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  • P values in wilcox.test gone mad :(

    - by Error404
    I have a code that isn't doing what it should do. I am testing P value for a wilcox.test for a huge set of data. the code i am using is the following library(MASS) data1 <- read.csv("file1path.csv",header=T,sep=",") data2 <- read.csv("file2path.csv",header=T,sep=",") data3 <- read.csv("file3path.csv",header=T,sep=",") data4 <- read.csv("file4path.csv",header=T,sep=",") data1$K <- with(data1,{"N"}) data2$K <- with(data2,{"E"}) data3$K <- with(data3,{"M"}) data4$K <- with(data4,{"U"}) new=rbind(data1,data2,data3,data4) i=3 for (o in 1:4800){ x1 <- data1[,i] x2 <- data2[,i] x3 <- data3[,i] x4 <- data4[,i] wt12 <- wilcox.test(x1,x2, na.omit=TRUE) wt13 <- wilcox.test(x1,x3, na.omit=TRUE) wt14 <- wilcox.test(x1,x4, na.omit=TRUE) if (wt12$p.value=="NaN"){ print("This is wrong") } else if (wt12$p.value < 0.05){ print(wt12$p.value) mypath=file.path("C:", "all1-less-05", (paste("graph-data1-data2",names(data1[i]), ".pdf", sep="-"))) pdf(file=mypath) mytitle = paste("graph",names(data1[i])) boxplot(new[,i] ~ new$K, main = mytitle, names.arg=c("data1","data2","data3","data4")) dev.off() } if (wt13$p.value=="NaN"){ print("This is wrong") } else if (wt13$p.value < 0.05){ print(wt13$p.value) mypath=file.path("C:", "all2-less-05", (paste("graph-data1-data3",names(data1[i]), ".pdf", sep="-"))) pdf(file=mypath) mytitle = paste("graph",names(data1[i])) boxplot(new[,i] ~ new$K, main = mytitle, names.arg=c("data1","data2","data3","data4")) dev.off() } if (wt14$p.value=="NaN"){ print("This is wrong") } else if (wt14$p.value < 0.05){ print(wt14$p.value) mypath=file.path("C:", "all3-less-05", (paste("graph-data1-data4",names(data1[i]), ".pdf", sep="-"))) pdf(file=mypath) mytitle = paste("graph",names(data1[i])) boxplot(new[,i] ~ new$K, main = mytitle, names.arg=c("data1","data2","data3","data4")) dev.off() } i=i+1 } I am having 2 problems with this long command: 1- Without specifying a certain P value, the code gives me arouind 14,000 graphs, when specifying a p value less than 0.05 the number of graphs generated goes down to 9,0000. THE FIRST PROBLEM IS: Some P value are more than 0.05 and are still showing up! 2- I designed the program to give me a result of "This is wrong" when the Value of P is "NaN", I am getting results of "NaN" Here's a screenshot from the results do you know what the mistake i made with the command to get these errors? Thanks in advance

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  • Representing complex object dependencies

    - by max
    I have several classes with a reasonably complex (but acyclic) dependency graph. All the dependencies are of the form: class X instance contains an attribute of class Y. All such attributes are set during initialization and never changed again. Each class' constructor has just a couple parameters, and each object knows the proper parameters to pass to the constructors of the objects it contains. class Outer is at the top of the dependency hierarchy, i.e., no class depends on it. Currently, the UI layer only creates an Outer instance; the parameters for Outer constructor are derived from the user input. Of course, Outer in the process of initialization, creates the objects it needs, which in turn create the objects they need, and so on. The new development is that the a user who knows the dependency graph may want to reach deep into it, and set the values of some of the arguments passed to constructors of the inner classes (essentially overriding the values used currently). How should I change the design to support this? I could keep the current approach where all the inner classes are created by the classes that need them. In this case, the information about "user overrides" would need to be passed to Outer class' constructor in some complex user_overrides structure. Perhaps user_overrides could be the full logical representation of the dependency graph, with the overrides attached to the appropriate edges. Outer class would pass user_overrides to every object it creates, and they would do the same. Each object, before initializing lower level objects, will find its location in that graph and check if the user requested an override to any of the constructor arguments. Alternatively, I could rewrite all the objects' constructors to take as parameters the full objects they require. Thus, the creation of all the inner objects would be moved outside the whole hierarchy, into a new controller layer that lies between Outer and UI layer. The controller layer would essentially traverse the dependency graph from the bottom, creating all the objects as it goes. The controller layer would have to ask the higher-level objects for parameter values for the lower-level objects whenever the relevant parameter isn't provided by the user. Neither approach looks terribly simple. Is there any other approach? Has this problem come up enough in the past to have a pattern that I can read about? I'm using Python, but I don't think it matters much at the design level.

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  • how to create a wind rose in excel 2007

    - by Patrick
    I am attempting to create a wind rose graph (i.e.- here or here). My data is wind speed and cardinal wind direction in separate columns: Wind (mph) Wind Direction 3.66 SE 2.69 SE 2.62 SW 2.76 SW 2.11 NW 3.13 NW 3.55 SW 3.62 W My final goal is to actually create the graph with a VBA macro, but I am unsure how to even create the graph manually. I can, if need be, convert the cardinal directions to degrees. Any help is greatly appreciated

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  • ganglia graphs like munin for cpu, etc?

    - by CarpeNoctem
    I'm coming from munin and a CPU graph contains data for system, user, nice, etc ALL on one graph. I just installed ganglia and setup the basic monitoring. It appears that each type of cpu data is a separate graph! WTF is this and can I change the defaults to combine these into a single per host? That is my question, how do I combine cpu data into a single graph. Also, can I change the layout to something closer to munin's day-week side-by-side layout? I'm trying to be impartial and give ganglia a chance. ;)

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  • Annotating Graphs From Textual Data

    - by steven
    I've got a graph that was generated from a data set that contains: (date, value, annotation) The annotation is a constant value [its either there or is blank] and I would like to add in the third bit of data into the graph I have. An example of this is in the image. The blue line is a graph of the (date, value) graph, and I would like to add in the red dots as graphing (date, annotation@value). Is there an easy way to do this in excel, without having to modify the appearance of the data?

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  • How to change x-axis min/max of Column chart in Excel?

    - by Ian Boyd
    Here i have a column chart of binomial distribution, showing how many times you can expect to roll a six in 235 dice rolls: Note: You could also call it a binomial mass distribution for p=1/6, n=235 Now that graph is kinda squooshed. i'd like to change the Minimum and Maximum on the horizontal axis. i'd like to change them to: Minimum: 22 Maximum: 57 Meaning i want to zoom in on this section of the graph: Bonus points to the reader who can say how the numbers 22 and 57 were arrived at If this were a Scatter graph in Excel, i could adjust the horizintal axis minimum and maximum as i desired: Unfortunately, this is a Column chart, where there are no options to adjust the minimum and maximum limits of the ordinate axis: i can do a pretty horrible thing to the graph in Photoshop, but it's not very useful afterwards: Question: how to a change the x-axis minimum and maximum of a Column chart in Excel (2007)?

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  • Excel 2010: How to color the area between charts?

    - by Quasdunk
    Hello, I asked this question already on stackoverflow but it hasn't been answered yet. Instead I was advised to try it here, so here I go :) So there's that simple XY-Line-Chart in Excel (2010). It is surrounded by two other graphs which are parallel but offset by the same factor in both the positive and negative direction - something like this: ---------------- (positively offset parallel graph) ---------------- (main graph) ---------------- (negatively offset parallel graph) Now I want to color the space between the main graph and the offset ones, but I just can't seem to find a way! Is it maybe possible with VBA? Or is there maybe a solution for Excel 2007?

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  • Jung Meets the NetBeans Platform

    - by Geertjan
    Here's a small Jung diagram in a NetBeans Platform application: And the code, copied directly from the Jung 2.0 Tutorial:  public final class JungTopComponent extends TopComponent { public JungTopComponent() { initComponents(); setName(Bundle.CTL_JungTopComponent()); setToolTipText(Bundle.HINT_JungTopComponent()); setLayout(new BorderLayout()); Graph sgv = getGraph(); Layout<Integer, String> layout = new CircleLayout(sgv); layout.setSize(new Dimension(300, 300)); BasicVisualizationServer<Integer, String> vv = new BasicVisualizationServer<Integer, String>(layout); vv.setPreferredSize(new Dimension(350, 350)); add(vv, BorderLayout.CENTER); } public Graph getGraph() { Graph<Integer, String> g = new SparseMultigraph<Integer, String>(); g.addVertex((Integer) 1); g.addVertex((Integer) 2); g.addVertex((Integer) 3); g.addEdge("Edge-A", 1, 2); g.addEdge("Edge-B", 2, 3); Graph<Integer, String> g2 = new SparseMultigraph<Integer, String>(); g2.addVertex((Integer) 1); g2.addVertex((Integer) 2); g2.addVertex((Integer) 3); g2.addEdge("Edge-A", 1, 3); g2.addEdge("Edge-B", 2, 3, EdgeType.DIRECTED); g2.addEdge("Edge-C", 3, 2, EdgeType.DIRECTED); g2.addEdge("Edge-P", 2, 3); return g; } And here's what someone who attended a NetBeans Platform training course in Poland has done with Jung and the NetBeans Platform: The source code for the above is on Git: git://gitorious.org/j2t/j2t.git

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  • Genetic algorithms with large chromosomes

    - by Howie
    I'm trying to solve the graph partitioning problem on large graphs (between a billion and trillion elements) using GA. The problem is that even one chromosome will take several gigs of memory. Are there any general compression techniques for chromosome encoding? Or should I look into distributed GA? NOTE: using some sort of evolutionary algorithm for this problem is a must! GA seems to be the best fit (although not for such large chromosomes). EDIT: I'm looking for state-of-the-art methods that other authors have used to solved the problem of large chromosomes. Note that I'm looking for either a more general solution or a solution particular to graph partitioning. Basically I'm looking for related works, as I, too, am attempting using GA for the problem of graph partitioning. So far I haven't found anyone that might have this problem of large chromosomes nor has tried to solve it.

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  • How/where to run the algorithm on large dataset?

    - by niko
    I would like to run the PageRank algorithm on graph with 4 000 000 nodes and around 45 000 000 edges. Currently I use neo4j graph databse and classic relational database (postgres) and for software projects I mostly use C# and Java. Does anyone know what would be the best way to perform a PageRank computation on such graph? Is there any way to modify the PageRank algorithm in order to run it at home computer or server (48GB RAM) or is there any useful cloud service to push the data along the algorithm and retrieve the results? At this stage the project is at the research stage so in case of using cloud service if possible, would like to use such provider that doesn't require much administration and service setup, but instead focus just on running the algorith once and get the results without much overhead administration work.

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  • How should I make searching a relational database more efficient?

    - by Travis J
    This is in the scope of a web application. I have a database which has a few nested relations. There is a feature which depicts the history of a large chain of relations. It is essentially a data analysis feature. The issue is that in order to search, a large object graph must be loaded - the loading time for this object graph is not quick enough to be viable. The problem is that without loading the whole graph it makes searching from a single string nearly impossible. In order to search, explicit fields must be specified and the search data supplied. Is there a design pattern for exposing the data in a way which facilitates a single string search instead of having to explicitly define parameters?

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  • Servlet : Usage of Constants.java class vs context param

    - by Pongsakorn Semsuwan
    I'm just wondering whether to keep some of my variables in Constants class or keep it in web.xml Say, I want to keep a variable of Facebook graph API prefix or api_key, client_id From my understand, the difference between Constants.java and web.xml is web.xml is easier to rewrite on compile using ant. So, you can replace your variables in web.xml according to what environment you are building you app for. (client_id varies by development environment/production environment, for example) If I understand it right, then Facebook graph API prefix should be kept in Constants.java (because it always is "https://graph.facebook.com/") and api_key, client_id should be kept in web.xml? What's the proper way to use them?

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  • Facebook Insights numbers don't add up

    - by ChristopherJ
    I'm having trouble understanding the Facebook stats for a Fan page under reach as they don't seem to add up. Under the reach tab, if I expand the countries demographics at the top, then the countries listed add up to around 16k people. But scrolling down under reach, the graph reaches as high as 260k in a particular week. From what they say, it seems that both the graph and demographics are talking about unique users, so where are the other 244k unique users that are in the graph but seemingly not from any country on Earth?

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  • How to compare page views/visitors to site totals in Google Analytics?

    - by frntk
    I want to measure the effects in total traffic (views or visitors) of a single URL across a time frame. For example, let's say I published a blog post on July 2012. I want to measure what chunk of the site's total traffic is coming to this particular post on a month-by-month graph from July 2012 to date. Is there a way to do this? Edit: I should clarify that what I'd like to do is to generate a month-to-month graph, similar to the one you can see comparing a metric on a period of time against the previous equivalent period (year vs last year, for example) but comparing a particular URL traffic to the site's total traffic. In other words, I can get to the part where I can see the URL's traffic for the timeframe I selected and it shows how much of the total traffic corresponds to the current URL: But I'd like to add a second line to the graph, representing the site's total pageviews, similiar to this (but this one is showing just a different metric for the same URL): Thanks!

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  • creating objects from trivial graph format text file. java. dijkstra algorithm.

    - by user560084
    i want to create objects, vertex and edge, from trivial graph format txt file. one of programmers here suggested that i use trivial graph format to store data for dijkstra algorithm. the problem is that at the moment all the information, e.g., weight, links, is in the sourcecode. i want to have a separate text file for that and read it into the program. i thought about using a code for scanning through the text file by using scanner. but i am not quite sure how to create different objects from the same file. could i have some help please? the file is v0 Harrisburg v1 Baltimore v2 Washington v3 Philadelphia v4 Binghamton v5 Allentown v6 New York # v0 v1 79.83 v0 v5 81.15 v1 v0 79.75 v1 v2 39.42 v1 v3 103.00 v2 v1 38.65 v3 v1 102.53 v3 v5 61.44 v3 v6 96.79 v4 v5 133.04 v5 v0 81.77 v5 v3 62.05 v5 v4 134.47 v5 v6 91.63 v6 v3 97.24 v6 v5 87.94 and the dijkstra algorithm code is Downloaded from: http://en.literateprograms.org/Special:Downloadcode/Dijkstra%27s_algorithm_%28Java%29 */ import java.util.PriorityQueue; import java.util.List; import java.util.ArrayList; import java.util.Collections; class Vertex implements Comparable<Vertex> { public final String name; public Edge[] adjacencies; public double minDistance = Double.POSITIVE_INFINITY; public Vertex previous; public Vertex(String argName) { name = argName; } public String toString() { return name; } public int compareTo(Vertex other) { return Double.compare(minDistance, other.minDistance); } } class Edge { public final Vertex target; public final double weight; public Edge(Vertex argTarget, double argWeight) { target = argTarget; weight = argWeight; } } public class Dijkstra { public static void computePaths(Vertex source) { source.minDistance = 0.; PriorityQueue<Vertex> vertexQueue = new PriorityQueue<Vertex>(); vertexQueue.add(source); while (!vertexQueue.isEmpty()) { Vertex u = vertexQueue.poll(); // Visit each edge exiting u for (Edge e : u.adjacencies) { Vertex v = e.target; double weight = e.weight; double distanceThroughU = u.minDistance + weight; if (distanceThroughU < v.minDistance) { vertexQueue.remove(v); v.minDistance = distanceThroughU ; v.previous = u; vertexQueue.add(v); } } } } public static List<Vertex> getShortestPathTo(Vertex target) { List<Vertex> path = new ArrayList<Vertex>(); for (Vertex vertex = target; vertex != null; vertex = vertex.previous) path.add(vertex); Collections.reverse(path); return path; } public static void main(String[] args) { Vertex v0 = new Vertex("Nottinghill_Gate"); Vertex v1 = new Vertex("High_Street_kensignton"); Vertex v2 = new Vertex("Glouchester_Road"); Vertex v3 = new Vertex("South_Kensignton"); Vertex v4 = new Vertex("Sloane_Square"); Vertex v5 = new Vertex("Victoria"); Vertex v6 = new Vertex("Westminster"); v0.adjacencies = new Edge[]{new Edge(v1, 79.83), new Edge(v6, 97.24)}; v1.adjacencies = new Edge[]{new Edge(v2, 39.42), new Edge(v0, 79.83)}; v2.adjacencies = new Edge[]{new Edge(v3, 38.65), new Edge(v1, 39.42)}; v3.adjacencies = new Edge[]{new Edge(v4, 102.53), new Edge(v2, 38.65)}; v4.adjacencies = new Edge[]{new Edge(v5, 133.04), new Edge(v3, 102.53)}; v5.adjacencies = new Edge[]{new Edge(v6, 81.77), new Edge(v4, 133.04)}; v6.adjacencies = new Edge[]{new Edge(v0, 97.24), new Edge(v5, 81.77)}; Vertex[] vertices = { v0, v1, v2, v3, v4, v5, v6 }; computePaths(v0); for (Vertex v : vertices) { System.out.println("Distance to " + v + ": " + v.minDistance); List<Vertex> path = getShortestPathTo(v); System.out.println("Path: " + path); } } } and the code for scanning file is import java.util.Scanner; import java.io.File; import java.io.FileNotFoundException; public class DataScanner1 { //private int total = 0; //private int distance = 0; private String vector; private String stations; private double [] Edge = new double []; /*public int getTotal(){ return total; } */ /* public void getMenuInput(){ KeyboardInput in = new KeyboardInput; System.out.println("Enter the destination? "); String val = in.readString(); return val; } */ public void readFile(String fileName) { try { Scanner scanner = new Scanner(new File(fileName)); scanner.useDelimiter (System.getProperty("line.separator")); while (scanner.hasNext()) { parseLine(scanner.next()); } scanner.close(); } catch (FileNotFoundException e) { e.printStackTrace(); } } public void parseLine(String line) { Scanner lineScanner = new Scanner(line); lineScanner.useDelimiter("\\s*,\\s*"); vector = lineScanner.next(); stations = lineScanner.next(); System.out.println("The current station is " + vector + " and the destination to the next station is " + stations + "."); //total += distance; //System.out.println("The total distance is " + total); } public static void main(String[] args) { /* if (args.length != 1) { System.err.println("usage: java TextScanner2" + "file location"); System.exit(0); } */ DataScanner1 scanner = new DataScanner1(); scanner.readFile(args[0]); //int total =+ distance; //System.out.println(""); //System.out.println("The total distance is " + scanner.getTotal()); } }

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  • Mike Cohn-style burndown charts in JIRA

    - by Fuzzy Purple Monkey
    We use Jira/Greenhopper for our project planning/tracking. The built-in graphs are great, but when a new issue/story is added during a project, the whole burn-down graph moves up rather than increasing the part of the graph when the issue was added. Ideally I'd like to generate a Mike Cohn-style burndown graph, which shows a hump when new issues are added. Does anyone know of any plugins that support this, or been able to extract this data directly from the database?

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  • fluent nhibernate select n+1 problem

    - by Andrew Bullock
    I have a fairly deep object graph (5-6 nodes), and as I traverse portions of it NHProf is telling me I've got a "Select N+1" problem (which I do). The two solutions I'm aware of are Eager load children Break apart my object graph (and eager load) I don't really want to do either of these (although I may break the graph apart later as I forsee it growing) For now.... Is it possible to tell NHibernate (with fluentnhib) that whenever i try to access children, to load them all in one go, instead of selectn+1ing as i iterate over them? I'm also getting "unbounded results set"s, which is presumably the same problem (or rather, will be solved by the above solution if possible). Each child collection (throughout the graph) will only ever have about 20 members, but 20^5 is a lot, so i dont want to eager load everything when i get the root, but simply get all of a child collection whenever i go near it Edit: an afterthought.... what if i want to introduce paging when i want to render children? do i HAVE to break my object graph here, or is there some sneakyness i can employ to solve all these issues?

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  • Plot Title/Annotation

    - by Kevin
    Hello, I want to add a title to my graph that gives a short description or name about the plot. For example, I have a table with a list of products and my graph shows how much those products cost. There should be a label/annotation superimposed on the graph that gives the name of the product.

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  • Parallel curve like algorithm for graphs

    - by skrat
    Is there a well know algorithm for calculating "parallel graph"? where by parallel graph I mean the same as parallel curve, vaguely called "offset curve", but with a graph instead of a curve. Given this picture how can I calculate points of black outlined polygons?

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  • Transform/redraw view after pinch zoom on x-axis

    - by Jonathan
    My setup. UIScrollView (scrollView) - UIView (contentView) - UIView (subView) I have managed to do so I can zoom contentView only on the x-axis. The problem is that subView is containing a graph. When contentView is zoomed and transformed the graph gets unsharp and distorded since the scaling only effect the x-axis. What I need help with is to somehow redraw the contentView after I'm done with the zooming without distorting the graph. Is it possible to transform the contentView so that the graph stays sharp even if you only zoom in the x-axis or redraw the content in the zoomed/stretched view somehow? I have tried the solution in this thread link but haven't succeeded to get it running.

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  • How can I return default at loop end in Scheme?

    - by Kufi Annan
    I'm trying to implement back-tracking search in Scheme. So far, I have the following: (define (backtrack n graph assignment) (cond (assignment-complete n assignment) (assignment) ) (define u (select-u graph assignment)) (define c 1) (define result 0) (let forLoop () (when (valid-choice graph assignment c) (hash-set! assignment u c) (set! result (backtrack n graph assignment)) (cond ((not (eq? result #f)) result)) (hash-remove! assignment u) ) (set! c (+ c 1)) (when (>= n c) (forLoop)) ) #f ) My functions assignment-complete and select-u pass unit tests. The argument assignment is a hash-table make with (make-hash), so it should be fine. I believe the problem I have is related to returning false at the end of the loop, if no recursive returns a non-false value (which should be a valid assignment).

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  • After drawing circles on C# form how can i know on what circle i clicked?

    - by SorinA.
    I have to represent graphically an oriented graph like in the image below. i have a C# form, when i click with the mouse on it i have to draw a node. If i click somewhere on the form where is not already a node drawn it means i cliked with the intetion of drawing a node, if it is a node there i must select it and memorize it. On the next mouse click if i touch a place where there is not already a node drawn it means like before that i want to draw a new node, if it is a node where i clicked i need to draw the line from the first memorized node to the selected one and add road cost details. i know how to draw the circles that represent the nodes of the graph when i click on the form. i'm using the following code: namespace RepGraficaAUnuiGraf { public partial class Form1 : Form { Graphics graphDrawingArea; Bitmap bmpDrawingArea; Graphics graph; public Form1() { InitializeComponent(); } private void Form1_Load(object sender, EventArgs e) { bmpDrawingArea = new Bitmap(Width, Height); graphDrawingArea = Graphics.FromImage(bmpDrawingArea); graph = Graphics.FromHwnd(this.Handle); } private void Form1_Click(object sender, EventArgs e) { DrawCentralCircle(((MouseEventArgs)e).X, ((MouseEventArgs)e).Y, 15); graph.DrawImage(bmpDrawingArea, 0, 0); } void DrawCentralCircle(int CenterX, int CenterY, int Radius) { int start = CenterX - Radius; int end = CenterY - Radius; int diam = Radius * 2; bmpDrawingArea = new Bitmap(Width, Height); graphDrawingArea = Graphics.FromImage(bmpDrawingArea); graphDrawingArea.DrawEllipse(new Pen(Color.Blue), start, end, diam, diam); graphDrawingArea.DrawString("1", new Font("Tahoma", 13), Brushes.Black, new PointF(CenterX - 8, CenterY - 10)); } } } My question is how can i find out if at the coordinates (x,y) on my form i drew a node and which one is it? I thought of representing the nodes as buttons, having a tag or something similar as the node number(which in drawing should be 1 for Santa Barbara, 2 for Barstow etc.)

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  • Ruby GraphViz Binary Tree Record

    - by Jason M
    I'm using the ruby-graphviz gem and I'm trying to draw binary trees. I'd like to use the record shape so that each node can have a left, middle, and right field and, thus, if there are two edges leaving a node, the left and right edges can be distinguished. I tried specifying the field by concatenating the field name like this: @node1.name + ":left" But that did not work. What is the correct way of specifying the field? require 'rubygems' require 'graphviz' @graph = GraphViz.new( :G, :type => :digraph ) @node1 = @graph.add_node("1", "shape" => "record", "label" => "<left>|<f1> 1|<right>" ) @node2 = @graph.add_node("2", "shape" => "record", "label" => "<left>|<f1> 2|<right>" ) @graph.add_edge(@node1.name + ":left", @node2) # generate a random filename filename = "/tmp/#{(0...8).map{65.+(rand(25)).chr}.join}.png" @graph.output( :png => filename ) exec "open #{filename}"

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