public void generateGraph(long structureid, Graph graph)
{
GraphVizEngine structuresGraph = new GraphVizEngine();
structuresGraph.createUndirectedGraph(structureid.ToString());
long factor = 15000;
//FileStream fs = new FileStream(workDirectory+"\\Files\\"+structureid+".dot", FileMode.Create, FileAccess.Write);
//StreamWriter sw = new StreamWriter(fs);
//sw.Write("graph " + structureid + "{\n");
//StringBuilder level = new StringBuilder();
double maxX = 0.0, maxZ = 0.0;
foreach (KeyValuePair<long, Node> node in graph.Nodes)
{
if (maxX < node.Value.position.X)
maxX = node.Value.position.X;
if (maxZ < node.Value.position.Z)
maxZ = node.Value.position.Z;
}
Console.WriteLine("MaxX =" + maxX);
Console.WriteLine("MaxZ =" + maxZ);
structuresGraph.graphAttribites.Add("size", Convert.ToInt32(maxZ / (300 * 5)) + "," + Convert.ToInt32(maxX / (300 * 5)) + "!");
// sw.Write("graph[size=\"" + Convert.ToInt32(maxZ / (300 * 5)) + "," + Convert.ToInt32(maxX / (300 * 5)) + "!\"];\n");
// sw.Write("edge[decorate=false];\n");
// sw.Write("node[fontcolor=white]\n;");
string color = "green";
foreach (KeyValuePair<long, Node> node in graph.Nodes)
{
Nodes tmpNode = structuresGraph.addNode(node.Value.ID);
int radii = Convert.ToInt32(Math.Ceiling(node.Value.radius / (300)));
tmpNode.nodeAttributes.Add("style", "filled");
tmpNode.nodeAttributes.Add("penwidth", "9.0");
tmpNode.nodeAttributes.Add("fillcolor", color);
tmpNode.nodeAttributes.Add("pos", (Convert.ToInt32(Math.Ceiling(node.Value.position.X / 300)) + "," + Convert.ToInt32((maxZ - node.Value.position.Z) / 300) +
"!").ToString());
tmpNode.nodeAttributes.Add("shape", "box");
tmpNode.nodeAttributes.Add("width", radii.ToString());
tmpNode.nodeAttributes.Add("height", (radii / 4).ToString());
tmpNode.nodeAttributes.Add("tooltip", node.Value.ID.ToString());
tmpNode.nodeAttributes.Add("URL", "#");
//sw.Write(node.Value.ID + "[label=\"" + node.Value.ID + "\",style=filled,penwidth=\"9.0\",color=black,fillcolor=" + color + ",pos=\"" + Convert.ToInt32(Math.Ceiling(node.Value.position.X / 300)) + "," + Convert.ToInt32((maxZ - node.Value.position.Z) / 300) +
// "!\",shape=circle,width=\"" + radii + "\",href=\"http://www.google.com\"];\n");
}
List<string> edgeList = new List<string>();
foreach (Edge edge in graph.Edges)
{
Edges tmpEdge = new Edges();
structuresGraph.addEdge(tmpEdge);
tmpEdge.from = edge.A;
tmpEdge.to = edge.B;
tmpEdge.edgeAttributes.Add("label", Math.Round(edge.distance, 2).ToString() + "nm");
tmpEdge.edgeAttributes.Add("style", "setlinewidth(5)");
tmpEdge.edgeAttributes.Add("href", "#");
tmpEdge.edgeAttributes.Add("fontsize", "30");
//sw.Write(edge.A + "--" + edge.B + "[label = \"" + Math.Round(edge.distance, 2) + "nm\",style=\"setlinewidth(5)\",href=\".\",fontsize=30];\n");
}
string workingDirectory = Server.MapPath("~");
ViewData["workDirectory"] = workingDirectory;
string localDir = ViewData["workDirectory"] + "\\Files\\" + HttpContext.User.Identity.Name + "\\";
string fileDir = localDir + structureid;
structuresGraph.completePath_local = fileDir;
ViewData["username"] = HttpContext.User.Identity.Name;
string svgfile = fileDir + ".svg";
string virtualRoot = ViewData["virtualRoot"].ToString();
structuresGraph.completePath_URL = virtualRoot + "/Files/" + HttpContext.User.Identity.Name +"/" + structureid;
structuresGraph.virtualRoot = virtualRoot;
if (!System.IO.Directory.Exists(localDir))
System.IO.Directory.CreateDirectory(localDir);
GraphJSON sendGraph = new GraphJSON();
foreach (KeyValuePair<long, Node> node in graph.Nodes)
{
NodeJSON tempNode = new NodeJSON();
tempNode.ID = node.Value.ID;
tempNode.radius = node.Value.radius / factor;
tempNode.location[0] = node.Value.position.X / factor;
tempNode.location[1] = node.Value.position.Y / factor;
tempNode.location[2] = node.Value.position.Z / factor;
sendGraph.Nodes.Add(tempNode);
}
sendGraph.Edges = graph.Edges;
sendGraph.Synapses = graph.Synapses;
using (FileStream fs = new FileStream(fileDir + ".json", FileMode.Create, FileAccess.Write))
{
using (StreamWriter sw = new StreamWriter(fs))
{
JavaScriptSerializer oSerializer = new JavaScriptSerializer();
sw.Write(oSerializer.Serialize(sendGraph));
sw.Close();
}
fs.Close();
}
structuresGraph.outputFormats.Add("svg");
structuresGraph.layout = "dot";
structuresGraph.Output();
//Add scripts to svg
if (System.IO.File.Exists(svgfile))
{
StringBuilder contents;
using (FileStream file = new FileStream(svgfile, FileMode.OpenOrCreate, FileAccess.ReadWrite))
{
using (StreamReader sr = new StreamReader(file))
{
contents = new StringBuilder(sr.ReadToEnd());
}
}
System.IO.File.Delete(svgfile);
string searchfor = "http://www.w3.org/1999/xlink\">";
contents.Replace(searchfor, searchfor +
"\n<script xlink:href=\"" + virtualRoot + "/Scripts/SVGzoom.js\"/>\n<script xlink:href=\"" + virtualRoot + "/Scripts/effect.js\"/>");
using (FileStream fl = new FileStream(svgfile, FileMode.Create))
{
using (StreamWriter write = new StreamWriter(fl))
{
write.Write(contents.ToString());
}
}
//FileStream f2 = new FileStream(fileDir + "changed.txt", FileMode.Create);
//StreamWriter wrr = new StreamWriter(f2);
//wrr.Write(contents.ToString());
//wrr.Close();
//f2.Close();
}
}
public Graph computeGraph(long structureid)
{
Graph graph = new Graph();
List<long> LocationIds = new List<long>();
LocationIds.Add(structureid);
Structure structure = null;
Location[] results = new Location[0];
using (AnnotateStructuresClient proxyStructures = State.CreateStructureClient())
{
structure = proxyStructures.GetStructureByID(structureid, false);
using (AnnotateLocationsClient proxyLocations = State.CreateLocationsClient())
{
results = proxyLocations.GetLocationsForStructure(structureid);
}
proxyStructures.Close();
}
using (AnnotateStructureTypesClient proxyStructureType = State.CreateStructureTypeClient())
{
StructureType type = proxyStructureType.GetStructureTypeByID(structure.TypeID);
if(type != null)
graph.DefaultNodeColor = type.Color;
proxyStructureType.Close();
}
foreach (Location location in results)
{
AnnotationPoint p = new AnnotationPoint();
p.X = location.VolumePosition.X * 2.18;
p.Y = location.VolumePosition.Y * 2.18;
p.Z = location.VolumePosition.Z * 90;
location.Radius *= 2.18;
location.VolumePosition = p;
Node node = new Node(location);
graph.Nodes.Add(location.ID, node);
}
graph.originalNodes = new Dictionary<long, Node>(graph.Nodes);
graph.createEdges();
graph.generateStats(Convert.ToInt32(structureid));
//FileStream temp = new FileStream("E:\\src\\info.txt", FileMode.OpenOrCreate, FileAccess.ReadWrite);
//StreamWriter wr = new StreamWriter(temp);
//wr.WriteLine(proxy.State);
//wr.Close(); temp.Close();
graph.reduceEdges();
graph.createEdgeList();
graph.createSynapses(Convert.ToInt32(structureid));
return graph;
}
public ActionResult Locations()
{
int cellID;
if (!String.IsNullOrEmpty(Request["ctl00$MainContent$structureID"]) && Int32.Parse(Request["ctl00$MainContent$structureID"]) != 0)
{
cellID = Convert.ToInt32(Request["ctl00$MainContent$structureID"]);
}
else
{
cellID = Convert.ToInt32(Request["cellID"]);
}
ViewData["cellID"] = cellID;
State.selectedService = Request["ctl00$MainContent$dataSource"];
State.selectedLab = Request["ctl00$MainContent$labName"];
ViewData["dataSource"] = State.selectedService;
//Map the virtual path of application
string applicationPath = HttpContext.Request.ApplicationPath;
if (applicationPath == "/")
applicationPath = "";
string workDirectory = Server.MapPath("~");
ViewData["workDirectory"] = workDirectory;
string virtualRoot = "http://" + HttpContext.Request.Url.Authority + applicationPath;
ViewData["virtualRoot"] = virtualRoot;
ViewData["structureid"] = cellID;
Graph graph = new Graph();
graph = computeGraph(cellID);
graph.volumeToSurfaceRatio = Math.Round((graph.cellSurfaceArea / Math.Pow(10, 6)) / (graph.cellVolume / Math.Pow(10, 9)), 3);
generateGraph(cellID, graph);
ViewData["area"] = Math.Round(graph.cellSurfaceArea / Math.Pow(10, 6), 3);
ViewData["volume"] = Math.Round(graph.cellVolume / Math.Pow(10, 9), 3);
ViewData["ratio"] = graph.volumeToSurfaceRatio;
// If 3D is requested, store structureID and return View
if (Request["group2"] == "3D")
{
string fileDir = workDirectory + "\\Files\\" + HttpContext.User.Identity.Name;
if (!System.IO.Directory.Exists(fileDir))
System.IO.Directory.CreateDirectory(fileDir);
string filepath = fileDir + "\\Structure3D.xml";
if (System.IO.File.Exists(filepath))
{
System.IO.File.Delete(filepath);
}
using (FileStream fs = new FileStream(filepath, FileMode.Create, FileAccess.Write))
{
using (StreamWriter sw = new StreamWriter(fs))
{
sw.Write("<Structure3D>");
sw.Write(State.selectedLab + "," + State.selectedService + "," + cellID);
sw.Write("</Structure3D>");
sw.Flush();
}
}
return View("Locations3D");
}
if (Request["group1"] == "generate")
{
return View("Locations");
}
else
{
Response.ClearHeaders();
Response.ClearContent();
Response.Clear();
Response.AddHeader("content-disposition", "inline;filename=" + cellID + ".svg");
Response.ContentType = "image/svg+xml";
Response.WriteFile(workDirectory + "\\Files\\" + HttpContext.User.Identity.Name + "\\" + cellID + ".svg");
Response.Flush();
Response.End();
}
return View("Index");
}
public string getCellHop(int cellID, int hops)
{
CircuitClient circuitClient = State.CreateCircuitClient();
circuitClient.Open();
//string s = circuitClient.GetWorkingResponse(10);
Graphx graphx = circuitClient.getGraph(cellID, hops+1);
List<Edge> tmpEdgeList = new List<Edge>();
foreach (Edgex edgex in graphx.EdgeList)
{
Edge tmp = new Edge(edgex.SourceID, edgex.TargetID, edgex.SourceParentID, edgex.TargetParentID, edgex.Link, edgex.SourceTypeName, 0.0f);
tmpEdgeList.Add(tmp);
}
Graph graph = new Graph(tmpEdgeList, graphx.NodeList, graphx.InvolvedCells.ToList<long>(), graphx._FrontierNodes.ToList<long>(),
graphx.FrontierNodes.ToList<long>(), graphx.ReducedEdges.ToList<long>(), graphx.locationInfo, graphx.zLocationForSynapses);
Dictionary<string, string> colorTable = new Dictionary<string, string>();
colorTable.Add("ribbon synapse", "chartreuse4");
colorTable.Add("conventional", "red3");
colorTable.Add("bc conventional", "chartreuse4");
colorTable.Add("gap junction", "goldenrod4");
colorTable.Add("unknown", "gray50");
colorTable.Add("frontier", "white");
List<object> edgesJson = new List<object>();
int edgeCount = 0;
foreach (Edge edge in graph.EdgeList)
{
if (false == graph.NodeList.ContainsKey(edge.SourceParentID) ||
false == graph.NodeList.ContainsKey(edge.TargetParentID))
{
}
else
{
Boolean activeEdge = true;
if (false == graph.InvolvedCells.Contains(edge.SourceParentID))
{
graph.InvolvedCells.Add(edge.SourceParentID);
activeEdge = false;
}
if (false == graph.InvolvedCells.Contains(edge.TargetParentID))
{
graph.InvolvedCells.Add(edge.TargetParentID);
activeEdge = false;
}
}
}
System.Text.StringBuilder sb = new System.Text.StringBuilder();
foreach (long nodeID in graph.InvolvedCells)
{
sb.Append(nodeID + ",");
}
return sb.ToString().Substring(0, sb.Length - 1);
}
