvDownloadURLHref = "";
+		}
+		
+		StringBuilder dataTable = new StringBuilder();
+		
+		dataTable.append("<table id='sparkline_data_table'>" +
+								"<caption>Publications per year " + csvDownloadURLHref + "</caption>" +
+								"<thead>" +
+										"<tr>" +
+											"<th>Year</th>" +
+											"<th>Publications</th>" +
+										"</tr>" +
+								"</thead>" +
+								"<tbody>");
+		
+		for (Entry<String, Integer> currentEntry : yearToPublicationCount.entrySet()) {
+			dataTable.append("<tr>" +
+								"<td>" + currentEntry.getKey() + "</td>" +
+								"<td>" + currentEntry.getValue() + "</td>" +
+							"</tr>");
+		}
+										
+		dataTable.append("</tbody>\n" +
+						"</table>\n");
+		
+		
+		return dataTable.toString();
+	}
+	
+	
+	
+
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/personpubcount/VisualizationRequestHandler.java

@@ -0,0 +1,333 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.personpubcount;
+
+import java.io.ByteArrayOutputStream;
+import java.io.IOException;
+import java.io.PrintWriter;
+import java.util.HashSet;
+import java.util.List;
+import java.util.Map;
+import java.util.Set;
+import java.util.Map.Entry;
+
+import javax.servlet.RequestDispatcher;
+import javax.servlet.ServletException;
+import javax.servlet.ServletOutputStream;
+import javax.servlet.http.HttpServletRequest;
+import javax.servlet.http.HttpServletResponse;
+
+import org.apache.commons.logging.Log;
+import org.skife.csv.CSVWriter;
+import org.skife.csv.SimpleWriter;
+
+import com.hp.hpl.jena.query.DataSource;
+import com.itextpdf.text.Document;
+import com.itextpdf.text.DocumentException;
+import com.itextpdf.text.pdf.PdfWriter;
+
+import edu.cornell.mannlib.vitro.webapp.beans.Portal;
+import edu.cornell.mannlib.vitro.webapp.controller.Controllers;
+import edu.cornell.mannlib.vitro.webapp.controller.VitroRequest;
+import edu.cornell.mannlib.vitro.webapp.controller.visualization.VisualizationFrameworkConstants;
+import edu.cornell.mannlib.vitro.webapp.visualization.PDFDocument;
+import edu.cornell.mannlib.vitro.webapp.visualization.constants.VOConstants;
+import edu.cornell.mannlib.vitro.webapp.visualization.constants.VisConstants;
+import edu.cornell.mannlib.vitro.webapp.visualization.exceptions.MalformedQueryParametersException;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.BiboDocument;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.Individual;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.SparklineVOContainer;
+import edu.cornell.mannlib.vitro.webapp.visualization.visutils.UtilityFunctions;
+
+public class VisualizationRequestHandler {
+	
+	private VitroRequest vitroRequest;
+	private HttpServletRequest request;
+	private HttpServletResponse response;
+	private Log log;
+
+
+	
+	public VisualizationRequestHandler(VitroRequest vitroRequest,
+			HttpServletRequest request, HttpServletResponse response, Log log) {
+
+		this.vitroRequest = vitroRequest;
+		this.request = request;
+		this.response = response;
+		this.log = log;
+
+	}
+
+	public void generateVisualization(DataSource dataSource) {
+
+		String resultFormatParam = "RS_TEXT";
+        String rdfResultFormatParam = "RDF/XML-ABBREV";
+
+        String individualURIParam = vitroRequest.getParameter(VisualizationFrameworkConstants.INDIVIDUAL_URI_URL_HANDLE);
+
+        String renderMode = vitroRequest.getParameter(VisualizationFrameworkConstants.RENDER_MODE_URL_HANDLE);
+        
+        String visMode = vitroRequest.getParameter(VisualizationFrameworkConstants.VIS_MODE_URL_HANDLE);
+
+        String visContainer = vitroRequest.getParameter(VisualizationFrameworkConstants.VIS_CONTAINER_URL_HANDLE);
+
+        QueryHandler queryManager =
+        	new QueryHandler(individualURIParam,
+        										   resultFormatParam,
+        										   rdfResultFormatParam,
+        										   dataSource,
+        										   log);
+
+		try {
+			List<BiboDocument> authorDocuments = queryManager.getVisualizationJavaValueObjects();
+
+	    	/*
+	    	 * Create a map from the year to number of publications. Use the BiboDocument's
+	    	 * parsedPublicationYear to populate the data.
+	    	 * */
+	    	Map<String, Integer> yearToPublicationCount =
+	    		queryManager.getYearToPublicationCount(authorDocuments);
+	    	
+	    	/*
+	    	 * In order to avoid unneeded computations we have pushed this "if" condition up.
+	    	 * This case arises when the render mode is data. In that case we dont want to generate 
+	    	 * HTML code to render sparkline, tables etc. Ideally I would want to avoid this flow.
+	    	 * It is ugly! 
+	    	 * */
+	    	if (VisualizationFrameworkConstants.DATA_RENDER_MODE_URL_VALUE.equalsIgnoreCase(renderMode)) { 
+				prepareVisualizationQueryDataResponse(queryManager.getAuthor(),
+													  authorDocuments,
+													  yearToPublicationCount);
+				return;
+			}
+	    	
+	    	
+	    	if (VisualizationFrameworkConstants.PDF_RENDER_MODE_URL_VALUE.equalsIgnoreCase(renderMode)) { 
+				prepareVisualizationQueryPDFResponse(queryManager.getAuthor(),
+													 authorDocuments,
+													 yearToPublicationCount);
+				return;
+			}
+	    	
+	    	/*
+	    	 * Computations required to generate HTML for the sparklines & related context.
+	    	 * */
+	    	
+	    	SparklineVOContainer valueObjectContainer = new SparklineVOContainer();
+
+	    	VisualizationCodeGenerator visualizationCodeGenerator = 
+	    		new VisualizationCodeGenerator(vitroRequest.getContextPath(),
+	    									   individualURIParam,
+	    									   visMode,
+	    									   visContainer,
+	    									   authorDocuments,
+	    									   yearToPublicationCount, 
+	    									   valueObjectContainer, 
+	    									   log);
+	    	
+	    	
+	    	/*
+	    	 * This is side-effecting because the response of this method is just to redirect to
+	    	 * a page with visualization on it.
+	    	 * */
+			RequestDispatcher requestDispatcher = null;
+
+			if (VisualizationFrameworkConstants.DYNAMIC_RENDER_MODE_URL_VALUE.equalsIgnoreCase(renderMode)) {
+
+				prepareVisualizationQueryDynamicResponse(request, response, vitroRequest,
+						valueObjectContainer);
+		    	requestDispatcher = request.getRequestDispatcher("/templates/page/blankPage.jsp");
+
+			} else {
+		    	prepareVisualizationQueryStandaloneResponse(request, response, vitroRequest,
+		    			valueObjectContainer);
+
+		    	requestDispatcher = request.getRequestDispatcher(Controllers.BASIC_JSP);
+			}
+
+	    	try {
+	            requestDispatcher.forward(request, response);
+	        } catch (Exception e) {
+	            log.error("EntityEditController could not forward to view.");
+	            log.error(e.getMessage());
+	            log.error(e.getStackTrace());
+	        }
+
+		} catch (MalformedQueryParametersException e) {
+			try {
+				handleMalformedParameters(e.getMessage());
+			} catch (ServletException e1) {
+				log.error(e1.getStackTrace());
+			} catch (IOException e1) {
+				log.error(e1.getStackTrace());
+			}
+			return;
+		}
+
+	}
+
+	private void prepareVisualizationQueryPDFResponse(Individual author, List<BiboDocument> authorDocuments,
+													   Map<String, Integer> yearToPublicationCount) {
+		
+		String authorName = null; 
+		
+		/*
+		 * To protect against cases where there are no author documents associated with the
+		 * individual. 
+		 * */
+		if (authorDocuments.size() > 0) {
+			authorName = author.getIndividualLabel();
+		}
+		
+		/*
+		 * To make sure that null/empty records for author names do not cause any mischief.
+		 * */
+		if (authorName == null) {
+			authorName = "";
+		}
+		
+		String outputFileName = UtilityFunctions.slugify(authorName) + "report" + ".pdf";
+		
+		response.setContentType("application/pdf");
+		response.setHeader("Content-Disposition", "attachment;filename=" + outputFileName);
+ 
+			ServletOutputStream responseOutputStream;
+			try {
+				responseOutputStream = response.getOutputStream();
+				
+				
+				Document document = new Document();
+				ByteArrayOutputStream baos = new ByteArrayOutputStream();
+				PdfWriter pdfWriter = PdfWriter.getInstance(document, baos);
+				document.open();
+				
+				PDFDocument pdfDocument = new PDFDocument(authorName, yearToPublicationCount, document, pdfWriter);
+				
+				document.close();
+
+				// setting some response headers & content type
+				response.setHeader("Expires", "0");
+				response.setHeader("Cache-Control", "must-revalidate, post-check=0, pre-check=0");
+				response.setHeader("Pragma", "public");
+				response.setContentLength(baos.size());
+				// write ByteArrayOutputStream to the ServletOutputStream
+				baos.writeTo(responseOutputStream);
+				responseOutputStream.flush();
+				responseOutputStream.close();
+				
+			} catch (IOException e) {
+				e.printStackTrace();
+			} catch (DocumentException e) {
+				e.printStackTrace();
+			}
+	}
+
+	private void prepareVisualizationQueryDataResponse(Individual author, List<BiboDocument> authorDocuments,
+			   Map<String, Integer> yearToPublicationCount) {
+
+		String authorName = null; 
+		
+		/*
+		* To protect against cases where there are no author documents associated with the
+		* individual. 
+		* */
+		if (authorDocuments.size() > 0) {
+		authorName = author.getIndividualLabel();
+		}
+		
+		/*
+		* To make sure that null/empty records for author names do not cause any mischief.
+		* */
+		if (authorName == null) {
+		authorName = "";
+		}
+		
+		String outputFileName = UtilityFunctions.slugify(authorName) + "pub-count-sparkline" + ".csv";
+		
+		response.setContentType("application/octet-stream");
+		response.setHeader("Content-Disposition","attachment;filename=" + outputFileName);
+		
+		try {
+			
+		PrintWriter responseWriter = response.getWriter();
+		
+		/*
+		 * We are side-effecting responseWriter since we are directly manipulating the response 
+		 * object of the servlet.
+		 * */
+		generateCsvFileBuffer(yearToPublicationCount, 
+							  responseWriter);
+
+		responseWriter.close();		
+		
+		} catch (IOException e) {
+		e.printStackTrace();
+		}
+	}
+	
+	private void generateCsvFileBuffer(Map<String, Integer> yearToPublicationCount, 
+											   PrintWriter responseWriter) {
+		
+        CSVWriter csvWriter = new SimpleWriter(responseWriter);
+        
+        try {
+			csvWriter.append(new String[]{"Year", "Publications"});
+			for (Entry<String, Integer> currentEntry : yearToPublicationCount.entrySet()) {
+				csvWriter.append(new Object[]{currentEntry.getKey(), currentEntry.getValue()});
+			}
+	        
+		} catch (IOException e) {
+			e.printStackTrace();
+		}
+		
+		responseWriter.flush();
+
+	}
+
+	private void prepareVisualizationQueryStandaloneResponse(HttpServletRequest request,
+			HttpServletResponse response, VitroRequest vreq,
+			SparklineVOContainer valueObjectContainer) {
+
+        Portal portal = vreq.getPortal();
+
+        request.setAttribute("sparklineVO", valueObjectContainer);
+
+        request.setAttribute("bodyJsp", "/templates/visualization/publication_count.jsp");
+        request.setAttribute("portalBean", portal);
+        request.setAttribute("title", "Individual Publication Count visualization");
+        request.setAttribute("scripts", "/templates/visualization/visualization_scripts.jsp");
+
+	}
+
+	private void prepareVisualizationQueryDynamicResponse(HttpServletRequest request,
+			HttpServletResponse response, VitroRequest vreq, SparklineVOContainer valueObjectContainer) {
+
+        Portal portal = vreq.getPortal();
+
+        request.setAttribute("sparklineVO", valueObjectContainer);
+
+        request.setAttribute("portalBean", portal);
+        request.setAttribute("bodyJsp", "/templates/visualization/ajax_vis_content.jsp");
+
+	}
+
+	private void handleMalformedParameters(String errorMessage)
+			throws ServletException, IOException {
+
+		Portal portal = vitroRequest.getPortal();
+
+		request.setAttribute("error", errorMessage);
+
+		RequestDispatcher requestDispatcher = request.getRequestDispatcher(Controllers.BASIC_JSP);
+		request.setAttribute("bodyJsp", "/templates/visualization/visualization_error.jsp");
+		request.setAttribute("portalBean", portal);
+		request.setAttribute("title", "Visualization Query Error - Individual Publication Count");
+
+		try {
+			requestDispatcher.forward(request, response);
+		} catch (Exception e) {
+			log.error("EntityEditController could not forward to view.");
+			log.error(e.getMessage());
+			log.error(e.getStackTrace());
+		}
+	}
+
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/utilities/VisualizationRequestHandler.java

@@ -0,0 +1,268 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.utilities;
+
+import java.io.File;
+import java.io.IOException;
+import java.io.PrintWriter;
+import java.io.UnsupportedEncodingException;
+import java.net.URLEncoder;
+import java.util.Set;
+
+import javax.servlet.RequestDispatcher;
+import javax.servlet.ServletException;
+import javax.servlet.http.HttpServletRequest;
+import javax.servlet.http.HttpServletResponse;
+
+import org.apache.commons.logging.Log;
+
+import com.google.gson.Gson;
+import com.hp.hpl.jena.query.DataSource;
+
+import edu.cornell.mannlib.vitro.webapp.beans.Portal;
+import edu.cornell.mannlib.vitro.webapp.controller.Controllers;
+import edu.cornell.mannlib.vitro.webapp.controller.VitroRequest;
+import edu.cornell.mannlib.vitro.webapp.controller.visualization.VisualizationController;
+import edu.cornell.mannlib.vitro.webapp.controller.visualization.VisualizationFrameworkConstants;
+import edu.cornell.mannlib.vitro.webapp.visualization.constants.QueryConstants;
+import edu.cornell.mannlib.vitro.webapp.visualization.exceptions.MalformedQueryParametersException;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.GenericQueryMap;
+import edu.cornell.mannlib.vitro.webapp.visualization.visutils.GenericQueryHandler;
+
+public class VisualizationRequestHandler {
+	
+	private VitroRequest vitroRequest;
+	private HttpServletRequest request;
+	private HttpServletResponse response;
+	private Log log;
+
+
+	
+	public VisualizationRequestHandler(VitroRequest vitroRequest,
+			HttpServletRequest request, HttpServletResponse response, Log log) {
+
+		this.vitroRequest = vitroRequest;
+		this.request = request;
+		this.response = response;
+		this.log = log;
+
+	}
+
+	public void generateVisualization(DataSource dataSource) {
+
+        String individualURIParam = vitroRequest.getParameter(VisualizationFrameworkConstants.INDIVIDUAL_URI_URL_HANDLE);
+
+        String visMode = vitroRequest.getParameter(VisualizationFrameworkConstants.VIS_MODE_URL_HANDLE);
+        
+        String profileInfoMode = "PROFILE_INFO";
+        String profileVisMode = "PROFILE_URL";
+        String coAuthorVisMode = "COAUTHORSHIP_URL";
+        String personLevelVisMode = "PERSON_LEVEL_URL";
+        String imageVisMode = "IMAGE_URL";
+        
+		String resultFormatParam = "RS_TEXT";
+        String rdfResultFormatParam = "RDF/XML-ABBREV";
+
+        String preparedURL = "";
+
+        try {
+        
+            /*
+    		 * If the info being requested is about a profile which includes the name, moniker
+    		 * & image url.
+    		 * */
+    		if (profileInfoMode.equalsIgnoreCase(visMode)) {
+    			
+    			
+    			String filterRule = "?predicate = vitro:imageThumb || ?predicate = vitro:moniker  || ?predicate = rdfs:label";
+    			GenericQueryHandler imageQueryHandler = new GenericQueryHandler(individualURIParam, 
+    																			filterRule, 
+    																			resultFormatParam, 
+    																			rdfResultFormatParam, 
+    																			dataSource, 
+    																			log);
+    			
+    			try {
+    				
+    				GenericQueryMap profilePropertiesToValues = imageQueryHandler.getJavaValueObjects();
+    				
+    				profilePropertiesToValues.addEntry("imageContextPath", request.getContextPath() + "/images/");
+    				
+    				Gson profileInformation = new Gson();
+    				
+    				prepareVisualizationQueryResponse(profileInformation.toJson(profilePropertiesToValues));
+    				
+    				return;
+    				
+    				
+    			} catch (MalformedQueryParametersException e) {
+    				try {
+    					handleMalformedParameters(e.getMessage());
+    				} catch (ServletException e1) {
+    					log.error(e1.getStackTrace());
+    				} catch (IOException e1) {
+    					log.error(e1.getStackTrace());
+    				}
+    				return;
+    			}
+    			
+    			
+    		} else if (imageVisMode.equalsIgnoreCase(visMode)) {
+    			/*
+        		 * If the url being requested is about a standalone image, which is used when we want
+        		 * to render an image & other info for a co-author OR ego for that matter.
+        		 * */
+    			
+    			
+    			String filterRule = "?predicate = vitro:imageThumb";
+    			GenericQueryHandler imageQueryHandler = new GenericQueryHandler(individualURIParam, 
+    																			filterRule, 
+    																			resultFormatParam, 
+    																			rdfResultFormatParam, 
+    																			dataSource, 
+    																			log);
+    			
+    			try {
+    				
+    				GenericQueryMap imagePropertyToValues = imageQueryHandler.getJavaValueObjects();
+    				
+    				String imagePath = "";
+
+    				if (imagePropertyToValues.size() > 0) {
+    					
+    					String vitroSparqlNamespace = QueryConstants.PREFIX_TO_NAMESPACE.get("vitro"); 
+    					String imageThumbProperty = vitroSparqlNamespace + "imageThumb";
+    					
+    					Set<String> personImageThumbPaths = imagePropertyToValues.get(imageThumbProperty);
+    					
+    					/*
+    					 * Although we know that there can be only one imagePath we are restricted by Java's
+    					 * expression power.
+    					 * */
+    					for (String providedImagePath : personImageThumbPaths) {
+    						imagePath = request.getContextPath() + "/images/" + providedImagePath;
+    					}
+    				} 
+    				
+    				prepareVisualizationQueryResponse(imagePath);
+    				return;
+    				
+    				
+    			} catch (MalformedQueryParametersException e) {
+    				try {
+    					handleMalformedParameters(e.getMessage());
+    				} catch (ServletException e1) {
+    					log.error(e1.getStackTrace());
+    				} catch (IOException e1) {
+    					log.error(e1.getStackTrace());
+    				}
+    				return;
+    			}
+    			
+    			
+    		} else if (coAuthorVisMode.equalsIgnoreCase(visMode)) {
+    	    	/*
+    	    	 * By default we will be generating profile url else some specific url like coAuthorShip vis 
+    	    	 * url for that individual.
+    	    	 * */
+				
+				preparedURL += request.getContextPath()
+								+ "/admin/visQuery"
+								+ "?" 
+								+ VisualizationFrameworkConstants.INDIVIDUAL_URI_URL_HANDLE 
+								+ "=" + URLEncoder.encode(individualURIParam, 
+						 				 VisualizationController.URL_ENCODING_SCHEME).toString()
+						 	    + "&"
+			 				    + VisualizationFrameworkConstants.VIS_TYPE_URL_HANDLE 
+								+ "=" + URLEncoder.encode("coauthorship", 
+						 				 VisualizationController.URL_ENCODING_SCHEME).toString()
+			 				    + "&"
+			 				    + VisualizationFrameworkConstants.RENDER_MODE_URL_HANDLE
+								+ "=" + URLEncoder.encode(VisualizationFrameworkConstants.STANDALONE_RENDER_MODE_URL_VALUE, 
+						 				 VisualizationController.URL_ENCODING_SCHEME).toString();
+				
+
+				prepareVisualizationQueryResponse(preparedURL);
+				return;
+
+			} else if (personLevelVisMode.equalsIgnoreCase(visMode)) {
+    	    	/*
+    	    	 * By default we will be generating profile url else some specific url like coAuthorShip vis 
+    	    	 * url for that individual.
+    	    	 * */
+				
+				preparedURL += request.getContextPath()
+								+ "/admin/visQuery"
+								+ "?" 
+								+ VisualizationFrameworkConstants.INDIVIDUAL_URI_URL_HANDLE 
+								+ "=" + URLEncoder.encode(individualURIParam, 
+						 				 VisualizationController.URL_ENCODING_SCHEME).toString()
+						 	    + "&"
+			 				    + VisualizationFrameworkConstants.VIS_TYPE_URL_HANDLE 
+								+ "=" + URLEncoder.encode("person_level", 
+						 				 VisualizationController.URL_ENCODING_SCHEME).toString()
+			 				    + "&"
+			 				    + VisualizationFrameworkConstants.RENDER_MODE_URL_HANDLE
+								+ "=" + URLEncoder.encode(VisualizationFrameworkConstants.STANDALONE_RENDER_MODE_URL_VALUE, 
+						 				 VisualizationController.URL_ENCODING_SCHEME).toString();
+				
+				prepareVisualizationQueryResponse(preparedURL);
+				return;
+
+			} else {
+				
+				preparedURL += request.getContextPath()
+								+ "/individual"
+								+ "?" 
+								+ VisualizationFrameworkConstants.INDIVIDUAL_URI_URL_HANDLE 
+								+ "=" + URLEncoder.encode(individualURIParam, 
+										 VisualizationController.URL_ENCODING_SCHEME).toString();
+				
+				prepareVisualizationQueryResponse(preparedURL);
+				return;
+	
+			}
+			
+        } catch (UnsupportedEncodingException e) {
+			log.error(e.getLocalizedMessage());
+		}
+
+	}
+
+	private void prepareVisualizationQueryResponse(String preparedURL) {
+
+		response.setContentType("text/plain");
+		
+		try {
+		
+		PrintWriter responseWriter = response.getWriter();
+		
+		responseWriter.append(preparedURL);
+		
+		responseWriter.close();
+		
+		} catch (IOException e) {
+			e.printStackTrace();
+		}
+	}
+	
+	private void handleMalformedParameters(String errorMessage)
+		throws ServletException, IOException {
+	
+		Portal portal = vitroRequest.getPortal();
+		
+		request.setAttribute("error", errorMessage);
+		
+		RequestDispatcher requestDispatcher = request.getRequestDispatcher(Controllers.BASIC_JSP);
+		request.setAttribute("bodyJsp", "/templates/visualization/visualization_error.jsp");
+		request.setAttribute("portalBean", portal);
+		request.setAttribute("title", "Visualization Query Error - Individual Publication Count");
+		
+		try {
+			requestDispatcher.forward(request, response);
+		} catch (Exception e) {
+			log.error("EntityEditController could not forward to view.");
+			log.error(e.getMessage());
+			log.error(e.getStackTrace());
+		}
+	}
+	
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/valueobjects/BiboDocument.java

@@ -0,0 +1,120 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.valueobjects;
+
+import java.util.Calendar;
+import java.util.regex.Matcher;
+import java.util.regex.Pattern;
+
+import edu.cornell.mannlib.vitro.webapp.visualization.constants.VOConstants;
+
+public class BiboDocument extends Individual{
+
+	public static final int MINIMUM_PUBLICATION_YEAR = 1800;
+	private static final int CURRENT_YEAR = Calendar.getInstance().get(Calendar.YEAR);
+
+	private String documentMoniker;
+	private String documentBlurb;
+	private String documentDescription;
+	private String publicationYear;
+	private String parsedPublicationYear = VOConstants.DEFAULT_PUBLICATION_YEAR;
+
+	public BiboDocument(String documentURL) {
+		super(documentURL);
+	}
+	
+	public String getDocumentURL() {
+		return this.getIndividualURL();
+	}
+	
+	public String getDocumentMoniker() {
+		return documentMoniker;
+	}
+	
+	public void setDocumentMoniker(String documentMoniker) {
+		this.documentMoniker = documentMoniker;
+	}
+	
+	public String getDocumentLabel() {
+		return this.getIndividualLabel();
+	}
+	
+	public void setDocumentLabel(String documentLabel) {
+		this.setIndividualLabel(documentLabel);
+	}
+	
+	public String getDocumentBlurb() {
+		return documentBlurb;
+	}
+	
+	public void setDocumentBlurb(String documentBlurb) {
+		this.documentBlurb = documentBlurb;
+
+		if (documentBlurb != null) {
+			this.setParsedPublicationYear(parsePublicationYear(documentBlurb));
+		}
+	}
+	
+	private String parsePublicationYear(String documentBlurb) {
+
+		/*
+		 * This pattern will match all group of numbers which have only 4 digits
+		 * delimited by the word boundary.
+		 * */
+//		String pattern = "\\b\\d{4}\\b";
+		String pattern = "(?<!-)\\b\\d{4}\\b(?=[^-])";
+		
+		Pattern yearPattern = Pattern.compile(pattern);
+		String publishedYear = VOConstants.DEFAULT_PUBLICATION_YEAR;
+
+		Matcher yearMatcher = yearPattern.matcher(documentBlurb);
+
+		while (yearMatcher.find()) {
+
+            String yearCandidate = yearMatcher.group();
+
+            Integer candidateYearInteger = Integer.valueOf(yearCandidate);
+
+            /*
+             * Published year has to be equal or less than the current year
+             * and more than a minimum default year.
+             * */
+			if (candidateYearInteger <= CURRENT_YEAR
+					&& candidateYearInteger >= MINIMUM_PUBLICATION_YEAR) {
+            	publishedYear = candidateYearInteger.toString();
+            }
+
+		}
+
+		return publishedYear;
+	}
+
+	public String getDocumentDescription() {
+		return documentDescription;
+	}
+	public void setDocumentDescription(String documentDescription) {
+		this.documentDescription = documentDescription;
+	}
+
+	/*
+	 * Only the
+	 * */
+	private void setParsedPublicationYear(String parsedPublicationYear) {
+		this.parsedPublicationYear = parsedPublicationYear;
+	}
+	
+	public String getParsedPublicationYear() {
+		return parsedPublicationYear;
+	}
+
+	/*
+	 * This publicationYear value is directly from the data supported by the ontology. If this is empty only 
+	 * then use the parsedPublicationYear.
+	 * */
+	public String getPublicationYear() {
+		return publicationYear;
+	}
+
+	public void setPublicationYear(String publicationYear) {
+		this.publicationYear = publicationYear;
+	}
+
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/valueobjects/Edge.java

@@ -0,0 +1,147 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.valueobjects;
+
+import java.util.Collections;
+import java.util.HashMap;
+import java.util.HashSet;
+import java.util.Map;
+import java.util.Set;
+
+import edu.cornell.mannlib.vitro.webapp.visualization.constants.VOConstants;
+import edu.cornell.mannlib.vitro.webapp.visualization.visutils.UniqueIDGenerator;
+import edu.cornell.mannlib.vitro.webapp.visualization.visutils.UtilityFunctions;
+
+/**
+ * 
+ * This is the Value Object for storing edge information mainly for co-author vis.
+ * @author cdtank
+ *
+ */
+public class Edge {
+
+	private int edgeID;
+	private Map<String, Integer> yearToPublicationCount;
+	private Set<BiboDocument> collaboratorDocuments = new HashSet<BiboDocument>();
+	private Node sourceNode;
+	private Node targetNode;
+
+	public Edge(Node sourceNode, Node  targetNode, BiboDocument seedCoAuthoredDocument, 
+				UniqueIDGenerator uniqueIDGenerator) {
+		edgeID = uniqueIDGenerator.getNextNumericID();
+		this.sourceNode = sourceNode;
+		this.targetNode = targetNode;
+		this.collaboratorDocuments.add(seedCoAuthoredDocument);
+	}
+
+	public int getEdgeID() {
+		return edgeID;
+	}
+	
+	public Node getSourceNode() {
+		return sourceNode;
+	}
+
+	public Node getTargetNode() {
+		return targetNode;
+	}
+	
+	public Set<BiboDocument> getCollaboratorDocuments() {
+		return collaboratorDocuments;
+	}
+	
+	public int getNumOfCoAuthoredWorks() {
+		return collaboratorDocuments.size();
+	}
+
+	public void addCollaboratorDocument(BiboDocument authorDocument) {
+		this.collaboratorDocuments.add(authorDocument);
+	}
+	
+	/*
+	 * getEarliest, Latest & Unknown Publication YearCount should only be used after 
+	 * the parsing of the entire sparql is done. Else it will give results based on
+	 * incomplete dataset.
+	 * */
+	@SuppressWarnings("serial")
+	public Map<String, Integer> getEarliestCollaborationYearCount() {
+		if (yearToPublicationCount == null) {
+			yearToPublicationCount = UtilityFunctions.getYearToPublicationCount(collaboratorDocuments);
+		}
+		
+		/*
+		 * We do not want to consider the default publication year when we are checking 
+		 * for the min or max publication year. 
+		 * */
+		Set<String> yearsToBeConsidered = new HashSet<String>(yearToPublicationCount.keySet());
+		yearsToBeConsidered.remove(VOConstants.DEFAULT_PUBLICATION_YEAR);
+		
+		/*
+		 * There can be a case when the only publication the author has no attached year to it
+		 * so essentially an "Unknown". In that case Collections.max or min will throw an 
+		 * NoSuchElementException.
+		 * 
+		 * If there is no maximum year available then we should imply so by returning a "null".
+		 * */
+		if (yearsToBeConsidered.size() > 0) {
+			final String earliestYear = Collections.min(yearsToBeConsidered);
+			final Integer earliestYearPubCount = yearToPublicationCount.get(earliestYear);
+			
+			return new HashMap<String, Integer>(){{
+				put(earliestYear, earliestYearPubCount);
+			}};
+		} else {
+			return null;
+		}
+	}
+
+	@SuppressWarnings("serial")
+	public Map<String, Integer> getLatestCollaborationYearCount() {
+		if (yearToPublicationCount == null) {
+			yearToPublicationCount = UtilityFunctions.getYearToPublicationCount(collaboratorDocuments);
+		}
+		
+		/*
+		 * We do not want to consider the default publication year when we are checking 
+		 * for the min or max publication year. 
+		 * */
+		Set<String> yearsToBeConsidered = new HashSet<String>(yearToPublicationCount.keySet());
+		yearsToBeConsidered.remove(VOConstants.DEFAULT_PUBLICATION_YEAR);
+		
+		/*
+		 * There can be a case when the only publication the author has no attached year to it
+		 * so essentially an "Unknown". In that case Collections.max or min will throw an 
+		 * NoSuchElementException.
+		 * 
+		 * If there is no maximum year available then we should imply so by returning a "null".
+		 * */
+		if (yearsToBeConsidered.size() > 0) {
+			final String latestYear = Collections.max(yearsToBeConsidered);
+			final Integer latestYearPubCount = yearToPublicationCount.get(latestYear);
+			
+			return new HashMap<String, Integer>(){{
+				put(latestYear, latestYearPubCount);
+			}};
+		} else {
+			return null;
+		}
+	}
+	
+	@SuppressWarnings("serial")
+	public Integer getUnknownCollaborationYearCount() {
+		if (yearToPublicationCount == null) {
+			yearToPublicationCount = UtilityFunctions.getYearToPublicationCount(collaboratorDocuments);
+		}
+		
+		Integer unknownYearPubCount = yearToPublicationCount.get(VOConstants.DEFAULT_PUBLICATION_YEAR);
+		
+		/*
+		 * If there is no unknown year available then we should imply so by returning a "null".
+		 * */
+		if (unknownYearPubCount != null) {
+			return unknownYearPubCount;
+		} else {
+			return null;
+		}
+	}
+	
+
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/valueobjects/GenericQueryMap.java

@@ -0,0 +1,39 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.valueobjects;
+
+import java.util.HashMap;
+import java.util.HashSet;
+import java.util.Set;
+
+/**
+ * Right now this is just acting as a hashmap but in future we would want to provide
+ * more detailed info other than just what properties had what values. E.g. we
+ * could parse properties (& its values) to look for what namespaces are used. 
+ * @author cdtank
+ *
+ */
+@SuppressWarnings("serial")
+public class GenericQueryMap extends HashMap<String, Set<String>> {
+
+	public GenericQueryMap() {
+		super();
+	}
+	
+	public void addEntry(String property, String value) {
+		
+		Set<String> values;
+		
+		if (this.containsKey(property)) {
+			
+			values = this.get(property);
+			values.add(value);
+			
+		} else {
+			
+			values = new HashSet<String>();
+			values.add(value);
+			this.put(property, values);
+			
+		}
+	}
+
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/valueobjects/Individual.java

@@ -0,0 +1,30 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.valueobjects;
+
+public class Individual {
+	
+	private String individualLabel;
+	private String individualURL;
+	
+	public Individual(String individualURL, String individualLabel) {
+		this.individualURL = individualURL;
+		this.individualLabel = individualLabel;
+	}
+	
+	public Individual(String individualURL) {
+		this(individualURL, "");
+	}
+	
+	public String getIndividualLabel() {
+		return individualLabel;
+	}
+	
+	public void setIndividualLabel(String individualLabel) {
+		this.individualLabel = individualLabel;
+	}
+
+	public String getIndividualURL() {
+		return individualURL;
+	}
+	
+
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/valueobjects/Node.java

@@ -0,0 +1,155 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.valueobjects;
+
+import java.util.Collections;
+import java.util.HashMap;
+import java.util.HashSet;
+import java.util.Map;
+import java.util.Set;
+
+import edu.cornell.mannlib.vitro.webapp.visualization.constants.VOConstants;
+import edu.cornell.mannlib.vitro.webapp.visualization.visutils.UniqueIDGenerator;
+import edu.cornell.mannlib.vitro.webapp.visualization.visutils.UtilityFunctions;
+
+/**
+ * 
+ * This is the Value Object for storing node information mainly for co-author vis.
+ * @author cdtank
+ *
+ */
+public class Node extends Individual {
+
+	private int nodeID;
+	private Map<String, Integer> yearToPublicationCount;
+
+	private Set<BiboDocument> authorDocuments = new HashSet<BiboDocument>();
+
+	public Node(String nodeURL,
+				UniqueIDGenerator uniqueIDGenerator) {
+		super(nodeURL);
+		nodeID = uniqueIDGenerator.getNextNumericID();
+	}
+
+	public int getNodeID() {
+		return nodeID;
+	}
+	
+	public String getNodeURL() {
+		return this.getIndividualURL();
+	}
+
+	public String getNodeName() {
+		return this.getIndividualLabel();
+	}
+	
+	public void setNodeName(String nodeName) {
+		this.setIndividualLabel(nodeName);
+	}
+	
+	public Set<BiboDocument> getAuthorDocuments() {
+		return authorDocuments;
+	}
+	
+	public int getNumOfAuthoredWorks() {
+		return authorDocuments.size();
+	}
+
+	public void addAuthorDocument(BiboDocument authorDocument) {
+		this.authorDocuments.add(authorDocument);
+	}
+	
+	
+	public Map<String, Integer> getYearToPublicationCount() {
+		if (yearToPublicationCount == null) {
+			yearToPublicationCount = UtilityFunctions.getYearToPublicationCount(authorDocuments);
+		}
+		return yearToPublicationCount;
+	}
+	/*
+	 * getEarliest, Latest & Unknown Publication YearCount should only be used after 
+	 * the parsing of the entire sparql is done. Else it will give results based on
+	 * incomplete dataset.
+	 * */
+	@SuppressWarnings("serial")
+	public Map<String, Integer> getEarliestPublicationYearCount() {
+		if (yearToPublicationCount == null) {
+			yearToPublicationCount = UtilityFunctions.getYearToPublicationCount(authorDocuments);
+		}
+		
+		/*
+		 * We do not want to consider the default publication year when we are checking 
+		 * for the min or max publication year. 
+		 * */
+		Set<String> yearsToBeConsidered = new HashSet<String>(yearToPublicationCount.keySet());
+		yearsToBeConsidered.remove(VOConstants.DEFAULT_PUBLICATION_YEAR);
+		
+		/*
+		 * There can be a case when the only publication the author has no attached year to it
+		 * so essentially an "Unknown". In that case Collections.max or min will throw an 
+		 * NoSuchElementException.
+		 * 
+		 * If there is no maximum year available then we should imply so by returning a "null".
+		 * */
+		if (yearsToBeConsidered.size() > 0) {
+			final String earliestYear = Collections.min(yearsToBeConsidered);
+			final Integer earliestYearPubCount = yearToPublicationCount.get(earliestYear);
+			
+			return new HashMap<String, Integer>(){{
+				put(earliestYear, earliestYearPubCount);
+			}};
+		} else {
+			return null;
+		}
+	}
+
+	@SuppressWarnings("serial")
+	public Map<String, Integer> getLatestPublicationYearCount() {
+		if (yearToPublicationCount == null) {
+			yearToPublicationCount = UtilityFunctions.getYearToPublicationCount(authorDocuments);
+		}
+		
+		/*
+		 * We do not want to consider the default publication year when we are checking 
+		 * for the min or max publication year. 
+		 * */
+		Set<String> yearsToBeConsidered = new HashSet<String>(yearToPublicationCount.keySet());
+		yearsToBeConsidered.remove(VOConstants.DEFAULT_PUBLICATION_YEAR);
+		
+		/*
+		 * There can be a case when the only publication the author has no attached year to it
+		 * so essentially an "Unknown". In that case Collections.max or min will throw an 
+		 * NoSuchElementException.
+		 * 
+		 * If there is no maximum year available then we should imply so by returning a "null".
+		 * */
+		if (yearsToBeConsidered.size() > 0) {
+			final String latestYear = Collections.max(yearsToBeConsidered);
+			final Integer latestYearPubCount = yearToPublicationCount.get(latestYear);
+			
+			return new HashMap<String, Integer>(){{
+				put(latestYear, latestYearPubCount);
+			}};
+		} else {
+			return null;
+		}
+		
+	}
+	
+	public Integer getUnknownPublicationYearCount() {
+		if (yearToPublicationCount == null) {
+			yearToPublicationCount = UtilityFunctions.getYearToPublicationCount(authorDocuments);
+		}
+		
+		Integer unknownYearPubCount = yearToPublicationCount.get(VOConstants.DEFAULT_PUBLICATION_YEAR);
+		
+		/*
+		 * If there is no unknown year available then we should imply so by returning a "null".
+		 * */
+		if (unknownYearPubCount != null) {
+			return unknownYearPubCount;
+		} else {
+			return null;
+		}
+	}
+	
+
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/valueobjects/SparklineVOContainer.java

@@ -0,0 +1,84 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.valueobjects;
+
+public class SparklineVOContainer {
+	
+	/*
+	 * For now sparklineNumPublicationsText & sparklinePublicationRangeText is left 
+	 * as empty but later on we would want to leverage the granularity that this 
+	 * provides.
+	 * */
+	private String sparklineNumPublicationsText = "";
+	private String sparklinePublicationRangeText = "";
+	
+	private Integer earliestRenderedPublicationYear;
+	private Integer latestRenderedPublicationYear;
+	
+	private String table = "";
+	
+	private String downloadDataLink = "";
+	private String fullTimelineNetworkLink = "";
+	
+	private String sparklineContent;
+	private String sparklineContext;
+	
+	public String getSparklineNumPublicationsText() {
+		return sparklineNumPublicationsText;
+	}
+	public void setSparklineNumPublicationsText(String sparklineNumPublicationsText) {
+		this.sparklineNumPublicationsText = sparklineNumPublicationsText;
+	}
+	public String getSparklinePublicationRangeText() {
+		return sparklinePublicationRangeText;
+	}
+	public void setSparklinePublicationRangeText(
+			String sparklinePublicationRangeText) {
+		this.sparklinePublicationRangeText = sparklinePublicationRangeText;
+	}
+	public Integer getEarliestRenderedPublicationYear() {
+		return earliestRenderedPublicationYear;
+	}
+	public void setEarliestRenderedPublicationYear(
+			Integer earliestRenderedPublicationYear) {
+		this.earliestRenderedPublicationYear = earliestRenderedPublicationYear;
+	}
+	public Integer getLatestRenderedPublicationYear() {
+		return latestRenderedPublicationYear;
+	}
+	public void setLatestRenderedPublicationYear(
+			Integer latestRenderedPublicationYear) {
+		this.latestRenderedPublicationYear = latestRenderedPublicationYear;
+	}
+	public String getTable() {
+		return table;
+	}
+	public void setTable(String table) {
+		this.table = table;
+	}
+	public String getDownloadDataLink() {
+		return downloadDataLink;
+	}
+	public void setDownloadDataLink(String downloadDataLink) {
+		this.downloadDataLink = downloadDataLink;
+	}
+	public String getFullTimelineNetworkLink() {
+		return fullTimelineNetworkLink;
+	}
+	public void setFullTimelineNetworkLink(String fullTimelineNetworkLink) {
+		this.fullTimelineNetworkLink = fullTimelineNetworkLink;
+	}
+	
+	public String getSparklineContent() {
+		return sparklineContent;
+	}
+	public void setSparklineContent(String shortSparklineContent) {
+		this.sparklineContent = shortSparklineContent;
+	}
+
+	public String getSparklineContext() {
+		return sparklineContext;
+	}
+	public void setSparklineContext(String shortSparklineContext) {
+		this.sparklineContext = shortSparklineContext;
+	}
+
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/valueobjects/VivoCollegeOrSchool.java

@@ -0,0 +1,40 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.valueobjects;
+
+import java.util.HashSet;
+import java.util.Set;
+
+/**
+ * 
+ * This is the Value Object equivalent for vivo:CollegeOrSchoolWithinUniversity object type.
+ * @author cdtank
+ *
+ */
+public class VivoCollegeOrSchool extends Individual {
+
+	private Set<VivoDepartmentOrDivision> departments = new HashSet<VivoDepartmentOrDivision>();
+
+	public VivoCollegeOrSchool(String collegeURL) {
+		super(collegeURL);
+	}
+	
+	public Set<VivoDepartmentOrDivision> getDepartments() {
+		return departments;
+	}
+
+	public void addDepartment(VivoDepartmentOrDivision department) {
+		this.departments.add(department);
+	}
+
+	public String getCollegeURL() {
+		return this.getIndividualURL();
+	}
+
+	public String getCollegeLabel() {
+		return this.getIndividualLabel();
+	}
+
+	public void setCollegeLabel(String collegeLabel) {
+		this.setIndividualLabel(collegeLabel);
+	}
+
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/valueobjects/VivoDepartmentOrDivision.java

@@ -0,0 +1,41 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.valueobjects;
+
+import java.util.HashSet;
+import java.util.Set;
+
+/**
+ * 
+ * This is the Value Object equivalent for vivo:AcademicDepartmentOrDivision object type.
+ * @author cdtank
+ *
+ */
+public class VivoDepartmentOrDivision extends Individual {
+
+	private Set<VivoCollegeOrSchool> parentColleges = new HashSet<VivoCollegeOrSchool>();
+
+	public VivoDepartmentOrDivision(String departmentURL, VivoCollegeOrSchool parentCollege) {
+		super(departmentURL);
+		addParentCollege(parentCollege);
+	}
+
+	public Set<VivoCollegeOrSchool> getParentCollege() {
+		return parentColleges;
+	}
+
+	public void addParentCollege(VivoCollegeOrSchool parentCollege) {
+		this.parentColleges.add(parentCollege);
+	}
+
+	public String getDepartmentURL() {
+		return this.getIndividualURL();
+	}
+
+	public String getDepartmentLabel() {
+		return this.getIndividualLabel();
+	}
+
+	public void setDepartmentLabel(String departmentLabel) {
+		this.setIndividualLabel(departmentLabel);
+	}
+
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/valueobjects/VivoEmployee.java

@@ -0,0 +1,60 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.valueobjects;
+
+import java.util.HashSet;
+import java.util.Set;
+
+import edu.cornell.mannlib.vitro.webapp.visualization.constants.VOConstants.EmployeeType;
+
+/**
+ * 
+ * This is the Value Object equivalent for vivo's Employee object type.
+ * @author cdtank
+ *
+ */
+public class VivoEmployee extends Individual {
+
+	private EmployeeType employeeType; 
+	private Set<VivoDepartmentOrDivision> parentDepartments = new HashSet<VivoDepartmentOrDivision>();
+	private Set<BiboDocument> authorDocuments = new HashSet<BiboDocument>();
+
+	public VivoEmployee(String employeeURL, 
+						EmployeeType employeeType, 
+						VivoDepartmentOrDivision parentDepartment) {
+		super(employeeURL);
+		addParentDepartment(parentDepartment);
+	}
+
+	public String getEmployeeURL() {
+		return this.getIndividualURL();
+	}
+
+	public String getEmployeeName() {
+		return this.getIndividualLabel();
+	}
+	
+	public EmployeeType getEmployeeType() {
+		return employeeType;
+	}
+
+	public void setEmployeeType(EmployeeType employeeType) {
+		this.employeeType = employeeType;
+	}
+
+	public Set<VivoDepartmentOrDivision> getParentDepartments() {
+		return parentDepartments;
+	}
+
+	public void addParentDepartment(VivoDepartmentOrDivision parentDepartment) {
+		this.parentDepartments.add(parentDepartment);
+	}
+
+	public Set<BiboDocument> getAuthorDocuments() {
+		return authorDocuments;
+	}
+
+	public void addAuthorDocument(BiboDocument authorDocument) {
+		this.authorDocuments.add(authorDocument);
+	}
+
+
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/visutils/GenericQueryHandler.java

@@ -0,0 +1,161 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.visutils;
+
+import org.apache.commons.logging.Log;
+
+import com.hp.hpl.jena.iri.IRI;
+import com.hp.hpl.jena.iri.IRIFactory;
+import com.hp.hpl.jena.iri.Violation;
+import com.hp.hpl.jena.query.DataSource;
+import com.hp.hpl.jena.query.Query;
+import com.hp.hpl.jena.query.QueryExecution;
+import com.hp.hpl.jena.query.QueryExecutionFactory;
+import com.hp.hpl.jena.query.QueryFactory;
+import com.hp.hpl.jena.query.QuerySolution;
+import com.hp.hpl.jena.query.ResultSet;
+import com.hp.hpl.jena.query.Syntax;
+import com.hp.hpl.jena.rdf.model.RDFNode;
+
+import edu.cornell.mannlib.vitro.webapp.visualization.constants.QueryConstants;
+import edu.cornell.mannlib.vitro.webapp.visualization.constants.QueryFieldLabels;
+import edu.cornell.mannlib.vitro.webapp.visualization.exceptions.MalformedQueryParametersException;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.GenericQueryMap;
+
+
+
+/**
+ * Very dumb name of the class. change it.
+ * @author cdtank
+ *
+ */
+public class GenericQueryHandler {
+
+	protected static final Syntax SYNTAX = Syntax.syntaxARQ;
+
+	private String filterRule, individualURLParam, resultFormatParam, rdfResultFormatParam;
+	private DataSource dataSource;
+
+	private Log log;
+
+	public GenericQueryHandler(String individualURLParam,
+							   String filterRule,
+							   String resultFormatParam, 
+							   String rdfResultFormatParam,
+							   DataSource dataSource, 
+							   Log log) {
+
+		this.individualURLParam = individualURLParam;
+		this.filterRule = filterRule;
+		this.resultFormatParam = resultFormatParam;
+		this.rdfResultFormatParam = rdfResultFormatParam;
+		this.dataSource = dataSource;
+		this.log = log;
+		
+	}
+
+	private GenericQueryMap createJavaValueObjects(ResultSet resultSet) {
+		
+		GenericQueryMap queryResultVO = new GenericQueryMap();
+		
+		while (resultSet.hasNext()) {
+			QuerySolution solution = resultSet.nextSolution();
+			
+			
+			/*
+			 * We only want to create only ONE ego node.
+			 * */
+			RDFNode predicateNode = solution.get(QueryFieldLabels.PREDICATE);
+			RDFNode objectNode = solution.get(QueryFieldLabels.OBJECT);
+			
+			if (predicateNode != null && objectNode != null) {
+				queryResultVO.addEntry(predicateNode.toString(), 
+									   objectNode.toString());
+			} 
+			
+		}
+		
+		return queryResultVO;
+	}
+
+	
+	private ResultSet executeQuery(String queryText,
+								   String resultFormatParam, 
+								   String rdfResultFormatParam, 
+								   DataSource dataSource) {
+
+        QueryExecution queryExecution = null;
+        try{
+            Query query = QueryFactory.create(queryText, SYNTAX);
+
+//            QuerySolutionMap qs = new QuerySolutionMap();
+//            qs.add("authPerson", queryParam); // bind resource to s
+            
+            queryExecution = QueryExecutionFactory.create(query, dataSource);
+            
+
+            //remocve this if loop after knowing what is describe & construct sparql stuff.
+            if (query.isSelectType()){
+                return queryExecution.execSelect();
+            }
+        } finally {
+            if(queryExecution != null) {
+            	queryExecution.close();
+            }
+
+        }
+		return null;
+    }
+
+	private String generateGenericSparqlQuery(String queryURI, String filterRule) {
+//		Resource uri1 = ResourceFactory.createResource(queryURI);
+		String filterClause;
+		
+		if (filterRule == null || filterRule.trim().isEmpty()) {
+			filterClause = "";
+		} else {
+			filterClause = "FILTER ( " + filterRule + " ) . ";
+		}
+
+		String sparqlQuery = QueryConstants.getSparqlPrefixQuery()
+							+ "SELECT "
+							+ "		(str(?predicate) as ?" + QueryFieldLabels.PREDICATE + ") " 
+							+ "		(str(?object) as ?" + QueryFieldLabels.OBJECT + ") "
+							+ "WHERE { "
+							+ "<" + queryURI + "> ?predicate ?object.  "
+							+ filterClause
+							+ "}";
+
+		System.out.println(sparqlQuery);
+		
+		return sparqlQuery;
+	}
+
+	
+	public GenericQueryMap getJavaValueObjects()
+		throws MalformedQueryParametersException {
+
+        if (this.individualURLParam == null || "".equals(individualURLParam)) {
+        	throw new MalformedQueryParametersException("URI parameter is either null or empty.");
+        } else {
+
+        	/*
+        	 * To test for the validity of the URI submitted.
+        	 * */
+        	IRIFactory iRIFactory = IRIFactory.jenaImplementation();
+    		IRI iri = iRIFactory.create(this.individualURLParam);
+            if (iri.hasViolation(false)) {
+                String errorMsg = ((Violation)iri.violations(false).next()).getShortMessage()+" ";
+                log.error("Generic Query " + errorMsg);
+                throw new MalformedQueryParametersException("URI provided for an individual is malformed.");
+            }
+        }
+
+		ResultSet resultSet	= executeQuery(generateGenericSparqlQuery(this.individualURLParam, this.filterRule),
+										   this.resultFormatParam,
+										   this.rdfResultFormatParam,
+										   this.dataSource);
+
+		return createJavaValueObjects(resultSet);
+	}
+
+
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/visutils/UniqueIDGenerator.java

@@ -0,0 +1,14 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.visutils;
+
+public class UniqueIDGenerator {
+	
+	private int nextNumericID = 1;
+
+	public int getNextNumericID() {
+		int nextNumericID = this.nextNumericID;
+		this.nextNumericID++;
+
+		return nextNumericID;
+	}
+
+}

webapp/src/edu/cornell/mannlib/vitro/webapp/visualization/visutils/UtilityFunctions.java

@@ -0,0 +1,67 @@
+package edu.cornell.mannlib.vitro.webapp.visualization.visutils;
+
+import java.util.Map;
+import java.util.Set;
+import java.util.TreeMap;
+
+import edu.cornell.mannlib.vitro.webapp.visualization.constants.VisConstants;
+import edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.BiboDocument;
+
+public class UtilityFunctions {
+	
+	public static Map<String, Integer> getYearToPublicationCount(
+			Set<BiboDocument> authorDocuments) {
+
+		//List<Integer> publishedYears = new ArrayList<Integer>();
+
+    	/*
+    	 * Create a map from the year to number of publications. Use the BiboDocument's
+    	 * parsedPublicationYear to populate the data.
+    	 * */
+    	Map<String, Integer> yearToPublicationCount = new TreeMap<String, Integer>();
+
+    	for (BiboDocument curr : authorDocuments) {
+
+    		/*
+    		 * Increment the count because there is an entry already available for
+    		 * that particular year.
+    		 * */
+    		String publicationYear;
+    		if (curr.getPublicationYear() != null 
+    				&& curr.getPublicationYear().length() != 0 
+    				&& curr.getPublicationYear().trim().length() != 0) {
+    			publicationYear = curr.getPublicationYear();
+    		} else {
+    			publicationYear = curr.getParsedPublicationYear();
+    		}
+    		
+			if (yearToPublicationCount.containsKey(publicationYear)) {
+    			yearToPublicationCount.put(publicationYear,
+    									   yearToPublicationCount
+    									   		.get(publicationYear) + 1);
+
+    		} else {
+    			yearToPublicationCount.put(publicationYear, 1);
+    		}
+
+//    		if (!parsedPublicationYear.equalsIgnoreCase(BiboDocument.DEFAULT_PUBLICATION_YEAR)) {
+//    			publishedYears.add(Integer.parseInt(parsedPublicationYear));
+//    		}
+
+    	}
+
+		return yearToPublicationCount;
+	}
+	
+	/**
+	 * Currently the approach for slugifying filenames is naive. In future if there is need, 
+	 * we can write more sophisticated method.
+	 * @param textToBeSlugified
+	 * @return
+	 */
+	public static String slugify(String textToBeSlugified) {
+		return textToBeSlugified.toLowerCase().replaceAll("[^a-zA-Z0-9-]", "-")
+								.substring(0, VisConstants.MAX_NAME_TEXT_LENGTH);
+	}
+
+}

webapp/web/js/visualization/coauthorship/AC_OETags.js

@@ -0,0 +1,292 @@
+// Flash Player Version Detection - Rev 1.6
+// Detect Client Browser type
+// Copyright(c) 2005-2006 Adobe Macromedia Software, LLC. All rights reserved.
+var isIE  = (navigator.appVersion.indexOf("MSIE") != -1) ? true : false;
+var isWin = (navigator.appVersion.toLowerCase().indexOf("win") != -1) ? true : false;
+var isOpera = (navigator.userAgent.indexOf("Opera") != -1) ? true : false;
+
+function ControlVersion()
+{
+	var version;
+	var axo;
+	var e;
+
+	// NOTE : new ActiveXObject(strFoo) throws an exception if strFoo isn't in the registry
+
+	try {
+		// version will be set for 7.X or greater players
+		axo = new ActiveXObject("ShockwaveFlash.ShockwaveFlash.7");
+		version = axo.GetVariable("$version");
+	} catch (e) {
+	}
+
+	if (!version)
+	{
+		try {
+			// version will be set for 6.X players only
+			axo = new ActiveXObject("ShockwaveFlash.ShockwaveFlash.6");
+			
+			// installed player is some revision of 6.0
+			// GetVariable("$version") crashes for versions 6.0.22 through 6.0.29,
+			// so we have to be careful. 
+			
+			// default to the first public version
+			version = "WIN 6,0,21,0";
+
+			// throws if AllowScripAccess does not exist (introduced in 6.0r47)		
+			axo.AllowScriptAccess = "always";
+
+			// safe to call for 6.0r47 or greater
+			version = axo.GetVariable("$version");
+
+		} catch (e) {
+		}
+	}
+
+	if (!version)
+	{
+		try {
+			// version will be set for 4.X or 5.X player
+			axo = new ActiveXObject("ShockwaveFlash.ShockwaveFlash.3");
+			version = axo.GetVariable("$version");
+		} catch (e) {
+		}
+	}
+
+	if (!version)
+	{
+		try {
+			// version will be set for 3.X player
+			axo = new ActiveXObject("ShockwaveFlash.ShockwaveFlash.3");
+			version = "WIN 3,0,18,0";
+		} catch (e) {
+		}
+	}
+
+	if (!version)
+	{
+		try {
+			// version will be set for 2.X player
+			axo = new ActiveXObject("ShockwaveFlash.ShockwaveFlash");
+			version = "WIN 2,0,0,11";
+		} catch (e) {
+			version = -1;
+		}
+	}
+	
+	return version;
+}
+
+// JavaScript helper required to detect Flash Player PlugIn version information
+function GetSwfVer(){
+	// NS/Opera version >= 3 check for Flash plugin in plugin array
+	var flashVer = -1;
+	
+	if (navigator.plugins != null && navigator.plugins.length > 0) {
+		if (navigator.plugins["Shockwave Flash 2.0"] || navigator.plugins["Shockwave Flash"]) {
+			var swVer2 = navigator.plugins["Shockwave Flash 2.0"] ? " 2.0" : "";
+			var flashDescription = navigator.plugins["Shockwave Flash" + swVer2].description;
+			var descArray = flashDescription.split(" ");
+			var tempArrayMajor = descArray[2].split(".");			
+			var versionMajor = tempArrayMajor[0];
+			var versionMinor = tempArrayMajor[1];
+			var versionRevision = descArray[3];
+			if (versionRevision == "") {
+				versionRevision = descArray[4];
+			}
+			if (versionRevision[0] == "d") {
+				versionRevision = versionRevision.substring(1);
+			} else if (versionRevision[0] == "r") {
+				versionRevision = versionRevision.substring(1);
+				if (versionRevision.indexOf("d") > 0) {
+					versionRevision = versionRevision.substring(0, versionRevision.indexOf("d"));
+				}
+			} else if (versionRevision[0] == "b") {
+				versionRevision = versionRevision.substring(1);
+			}
+			var flashVer = versionMajor + "." + versionMinor + "." + versionRevision;
+		}
+	}
+	// MSN/WebTV 2.6 supports Flash 4
+	else if (navigator.userAgent.toLowerCase().indexOf("webtv/2.6") != -1) flashVer = 4;
+	// WebTV 2.5 supports Flash 3
+	else if (navigator.userAgent.toLowerCase().indexOf("webtv/2.5") != -1) flashVer = 3;
+	// older WebTV supports Flash 2
+	else if (navigator.userAgent.toLowerCase().indexOf("webtv") != -1) flashVer = 2;
+	else if ( isIE && isWin && !isOpera ) {
+		flashVer = ControlVersion();
+	}
+	return flashVer;
+}
+
+// When called with reqMajorVer, reqMinorVer, reqRevision returns true if that version or greater is available
+function DetectFlashVer(reqMajorVer, reqMinorVer, reqRevision)
+{
+	versionStr = GetSwfVer();
+	if (versionStr == -1 ) {
+		return false;
+	} else if (versionStr != 0) {
+		if(isIE && isWin && !isOpera) {
+			// Given "WIN 2,0,0,11"
+			tempArray         = versionStr.split(" "); 	// ["WIN", "2,0,0,11"]
+			tempString        = tempArray[1];			// "2,0,0,11"
+			versionArray      = tempString.split(",");	// ['2', '0', '0', '11']
+		} else {
+			versionArray      = versionStr.split(".");
+		}
+		var versionMajor      = versionArray[0];
+		var versionMinor      = versionArray[1];
+		var versionRevision   = versionArray[2];
+
+        	// is the major.revision >= requested major.revision AND the minor version >= requested minor
+		if (versionMajor > parseFloat(reqMajorVer)) {
+			return true;
+		} else if (versionMajor == parseFloat(reqMajorVer)) {
+			if (versionMinor > parseFloat(reqMinorVer))
+				return true;
+			else if (versionMinor == parseFloat(reqMinorVer)) {
+				if (versionRevision >= parseFloat(reqRevision))
+					return true;
+			}
+		}
+		return false;
+	}
+}
+
+function AC_AddExtension(src, ext)
+{
+  var qIndex = src.indexOf('?');
+  if ( qIndex != -1)
+  {
+    // Add the extention (if needed) before the query params
+    var path = src.substring(0, qIndex);
+    if (path.length >= ext.length && path.lastIndexOf(ext) == (path.length - ext.length))
+      return src;
+    else
+      return src.replace(/\?/, ext+'?'); 
+  }
+  else
+  {
+    // Add the extension (if needed) to the end of the URL
+    if (src.length >= ext.length && src.lastIndexOf(ext) == (src.length - ext.length))
+      return src;  // Already have extension
+    else
+      return src + ext;
+  }
+}
+
+function AC_Generateobj(objAttrs, params, embedAttrs) 
+{ 
+    var str = '';
+    if (isIE && isWin && !isOpera)
+    {
+  		str += '<object ';
+  		for (var i in objAttrs)
+  			str += i + '="' + objAttrs[i] + '" ';
+  		str += '>';
+  		for (var i in params)
+  			str += '<param name="' + i + '" value="' + params[i] + '" /> ';
+  		str += '</object>';
+    } else {
+  		str += '<embed ';
+  		for (var i in embedAttrs)
+  			str += i + '="' + embedAttrs[i] + '" ';
+  		str += '> </embed>';
+    }
+
+    document.write(str);
+}
+
+function AC_FL_RunContent(){
+  var ret = 
+    AC_GetArgs
+    (  arguments, ".swf", "movie", "clsid:d27cdb6e-ae6d-11cf-96b8-444553540000"
+     , "application/x-shockwave-flash"
+    );
+  AC_Generateobj(ret.objAttrs, ret.params, ret.embedAttrs);
+}
+
+function AC_GetArgs(args, ext, srcParamName, classid, mimeType){
+  var ret = new Object();
+  ret.embedAttrs = new Object();
+  ret.params = new Object();
+  ret.objAttrs = new Object();
+  for (var i=0; i < args.length; i=i+2){
+    var currArg = args[i].toLowerCase();    
+
+    switch (currArg){	
+      case "classid":
+        break;
+      case "pluginspage":
+        ret.embedAttrs[args[i]] = args[i+1];
+        break;
+      case "src":
+      case "movie":	
+        args[i+1] = AC_AddExtension(args[i+1], ext);
+        ret.embedAttrs["src"] = args[i+1];
+        ret.params[srcParamName] = args[i+1];
+        break;
+      case "onafterupdate":
+      case "onbeforeupdate":
+      case "onblur":
+      case "oncellchange":
+      case "onclick":
+      case "ondblClick":
+      case "ondrag":
+      case "ondragend":
+      case "ondragenter":
+      case "ondragleave":
+      case "ondragover":
+      case "ondrop":
+      case "onfinish":
+      case "onfocus":
+      case "onhelp":
+      case "onmousedown":
+      case "onmouseup":
+      case "onmouseover":
+      case "onmousemove":
+      case "onmouseout":
+      case "onkeypress":
+      case "onkeydown":
+      case "onkeyup":
+      case "onload":
+      case "onlosecapture":
+      case "onpropertychange":
+      case "onreadystatechange":
+      case "onrowsdelete":
+      case "onrowenter":
+      case "onrowexit":
+      case "onrowsinserted":
+      case "onstart":
+      case "onscroll":
+      case "onbeforeeditfocus":
+      case "onactivate":
+      case "onbeforedeactivate":
+      case "ondeactivate":
+      case "type":
+      case "codebase":
+        ret.objAttrs[args[i]] = args[i+1];
+        break;
+      case "id":
+      case "width":
+      case "height":
+      case "align":
+      case "vspace": 
+      case "hspace":
+      case "class":
+      case "title":
+      case "accesskey":
+      case "name":
+      case "tabindex":
+        ret.embedAttrs[args[i]] = ret.objAttrs[args[i]] = args[i+1];
+        break;
+      default:
+        ret.embedAttrs[args[i]] = ret.params[args[i]] = args[i+1];
+    }
+  }
+  ret.objAttrs["classid"] = classid;
+  if (mimeType) ret.embedAttrs["type"] = mimeType;
+  return ret;
+}
+
+

webapp/web/js/visualization/coauthorship/co_authorship.js

@@ -0,0 +1,274 @@
+function getWellFormedURLs(given_uri, type) {
+
+	// general best practice is to put javascript code inside document.ready
+	// but in this case when i do that the function does not get called
+	// properly.
+	// so removing it for now.
+
+	// $(document).ready(function() {
+
+	if (type == "coauthorship") {
+
+		var finalURL = $.ajax({
+			url: contextPath + "/admin/visQuery",
+			data: ({vis: "utilities", vis_mode: "COAUTHORSHIP_URL", uri: given_uri}),
+			dataType: "text",
+			async: false,
+			success:function(data){
+			// console.log("COA - " + data);
+		}
+		}).responseText;
+
+		return finalURL;
+
+
+	} else if (type == "profile") {
+
+		var finalURL = $.ajax({
+			url: contextPath + "/admin/visQuery",
+			data: ({vis: "utilities", vis_mode: "PROFILE_URL", uri: given_uri}),
+			dataType: "text",
+			async: false,
+			success:function(data){
+		}
+		}).responseText;
+
+		return finalURL;
+
+	} else if (type == "image") {
+
+		var finalURL = $.ajax({
+			url: contextPath + "/admin/visQuery",
+			data: ({vis: "utilities", vis_mode: "IMAGE_URL", uri: given_uri}),
+			dataType: "text",
+			async: false,
+			success:function(data){
+		}
+		}).responseText;
+
+		return finalURL;
+
+	} else if (type == "profile_info") {
+
+		var profileInfoJSON = $.ajax({
+			url: contextPath + "/admin/visQuery",
+			data: ({vis: "utilities", vis_mode: "PROFILE_INFO", uri: given_uri}),
+			dataType: "json",
+			async: false,
+			success:function(data){
+		}
+		}).responseText;
+
+		return profileInfoJSON;
+
+	}
+	
+	// });
+}
+
+$.fn.image = function(src, successFunc, failureFunc){
+	return this.each(function(){ 
+		var profileImage = new Image();
+		profileImage.src = src;
+		profileImage.width = 150;
+		profileImage.onerror = failureFunc;
+		profileImage.onload = successFunc;
+		
+		
+		return profileImage;
+	});
+}
+
+function setProfileImage(imageContainerID, rawPath, contextPath) {
+	
+	if (imageContainerID == "") {
+		return;
+	}
+	
+	
+	var imageLink =  contextPath + rawPath;
+	
+	var imageContainer = $("#" + imageContainerID);
+	imageContainer.image(imageLink, 
+			function(){
+		imageContainer.empty().append(this); 
+	},
+	function(){
+		 //For performing any action on failure to
+		 //find the image.
+		imageContainer.empty();
+	}
+	);
+	
+}
+
+function setProfileMoniker(monikerContainerID, moniker) {
+	
+	if (monikerContainerID == "") {
+		return;
+	}
+	
+	$("#" + monikerContainerID).empty().text(moniker);
+	
+}
+
+function setProfileName(nameContainerID, name) {
+	
+	if (nameContainerID == "") {
+		return;
+	}
+	
+	$("#" + nameContainerID).empty().text(name);
+	
+	
+}
+
+function processProfileInformation(nameContainerID,
+								   monikerContainerID,
+								   imageContainerID,
+								   profileInfoJSON) {
+	
+	
+	var name, imageRawPath, imageContextPath, moniker;
+	
+	$.each(profileInfoJSON, function(key, set){
+		
+		 if (key.search(/imageThumb/i) > -1) {
+			 
+			 imageRawPath = set[0];
+			 
+		 } else if (key.search(/imageContextPath/i) > -1) {
+			 
+			 imageContextPath = set[0];
+			 
+		 } else if (key.search(/moniker/i) > -1) {
+			 
+			 moniker = set[0];
+			 
+		 } else if (key.search(/label/i) > -1) {
+			 
+			 name = set[0];
+			 
+		 }
+		 
+      });
+	
+	setProfileName(nameContainerID, name);
+	setProfileMoniker(monikerContainerID, moniker);
+	setProfileImage(imageContainerID, imageRawPath, imageContextPath);
+	
+}
+
+
+
+function nodeClickedJS(json){
+	
+	var obj = jQuery.parseJSON(json);
+
+	$("#newsLetter").attr("style","visibility:visible");
+	$("#authorName").empty().append(obj.name);
+	$("#works").empty().append(obj.number_of_authored_works);
+
+	/*
+	 * Here obj.url points to the uri of that individual
+	 */
+	if(obj.url){
+		$("#profileUrl").attr("href", getWellFormedURLs(obj.url, "profile"));
+		$("#coAuthorshipVisUrl").attr("href", getWellFormedURLs(obj.url, "coauthorship"));
+		processProfileInformation("", 
+								  "profileMoniker",
+								  "profileImage",
+								  jQuery.parseJSON(getWellFormedURLs(obj.url, "profile_info")));
+
+	} else{
+		$("#profileUrl").attr("href","#");
+		$("#coAuthorshipVisUrl").attr("href","#");
+	}
+
+	$("#coAuthorName").empty().append(obj.name);	
+
+	$("#coAuthors").empty().append(obj.num_coauthors);	
+	$("#firstPublication").empty().append((obj.earliest_publication)?obj.earliest_publication+" First Publication":"");
+	$("#lastPublication").empty().append((obj.latest_publication)?obj.latest_publication+" Last Publication":"");
+
+	// obj.url:the url parameter for node
+
+}
+
+function renderSparklineVisualization(visualizationURL) {
+	
+	 $(document).ready(function() {
+		 
+	//$("#ego_sparkline").empty().html('<img src="${loadingImageLink}" />');
+
+	   $.ajax({
+		   url: visualizationURL,
+		   dataType: "html",
+		   success:function(data){
+		     $("#ego_sparkline").html(data);
+
+		   }
+		 });
+	   
+	   
+	 });
+
+}
+
+function renderCoAuthorshipVisualization() {
+
+	//Version check for the Flash Player that has the ability to start Player
+	//Product Install (6.0r65)
+	var hasProductInstall = DetectFlashVer(6, 0, 65);
+	
+	//Version check based upon the values defined in globals
+	var hasRequestedVersion = DetectFlashVer(requiredMajorVersion, requiredMinorVersion, requiredRevision);
+	
+	if ( hasProductInstall && !hasRequestedVersion ) {
+		// DO NOT MODIFY THE FOLLOWING FOUR LINES
+		// Location visited after installation is complete if installation is
+		// required
+		var MMPlayerType = (isIE == true) ? "ActiveX" : "PlugIn";
+		var MMredirectURL = window.location;
+		document.title = document.title.slice(0, 47) + " - Flash Player Installation";
+		var MMdoctitle = document.title;
+	
+		AC_FL_RunContent(
+				"src", "playerProductInstall",
+				"FlashVars", "MMredirectURL="+MMredirectURL+'&MMplayerType='+MMPlayerType+'&MMdoctitle='+MMdoctitle+"",
+				"width", "600",
+				"height", "800",
+				"align", "middle",
+				"id", "CoAuthor",
+				"quality", "high",
+				"bgcolor", "#ffffff",
+				"name", "CoAuthor",
+				"allowScriptAccess","sameDomain",
+				"type", "application/x-shockwave-flash",
+				"pluginspage", "http://www.adobe.com/go/getflashplayer"
+		);
+	} else if (hasRequestedVersion) {
+		// if we've detected an acceptable version
+		// embed the Flash Content SWF when all tests are passed
+		AC_FL_RunContent(
+				"src", swfLink,
+				"flashVars", "graphmlUrl=" + egoCoAuthorshipDataURL,			
+				"width", "600",
+				"height", "800",
+				"align", "middle",
+				"id", "CoAuthor",
+				"quality", "high",
+				"bgcolor", "#ffffff",
+				"name", "CoAuthor",
+				"allowScriptAccess","sameDomain",
+				"type", "application/x-shockwave-flash",
+				"pluginspage", "http://www.adobe.com/go/getflashplayer"
+		);
+	} else {  // flash is too old or we can't detect the plugin
+		var alternateContent = 'Alternate HTML content should be placed here. '
+			+ 'This content requires the Adobe Flash Player. '
+			+ '<a href=http://www.adobe.com/go/getflash/>Get Flash</a>';
+		document.write(alternateContent);  // insert non-flash content
+	}
+
+}

webapp/web/js/visualization/personlevel/person_level.js

@@ -0,0 +1,318 @@
+function getWellFormedURLs(given_uri, type) {
+
+	// general best practice is to put javascript code inside document.ready
+	// but in this case when i do that the function does not get called
+	// properly.
+	// so removing it for now.
+
+	// $(document).ready(function() {
+
+	var finalURL;
+
+	if (type == "coauthorship") {
+
+		finalURL = $.ajax({
+			url: contextPath + "/admin/visQuery",
+			data: ({vis: "utilities", vis_mode: "PERSON_LEVEL_URL", uri: given_uri}),
+			dataType: "text",
+			async: false,
+			success:function(data){
+			// console.log("COA - " + data);
+		}
+		}).responseText;
+
+		return finalURL;
+
+
+	} else if (type == "profile") {
+
+		finalURL = $.ajax({
+			url: contextPath + "/admin/visQuery",
+			data: ({vis: "utilities", vis_mode: "PROFILE_URL", uri: given_uri}),
+			dataType: "text",
+			async: false,
+			success:function(data){
+		}
+		}).responseText;
+
+		return finalURL;
+
+	} else if (type == "image") {
+
+		finalURL = $.ajax({
+			url: contextPath + "/admin/visQuery",
+			data: ({vis: "utilities", vis_mode: "IMAGE_URL", uri: given_uri}),
+			dataType: "text",
+			async: false,
+			success:function(data){
+		}
+		}).responseText;
+
+		return finalURL;
+
+	} else if (type == "profile_info") {
+
+		var profileInfoJSON = $.ajax({
+			url: contextPath + "/admin/visQuery",
+			data: ({vis: "utilities", vis_mode: "PROFILE_INFO", uri: given_uri}),
+			dataType: "json",
+			async: false,
+			success:function(data){
+		}
+		}).responseText;
+
+		return profileInfoJSON;
+
+	}
+
+	// });
+}
+
+$.fn.image = function(src, successFunc, failureFunc){
+	return this.each(function(){ 
+		var profileImage = new Image();
+		profileImage.src = src;
+		profileImage.width = 90;
+		profileImage.onerror = failureFunc;
+		profileImage.onload = successFunc;
+
+
+		return profileImage;
+	});
+};
+
+function setProfileImage(imageContainerID, rawPath, contextPath) {
+
+	
+	if (imageContainerID == "") {
+		return;
+	}
+
+	var imageLink =  contextPath + rawPath;
+
+	var imageContainer = $("#" + imageContainerID);
+	imageContainer.image(imageLink, 
+			function(){
+		imageContainer.empty().append(this); 
+	},
+	function(){
+		// For performing any action on failure to
+		// find the image.
+		imageContainer.empty();
+	}
+	);
+
+}
+
+function setProfileMoniker(monikerContainerID, moniker, doEllipsis) {
+
+	if (monikerContainerID == "") {
+		return;
+	}
+
+	var finalDisplayMoniker;
+	
+	if (moniker.length > 30 && doEllipsis) {
+		
+		finalDisplayMoniker = moniker.substr(0,30) + "...";
+		
+	} else {
+		
+		finalDisplayMoniker = moniker;
+		
+	}
+	
+	$("#" + monikerContainerID).empty().text(finalDisplayMoniker);
+	$("#" + monikerContainerID).attr('title', moniker);
+
+}
+
+function setProfileName(nameContainerID, name) {
+
+	if (nameContainerID == "") {
+		return;
+	}
+
+	$("#" + nameContainerID).empty().text(name);
+
+
+}
+
+function processProfileInformation(nameContainerID,
+		monikerContainerID,
+		imageContainerID,
+		profileInfoJSON,
+		doMonikerEllipsis) {
+
+
+	var name, imageRawPath, imageContextPath, moniker;
+
+	$.each(profileInfoJSON, function(key, set){
+
+		if (key.search(/imageThumb/i) > -1) {
+
+			imageRawPath = set[0];
+
+		} else if (key.search(/imageContextPath/i) > -1) {
+
+			imageContextPath = set[0];
+
+		} else if (key.search(/moniker/i) > -1) {
+
+			moniker = set[0];
+
+		} else if (key.search(/label/i) > -1) {
+
+			name = set[0];
+
+		}
+
+	});
+
+	setProfileName(nameContainerID, name);
+	setProfileMoniker(monikerContainerID, moniker, doMonikerEllipsis);
+	setProfileImage(imageContainerID, imageRawPath, imageContextPath);
+
+}
+
+function visLoaded(nodes){
+
+	var jsonedNodes = jQuery.parseJSON(nodes);
+
+	$(document).ready(function() { 
+		 createTable("coauthorships_table", "coauth_table_container", jsonedNodes.slice(1));
+	});
+
+}
+
+function createTable(tableID, tableContainer, tableData) {
+
+	var table = $('<table>');
+	table.attr('id', tableID);
+	
+	table.append($('<caption>').html("Co-Authors <a href=\"" + egoCoAuthorsListDataFileURL + "\">(.CSV File)</a>"));  
+	
+	var header = $('<thead>');
+	
+	var row = $('<tr>'); 
+
+	var authorTH = $('<th>');
+	authorTH.html("Author");
+	row.append(authorTH);
+	
+	row.append($('<th>').html("Publications with <br />" + $('#ego_label').text()));  
+
+	header.append(row);
+	
+	table.append(header);
+
+	$.each(tableData, function(i, item){ 
+
+		var row = $('<tr>'); 
+
+		row.append($('<td>').html(item.name));
+		row.append($('<td>').html(item.number_of_authored_works));
+
+		table.append(row);
+
+	});	
+
+	table.prependTo('#' + tableContainer);
+	$('#' + tableContainer + " #loadingData").remove();
+}
+
+function nodeClickedJS(json){
+
+	var obj = jQuery.parseJSON(json);
+
+	$("#dataPanel").attr("style","visibility:visible");
+	$("#authorName").empty().append(obj.name);
+	$("#works").empty().append(obj.number_of_authored_works);
+
+	/*
+	 * Here obj.url points to the uri of that individual
+	 */
+	if(obj.url){
+		$("#profileUrl").attr("href", getWellFormedURLs(obj.url, "profile"));
+		$("#coAuthorshipVisUrl").attr("href", getWellFormedURLs(obj.url, "coauthorship"));
+		processProfileInformation("", 
+				"profileMoniker",
+				"profileImage",
+				jQuery.parseJSON(getWellFormedURLs(obj.url, "profile_info")),
+				true);
+
+	} else{
+		$("#profileUrl").attr("href","#");
+		$("#coAuthorshipVisUrl").attr("href","#");
+	}
+
+	$("#coAuthorName").empty().append(obj.name);	
+
+	$("#coAuthors").empty().append(obj.num_coauthors);	
+	
+	$("#firstPublication").empty().append(obj.earliest_publication);
+	(obj.earliest_publication)?$("#fPub").attr("style","visibility:visible"):$("#fPub").attr("style","visibility:hidden");
+	$("#lastPublication").empty().append(obj.latest_publication);
+	(obj.latest_publication)?$("#lPub").attr("style","visibility:visible"):$("#lPub").attr("style","visibility:hidden");
+
+	// obj.url:the url parameter for node
+
+}
+
+function renderCoAuthorshipVisualization() {
+
+	// Version check for the Flash Player that has the ability to start Player
+	// Product Install (6.0r65)
+	var hasProductInstall = DetectFlashVer(6, 0, 65);
+
+	// Version check based upon the values defined in globals
+	var hasRequestedVersion = DetectFlashVer(requiredMajorVersion, requiredMinorVersion, requiredRevision);
+
+	if ( hasProductInstall && !hasRequestedVersion ) {
+		// DO NOT MODIFY THE FOLLOWING FOUR LINES
+		// Location visited after installation is complete if installation is
+		// required
+		var MMPlayerType = (isIE == true) ? "ActiveX" : "PlugIn";
+		var MMredirectURL = window.location;
+		document.title = document.title.slice(0, 47) + " - Flash Player Installation";
+		var MMdoctitle = document.title;
+
+		AC_FL_RunContent(
+				"src", "playerProductInstall",
+				"FlashVars", "MMredirectURL="+MMredirectURL+'&MMplayerType='+MMPlayerType+'&MMdoctitle='+MMdoctitle+"",
+				"width", "600",
+				"height", "840",
+				"align", "middle",
+				"id", "CoAuthor",
+				"quality", "high",
+				"bgcolor", "#ffffff",
+				"name", "CoAuthor",
+				"allowScriptAccess","sameDomain",
+				"type", "application/x-shockwave-flash",
+				"pluginspage", "http://www.adobe.com/go/getflashplayer"
+		);
+	} else if (hasRequestedVersion) {
+		// if we've detected an acceptable version
+		// embed the Flash Content SWF when all tests are passed
+		AC_FL_RunContent(
+				"src", swfLink,
+				"flashVars", "graphmlUrl=" + egoCoAuthorshipDataFeederURL,			
+				"width", "600",
+				"height", "790",
+				"align", "top",
+				"id", "CoAuthor",
+				"quality", "high",
+				"bgcolor", "#ffffff",
+				"name", "CoAuthor",
+				"allowScriptAccess","sameDomain",
+				"type", "application/x-shockwave-flash",
+				"pluginspage", "http://www.adobe.com/go/getflashplayer"
+		);
+	} else {  // flash is too old or we can't detect the plugin
+		var alternateContent = 'Alternate HTML content should be placed here. '
+			+ 'This content requires the Adobe Flash Player. '
+			+ '<a href=http://www.adobe.com/go/getflash/>Get Flash</a>';
+		document.write(alternateContent);  // insert non-flash content
+	}
+
+}

webapp/web/templates/entity/entityBasic.jsp

@@ -122,6 +122,10 @@ if (VitroRequestPrep.isSelfEditing(request) || LoginFormBean.loggedIn(request, L
                 </c:choose>
             </div> <!-- end labelAndMoniker -->
             
+            <!-- START Sparkline Visualization -->
+            <jsp:include page="sparklineVisualization.jsp"/>
+            <!-- END Sparkline Visualization -->
+            
             <%-- Links --%>                                                                                       
             <c:if test="${ showEdits || !empty entity.url || !empty entity.linksList }"> 
                 <div id="dprop-vitro-links" class="propsItem ${editingClass}">

webapp/web/templates/entity/entity_inject_head.jsp

@@ -26,6 +26,7 @@
 <c:url var="vitroControls" value="/js/controls.js"/>
 <c:url var="jqueryForm" value="/js/jquery_plugins/jquery.form.js"/>
 <c:url var="tinyMCE" value="/js/tiny_mce/tiny_mce.js"/>
+<c:url var="googleVisualizationAPI" value="http://www.google.com/jsapi?autoload=%7B%22modules%22%3A%5B%7B%22name%22%3A%22visualization%22%2C%22version%22%3A%221%22%2C%22packages%22%3A%5B%22areachart%22%2C%22imagesparkline%22%5D%7D%5D%7D"/>
 
 <script type="text/javascript" src="${jquery}"></script>
 <script type="text/javascript" src="${getURLParam}"></script>
@@ -34,3 +35,4 @@
 <script type="text/javascript" src="${jqueryForm}"></script>
 <script type="text/javascript" src="${tinyMCE}"></script>
 <script type="text/javascript" src="${vitroControls}"></script>
+<script type="text/javascript" src="${googleVisualizationAPI}"></script>

webapp/web/templates/entity/sparklineVisualization.jsp

@@ -0,0 +1,156 @@
+<%@ page import="edu.cornell.mannlib.vitro.webapp.beans.ApplicationBean"%>
+<%@ page import="edu.cornell.mannlib.vitro.webapp.beans.Individual" %>
+<%@ page import="edu.cornell.mannlib.vitro.webapp.beans.VClass" %>
+<%@ page import="edu.cornell.mannlib.vitro.webapp.flags.PortalFlagChoices" %>
+<%@ page import="edu.cornell.mannlib.vitro.webapp.dao.WebappDaoFactory" %>
+<%@ taglib uri="http://java.sun.com/jstl/core" prefix="c" %>
+<%@ taglib uri="http://java.sun.com/jsp/jstl/functions" prefix="fn" %>
+<%@ page errorPage="/error.jsp"%>
+<%  /***********************************************
+          Displays the little group of things at the bottom of the page
+          for administrators and editors.
+         
+         request.attributes:
+         an Entity object with the name "entity" 
+         
+         
+         request.parameters:
+         None, should only work with requestScope attributes for security reasons.
+         
+          Consider sticking < % = MiscWebUtils.getReqInfo(request) % > in the html output
+          for debugging info.
+                 
+         bdc34 2006-01-22 created        
+        **********************************************/ 
+        Individual entity = (Individual)request.getAttribute("entity");
+		boolean displayVisualization = false;
+		
+		
+          
+        if (entity == null){
+            String e = "sparklineVisuzalition.jsp expects that request attribute 'entity' be set to the Entity object to display.";
+            displayVisualization = false;
+            throw new JspException(e);
+        } else {
+        	for (VClass currClass : entity.getVClasses()) {
+        		//System.out.println(">> " + currClass.getName());
+            	if (currClass.getName().equalsIgnoreCase("Person")) {
+            		displayVisualization = true;
+            		break;
+            	}
+            	
+            }	
+        }
+		//System.out.println("visualization is supposed to be displayed? > " + displayVisualization);
+        if (displayVisualization) {
+        	
+%>
+
+
+<c:set var='portalBean' value='${currentPortal}'/>
+<c:set var="themeDir"><c:out value="${portalBean.themeDir}" /></c:set>
+<c:url var="loadingImageLink" value="/${themeDir}site_icons/visualization/ajax-loader.gif"></c:url>
+
+	<!-- START Visualization Code -->            
+	<c:url var="visualizationURL" value="/admin/visQuery">
+		<c:param name="render_mode" value="dynamic"/>
+		<c:param name="container" value="vis_container"/>
+		<c:param name="vis" value="person_pub_count"/>
+		<c:param name="vis_mode" value="short"/>
+		<c:param name="uri" value="${entity.URI}"/>
+	</c:url>
+	
+	<%-- PDF Visualization URL
+	
+	For now we have disabled this.
+	             
+	<c:url var="pdfURL" value="/admin/visQuery">
+		<c:param name="render_mode" value="pdf"/>
+		<c:param name="container" value="vis_container"/>
+		<c:param name="vis" value="person_pub_count"/>
+		<c:param name="vis_mode" value="full"/>
+		<c:param name="uri" value="${entity.URI}"/>
+	</c:url>
+	
+	--%>
+	
+	<style type="text/css">
+		#vis_container {
+			cursor:pointer;
+			/*height:36px;
+			margin-left:24%;
+			margin-top:-2%;
+			position:absolute;*/
+			/*width:380px;*/
+		}
+		
+	</style>
+	
+
+	
+	<script type="text/javascript">
+	<!--
+	
+	$(document).ready(function() {
+	
+		function renderVisualization(visualizationURL) {
+	
+			$("#vis_container").empty().html('<img src="${loadingImageLink}" />');
+	
+			   $.ajax({
+				   url: visualizationURL,
+				   dataType: "html",
+				   success:function(data){
+				     $("#vis_container").html(data);
+	
+				   }
+				 });
+	
+		}
+	
+	   renderVisualization('${visualizationURL}');
+	
+	});
+	
+	
+	
+	//-->
+	</script>
+	<div id="vis_container">
+		${entity.URI}
+	</div>
+	
+	
+		<!--[if IE]>
+	<style type="text/css">
+	
+	#vis_container a{
+		padding-bottom:5px;
+	}
+	
+	.vis_link a{
+		padding:10px;
+		display: block;
+	}
+	
+	
+	</style>
+<![endif]-->
+	
+	<%--  
+	
+	For now we have disabled PDF report vis.
+	
+	<div id="pdf_url">
+		This is the <a href="${pdfURL}">link</a> to PDF report.
+	</div>
+	
+	--%>
+	
+	<!-- END Visualization Code -->
+
+<%
+
+        }
+
+%>

webapp/web/templates/page/blankPage.jsp

@@ -0,0 +1,46 @@
+<%@ taglib uri="http://java.sun.com/jstl/core" prefix="c" %>
+
+<%  /***********************************************
+         Display a single Page  in the most basic fashion.
+         The html <HEAD> is generated followed by the banners and menu.
+         After that the result of the jsp in the attribute bodyJsp is inserted.
+         Finally comes the footer.
+         
+         request.attributes:                    
+            "bodyJsp" - jsp of the body of this page.
+            "title" - title of page
+            "css" - optional additional css for page
+            "scripts" - optional name of file containing <script> elements to be included in the page
+            "bodyAttr" - optional attributes for the <body> tag, e.g. 'onload': use leading space
+            "portalBean" - PortalBean object for request.
+                     
+          Consider sticking < % = MiscWebUtils.getReqInfo(request) % > in the html output
+          for debugging info.
+                 
+         bdc34 2006-02-03 created        
+        **********************************************/
+        /*
+        String e = "";
+        if (request.getAttribute("bodyJsp") == null){
+            e+="basicPage.jsp expects that request parameter 'bodyJsp' be set to the jsp to display as the page body.\n";           
+        }         
+        if (request.getAttribute("title") == null){
+            e+="basicPage.jsp expects that request parameter 'title' be set to the title to use for page.\n";           
+        }         
+        if (request.getAttribute("css") == null){
+            e+="basicPage.jsp expects that request parameter 'css' be set to css to include in page.\n";            
+        }         
+        if( request.getAttribute("portalBean") == null){
+            e+="basicPage.jsp expects that request attribute 'portalBean' be set.\n";           
+        }
+        if( request.getAttribute("appBean") == null){
+            e+="basicPage.jsp expects that request attribute 'appBean' be set.\n";          
+        }
+        if( e.length() > 0 ){
+            throw new JspException(e);
+        }
+        */
+%>
+
+<c:set var="bodyJsp"><c:out value="${requestScope.bodyJsp}" default="/debug.jsp"/></c:set>
+<c:import url="${bodyJsp}"/>

webapp/web/templates/visualization/ajax_vis_content.jsp

@@ -0,0 +1,7 @@
+<%@ page import="edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.SparklineVOContainer" %>
+<%@ taglib uri="http://java.sun.com/jstl/core" prefix="c" %>
+
+<c:set var='sparkline' value='${requestScope.sparklineVO}'/>
+
+${sparkline.sparklineContent}
+${sparkline.sparklineContext}

webapp/web/templates/visualization/co_authorship.jsp

@@ -0,0 +1,277 @@
+<%@ taglib uri="http://java.sun.com/jstl/core" prefix="c"%>
+<%@ taglib uri="http://java.sun.com/jsp/jstl/functions" prefix="fn"%>
+
+<c:set var="portalBean" value="${requestScope.portalBean}" />
+<c:set var="portalBean" value="${requestScope.portalBean}" />
+<c:set var="themeDir">
+	<c:out value="${portalBean.themeDir}" />
+</c:set>
+<c:set var="contextPath">
+	<c:out value="${pageContext.request.contextPath}" />
+</c:set>
+
+<c:url var="egoCoAuthorshipDataURL" value="/admin/visQuery">
+	<c:param name="vis" value="coauthorship" />
+	<c:param name="render_mode" value="data" />
+	<c:param name="uri" value="${requestScope.egoURIParam}" />
+	<c:param name="labelField" value="name" />
+</c:url>
+
+
+<c:url var="egoSparklineVisURL" value="/admin/visQuery">
+	<c:param name="render_mode" value="dynamic"/>
+	<c:param name="container" value="ego_sparkline"/>
+	<c:param name="vis" value="person_pub_count"/>
+	<c:param name="vis_mode" value="full"/>
+	<c:param name="uri" value="${requestScope.egoURIParam}"/>
+</c:url>
+
+<c:url var="jquery" value="/js/jquery.js" />
+<c:url var="adobeFlashDetector" value="/js/visualization/coauthorship/AC_OETags.js" />
+<c:url var="coAuthorShipJavaScript" value="/js/visualization/coauthorship/co_authorship.js" />
+<c:url var="googleVisualizationAPI" value="http://www.google.com/jsapi?autoload=%7B%22modules%22%3A%5B%7B%22name%22%3A%22visualization%22%2C%22version%22%3A%221%22%2C%22packages%22%3A%5B%22areachart%22%2C%22imagesparkline%22%5D%7D%5D%7D"/>
+<c:url var="style" value="/${themeDir}css/visualization/coauthorship/style.css" />
+<c:url var="noImage" value="/${themeDir}site_icons/visualization/coauthorship/no_image.png" />
+<c:url var="swfLink" value="/${themeDir}site_icons/visualization/coauthorship/CoAuthor.swf" />
+
+
+
+<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN" "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
+<html xmlns="http://www.w3.org/1999/xhtml">
+<head>
+<meta http-equiv="Content-Type" content="text/html; charset=iso-8859-1" />
+
+
+<title>Co-Authorship Visualization</title>
+
+<script type="text/javascript" src="${adobeFlashDetector}"></script>
+
+
+<script language="JavaScript" type="text/javascript">
+<!--
+// -----------------------------------------------------------------------------
+// Globals
+// Major version of Flash required
+var requiredMajorVersion = 10;
+// Minor version of Flash required
+var requiredMinorVersion = 0;
+// Minor version of Flash required
+var requiredRevision = 0;
+// -----------------------------------------------------------------------------
+
+
+var swfLink = "${swfLink}";
+var egoCoAuthorshipDataURL = "${egoCoAuthorshipDataURL}";
+var contextPath = "${contextPath}";
+
+
+// -->
+</script>
+
+<script type="text/javascript" src="${jquery}"></script>
+<script type="text/javascript" src="${googleVisualizationAPI}"></script>
+<link href="${style}" rel="stylesheet" type="text/css" />
+
+<script type="text/javascript" src="${coAuthorShipJavaScript}"></script>
+
+<style type="text/css">
+		#ego_sparkline {
+			cursor:pointer;
+			height:36px;
+			margin-left:24%;
+			/*margin-top:-18%;*/
+			position:absolute;
+			width:471px;
+		}
+	</style>
+	
+</head>
+
+<body>
+
+
+<div id="body">
+
+                    
+<%-- Label --%>
+<div class="datatypePropertyValue">
+	<div class="statementWrap">
+		<span id="ego_label"></span>
+    </div>
+</div>
+
+<%-- Moniker--%>                       
+<div class="datatypeProperties">
+    <div class="datatypePropertyValue">
+        <div class="statementWrap">
+            <span id="ego_moniker" class="moniker"></span>                       
+        </div>
+    </div>
+</div>
+    
+<%-- Image --%>  
+<div class="datatypeProperties">
+    <div class="datatypePropertyValue">
+        <div id="ego_profile-image" class="statementWrap thumbnail"> 
+        </div>
+    </div>
+</div> 
+
+<%-- Sparkline --%>  
+<div class="datatypeProperties">
+    <div class="datatypePropertyValue">
+        <div id="ego_sparkline">
+        
+        ${requestScope.egoURIParam}
+         
+        </div>
+    </div>
+</div> 
+
+	             
+<div id="topShadow"></div>
+<div id="bodyPannel" style="height: 900px;"><br class="spacer" />
+<div id="visPanel" style="float: left; width: 610px;">
+
+<script type="text/javascript">
+
+<!--
+
+renderCoAuthorshipVisualization();
+
+//-->
+
+</script>
+
+
+</div>
+<div id="dataPanel" style="float: left; width: 150px;"><br />
+<br />
+<br />
+<br />
+<br />
+<br />
+
+	<div id="newsLetter" style="visibility: hidden">
+		<span class="nltop"></span>
+		<div class="middle" id="nodeData">
+		<div id="profileImage"></div>
+		<div class="bold"><strong><span id="authorName">&nbsp;</span></strong></div>
+		<div class="italicize"><span id="profileMoniker"></span></div>
+		<div class="works"><span class="numbers" style="width: 40px;"
+			id="works">6</span>&nbsp;&nbsp;<span class="title">Works</span></div>
+		<div class="works"><span class="numbers" style="width: 40px;"
+			id="coAuthors">78</span>&nbsp;&nbsp;<span>Co-author(s)</span></div>
+		<br />
+		<div id="firstPublication"><span></span>&nbsp;<span>First
+		Publication</span></div>
+		<div id="lastPublication"><span></span>&nbsp;Last Publication</div>
+		<br />
+		<div><a href="#" id="profileUrl">VIVO profile</a></div>
+		<br />
+		<div><a href="#" id="coAuthorshipVisUrl">Co-author network of <span id="coAuthorName"></span></a></div>
+		</div>
+		<br class="spacer"> <span class="nlbottom"></span>
+	</div>
+
+</div>
+
+Download co-authorship newtwork as <a href="/vivo1/admin/visQuery?uri=http%3A%2F%2Fvivo.library.cornell.edu%2Fns%2F0.1%23individual5748&amp;vis=person_pub_count&amp;render_mode=data">.graphml</a> file.
+
+<div id="bottomShadow"></div>
+
+
+</div>
+
+<br class="spacer" />
+
+<table id="publications_data_table">
+	<caption>Publications per year</caption>
+	<thead>
+		<tr>
+			<th>Year</th>
+			<th>Publications</th>
+		</tr>
+	</thead>
+	<tbody>
+		<tr>
+			<td>2004</td>
+			<td>4</td>
+		</tr>
+		<tr>
+			<td>2005</td>
+			<td>2</td>
+		</tr>
+		<tr>
+			<td>11</td>
+		</tr>
+		<tr>
+			<td>Unknown</td>
+			<td>1</td>
+		</tr>
+	</tbody>
+</table>
+
+Download data as <a href="/vivo1/admin/visQuery?uri=http%3A%2F%2Fvivo.library.cornell.edu%2Fns%2F0.1%23individual5748&amp;vis=person_pub_count&amp;render_mode=data">.csv</a> file.
+
+<table id="coauthorships_data_table">
+	<caption>Co - Authorhips</caption>
+	<thead>
+		<tr>
+			<th>Name</th>
+			<th>Publications</th>
+		</tr>
+	</thead>
+	<tbody>
+		<tr>
+			<td>2004</td>
+			<td>4</td>
+		</tr>
+		<tr>
+			<td>2005</td>
+			<td>2</td>
+		</tr>
+		<tr>
+			<td>11</td>
+		</tr>
+		<tr>
+			<td>Unknown</td>
+			<td>1</td>
+		</tr>
+	</tbody>
+</table>
+
+
+
+
+</div>
+<script>
+$(document).ready(function(){
+
+	processProfileInformation("ego_label", 
+							  "ego_moniker",
+							  "ego_profile-image",
+							  jQuery.parseJSON(getWellFormedURLs("${requestScope.egoURIParam}", "profile_info")));
+
+	renderSparklineVisualization("${egoSparklineVisURL}");
+	
+
+	var obj = jQuery.parseJSON('{"name":"John"}');
+	//console.log(obj)
+
+	var obj = jQuery.parseJSON('{"imageOffset2":["sup"],"A":["2001","2002","2003","2090","Unknown"],"B":["2001","2002","2003","2090","Unknown"],"C":["2001","2002","2003","2090","Unknown"],"imageOffset":["2090","2002","2003","2001"]}');
+	//console.log(obj)
+
+	 $.each(obj, function(i, item){
+		 //console.log("i - " + i + " item - " + item);
+				$.each(item, function(index, vals) {
+						//console.log(index + " - val - " + vals);
+					});
+		 
+       });
+	
+});
+</script>
+
+</body>
+</html>

webapp/web/templates/visualization/dummy_vis_client.jsp

@@ -0,0 +1,407 @@
+<%@ taglib uri="http://java.sun.com/jstl/core" prefix="c" %>
+<%@ taglib uri="http://java.sun.com/jsp/jstl/functions" prefix="fn"%>
+
+<c:set var="portal" value="${requestScope.portalBean}"/>
+<c:set var="themeDir"><c:out value="${portal.themeDir}" /></c:set>
+
+<c:url var="staticHref" value="/admin/visQuery">
+	<c:param name="vis" value="person_pub_count"/>
+	<c:param name="render_mode" value="standalone"/>
+	<c:param name="vis_mode" value="wth"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual5156"/>
+</c:url>
+
+<c:url var="staticHref2" value="/admin/visQuery">
+	<c:param name="vis" value="person_pub_count"/>
+	<c:param name="vis_mode" value="short"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual5611"/>
+</c:url>
+
+<c:url var="staticHref_d" value="/admin/visQuery">
+	<c:param name="render_mode" value="dynamic"/>
+	<c:param name="container" value="ajax_recipient"/>
+	<c:param name="vis" value="person_pub_count"/>
+	<c:param name="vis_mode" value="short"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual5156"/>
+</c:url>
+
+<c:url var="staticHref2_d" value="/admin/visQuery">
+	<c:param name="render_mode" value="dynamic"/>
+	<c:param name="container" value="ajax_recipient"/>
+	<c:param name="vis" value="person_pub_count"/>
+	<c:param name="vis_mode" value="full"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual5611"/>
+</c:url>
+
+
+<c:url var="staticHref3" value="/admin/visQuery">
+	<c:param name="vis" value="person_pub_count"/>
+	<c:param name="vis_mode" value="short"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual5748"/>
+</c:url>
+
+
+<c:url var="staticHref3_d" value="/admin/visQuery">
+	<c:param name="render_mode" value="dynamic"/>
+	<c:param name="vis" value="person_pub_count"/>
+	<c:param name="container" value="ajax_recipient"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual22919"/>
+</c:url>
+
+
+
+<c:url var="collegeCSV" value="/admin/visQuery">
+	<c:param name="vis" value="college_pub_count"/>
+	<c:param name="render_mode" value="data"/>
+	<c:param name="vis_mode" value="wth"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual5249"/>
+</c:url>
+
+<c:url var="collegeCSV2" value="/admin/visQuery">
+	<c:param name="vis" value="college_pub_count"/>
+	<c:param name="render_mode" value="data"/>
+	<c:param name="vis_mode" value="wth"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual134"/>
+</c:url>
+
+
+<c:url var="collegeCSV3" value="/admin/visQuery">
+	<c:param name="vis" value="college_pub_count"/>
+	<c:param name="render_mode" value="data"/>
+	<c:param name="vis_mode" value="wth"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual249"/>
+</c:url>
+
+
+<c:url var="collegeCSV4" value="/admin/visQuery">
+	<c:param name="vis" value="college_pub_count"/>
+	<c:param name="render_mode" value="data"/>
+	<c:param name="vis_mode" value="wth"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual250"/>
+</c:url>
+
+<c:url var="collegeCSV5" value="/admin/visQuery">
+	<c:param name="vis" value="college_pub_count"/>
+	<c:param name="render_mode" value="data"/>
+	<c:param name="vis_mode" value="wth"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual192"/>
+</c:url>
+
+<c:url var="coAuthorship1Data" value="/admin/visQuery">
+	<c:param name="vis" value="coauthorship"/>
+	<c:param name="render_mode" value="data"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual5748"/>
+</c:url>
+
+<c:url var="coAuthorship2Data" value="/admin/visQuery">
+	<c:param name="vis" value="coauthorship"/>
+	<c:param name="render_mode" value="data"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual5156"/>
+</c:url>
+
+<c:url var="coAuthorship3Data" value="/admin/visQuery">
+	<c:param name="vis" value="coauthorship"/>
+	<c:param name="render_mode" value="data"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual5611"/>
+</c:url>
+
+
+<c:url var="coAuthorship4Data" value="/admin/visQuery">
+	<c:param name="vis" value="coauthorship"/>
+	<c:param name="render_mode" value="data"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual5412"/>
+</c:url>
+
+<c:url var="coAuthorship1" value="/admin/visQuery">
+	<c:param name="vis" value="coauthorship"/>
+	<c:param name="render_mode" value="standalone"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual5748"/>
+</c:url>
+
+<c:url var="coAuthorship2" value="/admin/visQuery">
+	<c:param name="vis" value="coauthorship"/>
+	<c:param name="render_mode" value="standalone"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual5156"/>
+</c:url>
+
+<c:url var="coAuthorship3" value="/admin/visQuery">
+	<c:param name="vis" value="coauthorship"/>
+	<c:param name="render_mode" value="standalone"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual5611"/>
+</c:url>
+
+<c:url var="coAuthorship4" value="/admin/visQuery">
+	<c:param name="vis" value="coauthorship"/>
+	<c:param name="render_mode" value="standalone"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual5412"/>
+</c:url>
+
+
+<c:url var="coAuthorship5" value="/admin/visQuery">
+	<c:param name="vis" value="coauthorship"/>
+	<c:param name="render_mode" value="standalone"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual5714"/>
+</c:url>
+
+<c:url var="coAuthorship5Data" value="/admin/visQuery">
+	<c:param name="vis" value="coauthorship"/>
+	<c:param name="render_mode" value="data"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual5714"/>
+</c:url>
+
+
+<c:url var="coAuthorship6" value="/admin/visQuery">
+	<c:param name="vis" value="coauthorship"/>
+	<c:param name="render_mode" value="standalone"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual240"/>
+</c:url>
+
+<c:url var="coAuthorship6Data" value="/admin/visQuery">
+	<c:param name="vis" value="coauthorship"/>
+	<c:param name="render_mode" value="data"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual240"/>
+</c:url>
+
+<c:url var="coAuthorship7" value="/admin/visQuery">
+	<c:param name="vis" value="coauthorship"/>
+	<c:param name="render_mode" value="standalone"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual37"/>
+</c:url>
+
+<c:url var="coAuthorship7Data" value="/admin/visQuery">
+	<c:param name="vis" value="coauthorship"/>
+	<c:param name="render_mode" value="data"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual37"/>
+</c:url>
+
+<c:url var="coAuthorship8" value="/admin/visQuery">
+	<c:param name="vis" value="coauthorship"/>
+	<c:param name="render_mode" value="standalone"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual5355"/>
+</c:url>
+
+<c:url var="coAuthorship8Data" value="/admin/visQuery">
+	<c:param name="vis" value="coauthorship"/>
+	<c:param name="render_mode" value="data"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual5355"/>
+</c:url>
+
+<c:url var="coAuthorship9" value="/admin/visQuery">
+	<c:param name="vis" value="coauthorship"/>
+	<c:param name="render_mode" value="standalone"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual5734"/>
+</c:url>
+
+
+<c:url var="coAuthorship9Data" value="/admin/visQuery">
+	<c:param name="vis" value="coauthorship"/>
+	<c:param name="render_mode" value="data"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual5734"/>
+</c:url>
+
+<c:url var="coAuthorship10" value="/admin/visQuery">
+	<c:param name="vis" value="coauthorship"/>
+	<c:param name="render_mode" value="standalone"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual12053"/>
+</c:url>
+
+<c:url var="coAuthorship10Data" value="/admin/visQuery">
+	<c:param name="vis" value="coauthorship"/>
+	<c:param name="render_mode" value="data"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual12053"/>
+</c:url>
+
+<c:url var="coAuthorshipSparklineData" value="/admin/visQuery">
+	<c:param name="vis" value="coauthorship"/>
+	<c:param name="vis_mode" value="sparkline"/>
+	<c:param name="render_mode" value="data"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual5748"/>
+</c:url>
+
+<c:url var="personLevel1" value="/admin/visQuery">
+	<c:param name="vis" value="person_level"/>
+	<c:param name="render_mode" value="standalone"/>
+	<c:param name="container" value="ego_sparkline"/>
+	<c:param name="uri" value="http://vivo.library.cornell.edu/ns/0.1#individual5748"/>
+</c:url>
+
+<c:url var="loadingImageLink" value="/${themeDir}site_icons/visualization/ajax-loader.gif"></c:url>
+
+<style type="text/css">
+	.get_vis {
+		background-color:Yellow;
+		color:blue;
+		cursor:pointer;
+		height:36px;
+		width:225px;
+	}
+</style>
+
+
+<script type="text/javascript">
+<!--
+
+$(document).ready(function() {
+
+	function renderVisualization(visualizationURL) {
+
+		$("#ajax_recipient").empty().html('<img src="${loadingImageLink}" />');
+
+		   $.ajax({
+			   url: visualizationURL,
+			   dataType: "html",
+			   success:function(data){
+			     $("#ajax_recipient").html(data);
+
+			   }
+			 });
+
+	}
+
+	   $("#ajax_activator").click(function() {
+		   $.ajax({
+			   url: '${staticHref3_d}',
+			   dataType: "html",
+			   success:function(data){
+
+
+			     $("#ajax_recipient").text(data);
+
+			   }
+			 });
+	   });
+
+
+	   $("#ajax_activator_1").click(function() {
+
+		   renderVisualization('${staticHref_d}');
+
+	   });
+
+
+	   $("#ajax_activator_2").click(function() {
+
+		   renderVisualization('${staticHref2_d}');
+
+	   });
+
+
+	   $("#ajax_activator_3").click(function() {
+
+		   renderVisualization('${staticHref3_d}');
+
+	   });
+
+
+	 });
+
+
+
+//-->
+</script>
+
+<div class="staticPageBackground">
+
+<style type="text/css">
+
+#test-bed {
+	background-color:red;
+	color:white;
+	text-align:center;
+}
+
+</style>
+
+<h1 id="test-bed">Visualization Testbed (Not to be seen by eventual end users)</h1>
+
+
+
+<a href='<c:out value="${coAuthorship1}"/>'>vis link for coauthorship -> "Erb, Hollis Nancy"</a>
+&nbsp;&nbsp;<a href='<c:out value="${coAuthorship1Data}"/>'>Data</a>
+&nbsp;&nbsp;<a href='<c:out value="${personLevel1}"/>'>Person Level</a>
+&nbsp;&nbsp;<a href='<c:out value="${coAuthorshipSparklineData}"/>'>Unique Coauthors CSV Data</a>
+<br />
+<a href='<c:out value="${coAuthorship2}"/>'>vis link for coauthorship -> "Not Working" {"Crane, Brian"}</a>&nbsp;
+<a href='<c:out value="${coAuthorship2Data}"/>'>Data</a><br />
+<a href='<c:out value="${coAuthorship3}"/>'>vis link for coauthorship -> "Merwin, Ian A"</a>&nbsp;
+<a href='<c:out value="${coAuthorship3Data}"/>'>Data</a><br />
+<a href='<c:out value="${coAuthorship4}"/>'>vis link for coauthorship -> "Thies, Janice"</a>&nbsp;
+<a href='<c:out value="${coAuthorship4Data}"/>'>Data</a><br />
+<a href='<c:out value="${coAuthorship5}"/>'>vis link for coauthorship -> "Not Working"</a>&nbsp;
+<a href='<c:out value="${coAuthorship5Data}"/>'>Data</a><br />
+<a href='<c:out value="${coAuthorship6}"/>'>vis link for coauthorship -> "Boor, Kathryn Jean"</a>&nbsp;
+<a href='<c:out value="${coAuthorship6Data}"/>'>Data</a><br />
+<a href='<c:out value="${coAuthorship7}"/>'>vis link for coauthorship -> "Wiedmann, Martin"</a>&nbsp;
+<a href='<c:out value="${coAuthorship7Data}"/>'>Data</a><br />
+<a href='<c:out value="${coAuthorship8}"/>'>vis link for coauthorship -> "Not Working"</a>&nbsp;
+<a href='<c:out value="${coAuthorship8Data}"/>'>Data</a><br />
+<a href='<c:out value="${coAuthorship9}"/>'>vis link for coauthorship -> "Not Working"</a>&nbsp;
+<a href='<c:out value="${coAuthorship9Data}"/>'>Data</a><br />
+<a href='<c:out value="${coAuthorship10}"/>'>vis link for coauthorship -> "Not Working"</a>&nbsp;
+<a href='<c:out value="${coAuthorship10Data}"/>'>Data</a><br />
+
+<br /><br /><br />
+
+<a href='<c:out value="${collegeCSV}"/>'>vis data query for college -> "School of Industrial and Labor Relations (ILR)"</a><br />
+<a href='<c:out value="${collegeCSV2}"/>'>vis data query for college -> "College of Agriculture and Life Sciences (CALS)"</a><br />
+<a href='<c:out value="${collegeCSV3}"/>'>vis data query for college -> "College of Arts and Sciences"</a><br />
+<a href='<c:out value="${collegeCSV4}"/>'>vis data query for college -> "College of Engineering"</a><br />
+<a href='<c:out value="${collegeCSV5}"/>'>vis data query for college -> "Joan and Sanford I. Weill Medical College"</a><br />
+
+<a href='<c:out value="${staticHref}"/>'>vis query for person -> "Crane, Brian"</a>
+
+
+<div id="ajax_activator_1" class="get_vis">
+Click to render this Person's vis via AJAX.
+</div>
+
+<br />
+
+<a href='<c:out value="${staticHref2}"/>'>vis query for person -> "Merwin, Ian A"</a>
+
+<div id="ajax_activator_2" class="get_vis">
+Click to render this Person's vis via AJAX.
+</div>
+
+<br />
+
+
+<a href='<c:out value="${staticHref3}"/>'>vis query for person -> "Erb, Hollis Nancy"</a>
+
+<div id="ajax_activator_3" class="get_vis">
+Click to render this Person's vis via AJAX.
+</div>
+
+<br />
+
+<br />
+<div id="ajax_activator" class="get_vis">
+AJAX Content in Text (only for research)
+</div>
+
+
+<br />
+<br />
+
+
+
+<div id="ajax_recipient">
+vis Content via AJAX here
+
+<!--
+
+<div id="pub_count_areachart_vis">AREA CHART</div>
+
+<div id="pub_count_sparkline_vis">pub sparkline chart</div>
+
+
+-->
+
+
+
+
+
+</div>
+
+</div>
+

webapp/web/templates/visualization/person_level.jsp

@@ -0,0 +1,284 @@
+<%@ page import="edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.SparklineVOContainer"%>
+
+<%@ taglib uri="http://java.sun.com/jstl/core" prefix="c"%>
+
+<c:set var="portalBean" value="${requestScope.portalBean}" />
+<c:set var="themeDir"><c:out value="${portalBean.themeDir}" /></c:set>
+<c:url var="visImageContextPath" value="/${themeDir}site_icons/visualization/" />
+<c:url var="loadingImageLink" value="/${themeDir}site_icons/visualization/ajax-loader.gif"></c:url>
+
+<c:set var='egoPubSparkline' value='${requestScope.egoPubSparklineVO}' />
+<c:set var='uniqueCoauthorsSparkline' value='${requestScope.uniqueCoauthorsSparklineVO}' />
+
+<c:set var='egoPubSparklineContainerID' value='${requestScope.egoPubSparklineContainerID}' />
+<c:set var='uniqueCoauthorsSparklineVisContainerID' value='${requestScope.uniqueCoauthorsSparklineVisContainerID}' />
+
+<c:set var='numOfAuthors' value='${requestScope.numOfAuthors}' />
+<c:set var='numOfCoAuthorShips' value='${requestScope.numOfCoAuthorShips}' />
+
+
+<c:url var="egoSparklineDataURL" value="/admin/visQuery">
+	<c:param name="render_mode" value="data" />
+	<c:param name="vis" value="person_pub_count" />
+	<c:param name="uri" value="${requestScope.egoURIParam}" />
+</c:url>
+
+<c:url var="coAuthorshipDownloadFile" value="/admin/visQuery">
+	<c:param name="vis" value="person_level" />
+	<c:param name="render_mode" value="data" />
+	<c:param name="uri" value="${requestScope.egoURIParam}" />
+</c:url>
+
+<div id="body">
+
+
+<style type="text/css">
+
+#body h1 {
+	margin:0.0em;
+} 
+
+.sparkline_wrapper_table {
+	display: inline;
+	vertical-align: bottom;
+}
+
+.author_name {
+	color: #13968c;
+	font-weight: bold;
+}
+
+.neutral_author_name {
+	color: black;
+	font-weight: bold;
+}
+
+.author_moniker {
+	color: #9C9C9C;
+}
+
+.sub_headings {
+	color: #121b3c;
+	padding-top: 10px;
+	margin-bottom: 0.3em;
+}
+
+.sub_headings a {
+	font-size:0.7em;
+	font-weight:normal;
+}
+
+table.sparkline_wrapper_table td, th {
+	vertical-align: bottom;
+}
+
+.inline_href {
+}
+
+
+#ego_profile {
+	padding-left:10px;
+	padding-top:10px;
+	min-height: 100px;
+}
+
+#ego_label {
+	font-size:1.1em;
+	/*margin-left:100px;
+	margin-top:9px;
+	position:absolute;*/
+}
+
+#ego_moniker {
+	/*margin-left:100px;
+	margin-top:27px;
+	position:absolute;*/
+}
+
+#ego_profile_image {
+	float:left;
+	padding-right: 5px;
+
+	/*width: 100px;*/
+}
+
+#ego_sparkline {
+	cursor:pointer;
+	height:36px;
+	/*
+	margin-left:10px;
+	margin-top:69px;
+	position:absolute;*/
+	width:471px;
+}
+
+#dataPanel {
+	/*
+	float: left; 
+	width: 150px; 
+	visibility:hidden;*/
+}
+
+#coauthorships_table th {
+	vertical-align: top;
+}
+
+</style>
+
+<!--[if IE]>
+	<style type="text/css">
+	
+	#${egoPubSparklineContainerID},
+	#${uniqueCoauthorsSparklineVisContainerID} {
+		padding-bottom:15px;
+	}
+	
+	#ego_label {
+		margin-left:-3px;
+	}
+	</style>
+<![endif]-->
+
+<div id="ego_profile">
+
+	
+	<%-- Image --%>
+			<span id="ego_profile_image"></span>
+			
+	<%-- Label --%>
+			<h1><span id="ego_label" class="author_name"></span></h1>
+	
+	<%-- Moniker--%>
+			<span id="ego_moniker" class="author_moniker"></span>
+
+
+	<div style="clear:both;"></div>
+	
+	<%-- Sparkline --%>
+		<h2 class="sub_headings">General Statistics</h2>
+			<div id="${egoPubSparklineContainerID}">
+				${egoPubSparkline.sparklineContent}
+			</div>
+			
+			<div id="${uniqueCoauthorsSparklineVisContainerID}">
+				${uniqueCoauthorsSparkline.sparklineContent}
+			</div>
+			
+		<h2 class="sub_headings">Co-Author Network 
+				<%-- A simple if/else condition --%>
+		<c:choose>
+		    <c:when test="${numOfCoAuthorShips > 0 || numOfAuthors > 0}">
+		       <a href="${coAuthorshipDownloadFile}">(.GraphML File)</a></h2>
+		    </c:when>
+		    <c:otherwise>
+		        </h2>
+		        
+		        <c:if test='${numOfAuthors > 0}'>
+		        	<c:set var='authorsText' value='multi-author' />
+		        </c:if>
+		        
+		        <span id="no_coauthorships">Currently there are no ${authorsText} papers for 
+		        	<span id="no_coauthorships_person" class="author_name">this author</span> in the VIVO database.</span>
+		    </c:otherwise>
+		</c:choose>
+		
+
+
+</div>	
+
+<c:if test='${numOfCoAuthorShips > 0 || numOfAuthors > 0}'>
+
+<div id="bodyPannel">
+	
+	
+	<div id="visPanel" style="float: left; width: 600px;">
+		<script language="JavaScript" type="text/javascript">
+			<!--
+			renderCoAuthorshipVisualization();
+			//-->
+		</script>
+	</div>
+	
+	<div id="dataPanel">
+		
+		<br />
+		<br />
+		<div id="profileImage"></div>
+		
+		<div class="bold"><strong><span id="authorName" class="neutral_author_name">&nbsp;</span></strong></div>
+		
+		<div class="italicize"><span id="profileMoniker" class="author_moniker"></span></div>
+		<div><a href="#" id="profileUrl">VIVO profile</a> | <a href="#" id="coAuthorshipVisUrl">Co-author network</a></div> 
+		<br />
+		<div class="works"><span class="numbers" style="width: 40px;" id="works"></span>&nbsp;&nbsp;<span class="title">Works</span></div>
+		<div class="works"><span class="numbers" style="width: 40px;" id="coAuthors"></span>&nbsp;&nbsp;<span>Co-author(s)</span></div>
+		
+		<div class="works" id="fPub" style="visibility:hidden"><span class="numbers" style="width:40px;" id="firstPublication"></span>&nbsp;&nbsp;<span>First Publication</span></div>
+		<div class="works" id="lPub" style="visibility:hidden"><span class="numbers" style="width:40px;" id="lastPublication"></span>&nbsp;&nbsp;<span>Last Publication</span></div>
+		
+	</div>
+
+</div>
+
+</c:if>
+
+<c:if test='${numOfAuthors > 0}'>
+
+	<div class="vis_stats">
+	
+	<h2 class="sub_headings">Tables</h2>
+	
+		<div class="vis-tables">
+			<p id="publications_table_container" class="datatable">
+				${egoPubSparkline.table} 
+			</p>
+		</div>
+		
+		<c:if test='${numOfCoAuthorShips > 0}'>
+	
+			<div class="vis-tables">
+				<p id="coauth_table_container" class="datatable"></p>
+			</div>
+		
+		</c:if>
+		
+		<div style="clear:both;"></div>
+	
+	</div>
+</c:if>
+
+</div>
+
+<script language="JavaScript" type="text/javascript">
+$(document).ready(function(){
+
+		<c:if test='${numOfCoAuthorShips > 0}'>
+	    	$("#coauth_table_container").empty().html('<img id="loadingData" with="auto" src="${loadingImageLink}" />');
+	    </c:if>
+	    	
+	processProfileInformation("ego_label", 
+							  "ego_moniker",
+							  "ego_profile_image",
+							  jQuery.parseJSON(getWellFormedURLs("${requestScope.egoURIParam}", "profile_info")));
+
+	/*
+	if ($('#profileMoniker').text().length > 30) {
+		//$('#profileMoniker').text($('#profileMoniker').text().substr(0, 30) + "...");
+		console.log("what");
+	}*/
+
+	
+	<c:if test='${numOfCoAuthorShips <= 0}'>
+
+		if ($('#ego_label').text().length > 0) {
+			setProfileName('no_coauthorships_person', $('#ego_label').text());
+		}
+		
+	</c:if>	
+
+	
+
+	  
+
+});
+</script>

webapp/web/templates/visualization/person_level_inject_head.jsp

@@ -0,0 +1,59 @@
+<%@ taglib uri="http://java.sun.com/jstl/core" prefix="c" %>
+
+<c:set var="portalBean" value="${requestScope.portalBean}" />
+<c:set var="themeDir"><c:out value="${portalBean.themeDir}" /></c:set>
+<c:set var="contextPath"><c:out value="${pageContext.request.contextPath}" /></c:set>
+
+<c:url var="egoCoAuthorshipDataFeederURL" value="/admin/visQuery">
+	<c:param name="vis" value="coauthorship" />
+	<c:param name="render_mode" value="data" />
+	<c:param name="uri" value="${requestScope.egoURIParam}" />
+	<c:param name="labelField" value="name" />
+</c:url>
+
+<c:url var="egoCoAuthorsListDataFileURL" value="/admin/visQuery">
+	<c:param name="vis" value="person_level" />
+	<c:param name="render_mode" value="data" />
+	<c:param name="vis_mode" value="coauthors" />
+	<c:param name="uri" value="${requestScope.egoURIParam}" />
+</c:url>
+
+<c:url var="swfLink" value="/${themeDir}site_icons/visualization/coauthorship/CoAuthor.swf" />
+
+<c:url var="jquery" value="/js/jquery.js"/>
+<c:url var="adobeFlashDetector" value="/js/visualization/coauthorship/AC_OETags.js" />
+<c:url var="googleVisualizationAPI" value="http://www.google.com/jsapi?autoload=%7B%22modules%22%3A%5B%7B%22name%22%3A%22visualization%22%2C%22version%22%3A%221%22%2C%22packages%22%3A%5B%22areachart%22%2C%22imagesparkline%22%5D%7D%5D%7D"/>
+<c:url var="coAuthorShipJavaScript" value="/js/visualization/personlevel/person_level.js" />
+
+<script type="text/javascript" src="${adobeFlashDetector}"></script>
+<script type="text/javascript" src="${jquery}"></script>
+<script type="text/javascript" src="${googleVisualizationAPI}"></script>
+
+<script language="JavaScript" type="text/javascript">
+<!--
+// -----------------------------------------------------------------------------
+// Globals
+// Major version of Flash required
+var requiredMajorVersion = 10;
+// Minor version of Flash required
+var requiredMinorVersion = 0;
+// Minor version of Flash required
+var requiredRevision = 0;
+// -----------------------------------------------------------------------------
+
+
+var swfLink = "${swfLink}";
+var egoCoAuthorshipDataFeederURL = "${egoCoAuthorshipDataFeederURL}";
+var egoCoAuthorsListDataFileURL = "${egoCoAuthorsListDataFileURL}";
+var contextPath = "${contextPath}";
+
+// -->
+</script>
+<script type="text/javascript" src="${coAuthorShipJavaScript}"></script>
+
+
+<c:url var="coAuthorStyle" value="/${themeDir}css/visualization/personlevel/coauthor_style.css" />
+<c:url var="pageStyle" value="/${themeDir}css/visualization/personlevel/page.css" />
+
+<link href="${coAuthorStyle}" rel="stylesheet" type="text/css" />
+<link href="${pageStyle}" rel="stylesheet" type="text/css" />

webapp/web/templates/visualization/publication_count.jsp

@@ -0,0 +1,15 @@
+<%@ page import="edu.cornell.mannlib.vitro.webapp.visualization.valueobjects.SparklineVOContainer" %>
+
+<%@ taglib uri="http://java.sun.com/jstl/core" prefix="c" %>
+<%@ taglib uri="http://java.sun.com/jsp/jstl/functions" prefix="fn"%>
+
+<c:set var='sparkline' value='${requestScope.sparklineVO}'/>
+
+<div class="staticPageBackground">
+
+
+<div id="pub_count_vis_container">
+${sparkline.sparklineContent}
+</div>
+${sparkline.sparklineContext}
+</div>

webapp/web/templates/visualization/visualization_error.jsp

@@ -0,0 +1,9 @@
+<%@ taglib uri="http://java.sun.com/jstl/core" prefix="c" %>
+<%@ taglib uri="http://java.sun.com/jsp/jstl/functions" prefix="fn"%>
+
+<div class="staticPageBackground">
+
+${requestScope.error} 
+
+</div>
+

webapp/web/templates/visualization/visualization_scripts.jsp

@@ -0,0 +1,24 @@
+<%@ taglib uri="http://java.sun.com/jstl/core" prefix="c" %>
+
+<%  /***********************************************
+    This file is used to inject <link> and <script> elements
+    into the head element of the generated source of a VITRO
+    page that is being displayed by the entity controller.
+    
+    In other words, anything like domain.com/entity?...
+    will have the lines specified here added in the <head>
+    of the page.
+    
+    This is a great way to specify JavaScript or CSS files
+    at the entity display level as opposed to globally.
+    
+    Example:
+    <link rel="stylesheet" type="text/css" href="/css/entity.css"/>" media="screen"/>
+    <script type="text/javascript" src="/js/jquery.js"></script>
+****************************************************/ %>
+
+<c:url var="jquery" value="http://ajax.googleapis.com/ajax/libs/jquery/1.4.2/jquery.min.js"/>
+<c:url var="googleVisualizationAPI" value="http://www.google.com/jsapi?autoload=%7B%22modules%22%3A%5B%7B%22name%22%3A%22visualization%22%2C%22version%22%3A%221%22%2C%22packages%22%3A%5B%22areachart%22%2C%22imagesparkline%22%5D%7D%5D%7D"/>
+
+<script type="text/javascript" src="${jquery}"></script>
+<script type="text/javascript" src="${googleVisualizationAPI}"></script>

webapp/web/themes/default/css/screen.css

@@ -225,6 +225,18 @@ table#head{
 	margin:0;
 }
 
+#research_instance {
+	background-color:red;
+	color:white;
+	font-size:1.25em;
+	font-weight:bold;
+	text-align:center;
+}
+
+#research_instance a {
+	color:white;
+}
+
 /************** header search form *********************************/
 
 td#SearchArea {