List of toDotFile() Examples

Examples of toDotFile()

bgu.bio.adt.graphs.Tree.toDotFile()
Print the tree in a graphviz DOT format. @param fileName the file name of the dot file @param extendedInformation should extended information be printed @throws IOException Signals that an I/O exception has occurred.
bgu.bio.adt.rna.RNASpecificTree.toDotFile()

Examples of bgu.bio.adt.graphs.Tree.toDotFile()


  private static void run(String file1, String file2) throws IOException {
    Tree t = buildTree(file1);
    Tree s = buildTree(file2);
    t.toDotFile("/home/milon/1.dot", true);
    s.toDotFile("/home/milon/2.dot", true);


    CostFunction w = new CostFunction() {


      @Override
      public double cost(NodeLabel l1, NodeLabel l2) {

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Examples of bgu.bio.adt.rna.RNASpecificTree.toDotFile()

            .toCharArray(),
        "((..(......)(((.....)))...(((((.......)))))))...."
            .toCharArray());
    sR.shuffle(rand);
    sR.toFASTAFile("sR.fasta");
    sR.toDotFile("sR.dot", false);
    s.toDotFile("s.dot", false);
    t.toDotFile("t.dot", false);
    prune2.calculateCost(t);
    prune2.calculateCost(s);
    prune2.calculateCost(sR);

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Examples of bgu.bio.adt.rna.RNASpecificTree.toDotFile()

    
    prune.calculateCost(t);
    smooth.calculateCost(t);
    
    try {
      t.toDotFile("/home/milon/tmp/1.dot", true);
    } catch (IOException e) {
      // TODO Auto-generated catch block
      e.printStackTrace();
    }

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Examples of bgu.bio.adt.rna.RNASpecificTree.toDotFile()

    tree.buildFromViennaFormat(
        "CGACAGGAAACUGACAAACCCUUUCAUCUUAA".toCharArray(),
        "...((((...))...(((...)))..))....".toCharArray());
    tree.groupByStructure();
    try {
      tree.toDotFile("/home/milon/tmp/1.dot", true);
    } catch (IOException e) {
      e.printStackTrace();
    }


    for (int t = 0; t < tree.getNodeNum(); t++) {

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