SYMBOL INDEX (172 symbols across 39 files)

FILE: src/main/java/org/clueminer/clustering/benchmark/AbsParams.java
  class AbsParams (line 28) | public class AbsParams {

FILE: src/main/java/org/clueminer/clustering/benchmark/Bench.java
  class Bench (line 34) | public abstract class Bench {
    method Bench (line 40) | public Bench() {
    method ensureFolder (line 44) | public static void ensureFolder(String folder) {
    method main (line 55) | public abstract void main(String[] args);
    method printUsage (line 57) | public static void printUsage(String[] args, JCommander cmd, AbsParams...
    method loadDatasets (line 69) | protected void loadDatasets() {
    method loadBenchArtificial (line 77) | protected void loadBenchArtificial() {
    method loadBenchRealWorld (line 81) | protected void loadBenchRealWorld() {
    method load (line 90) | protected void load(String name) {
    method safeName (line 100) | public static String safeName(String name) {

FILE: src/main/java/org/clueminer/clustering/benchmark/BenchParams.java
  class BenchParams (line 25) | public class BenchParams extends AbsParams {

FILE: src/main/java/org/clueminer/clustering/benchmark/ClusteringBenchmark.java
  class ClusteringBenchmark (line 35) | public class ClusteringBenchmark<E extends Instance> {
    method cluster (line 37) | public Container<E> cluster(Dataset<E> dataset, Props props) {
    method cluster (line 44) | public Container<E> cluster(ClusteringAlgorithm algorithm, Dataset<E> ...
    method hclust (line 48) | public Container<E> hclust(final AgglomerativeClustering algorithm, fi...
    method singleLinkage (line 55) | public Container<E> singleLinkage(final AgglomerativeClustering algori...
    method completeLinkage (line 59) | public Container<E> completeLinkage(final AgglomerativeClustering algo...

FILE: src/main/java/org/clueminer/clustering/benchmark/Container.java
  class Container (line 38) | public class Container<E extends Instance> implements Runnable {
    method Container (line 47) | public Container(ClusteringAlgorithm algorithm, Dataset<E> dataset) {
    method Container (line 54) | public Container(ClusteringAlgorithm algorithm, Dataset<E> dataset, Pr...
    method hierarchical (line 61) | public HierarchicalResult hierarchical(AgglomerativeClustering algorit...
    method run (line 66) | @Override
    method cluster (line 75) | public Clustering cluster(ClusteringAlgorithm algorithm, Dataset<E> da...
    method equals (line 79) | public boolean equals(Container other) {

FILE: src/main/java/org/clueminer/clustering/benchmark/Experiment.java
  class Experiment (line 36) | public class Experiment<E extends Instance> implements Runnable {
    method Experiment (line 44) | public Experiment(BenchParams params, String results) {
    method Experiment (line 50) | public Experiment(BenchParams params, String results, ClusteringAlgori...
    method run (line 57) | @Override
    method generateData (line 111) | public Dataset<E> generateData(int size, int dim) {

FILE: src/main/java/org/clueminer/clustering/benchmark/GnuplotReporter.java
  class GnuplotReporter (line 36) | public class GnuplotReporter extends GnuplotHelper implements Reporter {
    method GnuplotReporter (line 42) | public GnuplotReporter(String folder, String[] opts, String[] algorith...
    method writeHeader (line 70) | private void writeHeader(String[] opts) {
    method finalResult (line 80) | @Override
    method writePlotScript (line 99) | private void writePlotScript(File file, String script) {
    method plotCpu (line 111) | private String plotCpu(int labelPos, String yLabel, int x, int y, Stri...
    method plotComplexity (line 143) | private String plotComplexity(int labelPos, String yLabel, int x, int ...
    method finish (line 182) | public void finish() {
    method writeBashScript (line 186) | private void writeBashScript(String dataDir) {
    method bashPlotScript (line 211) | public static void bashPlotScript(String[] plots, String dir, String g...

FILE: src/main/java/org/clueminer/clustering/benchmark/Main.java
  class Main (line 38) | public class Main {
    method Main (line 43) | public Main() {
    method main (line 62) | public static void main(String[] args) {
    method usage (line 80) | private static void usage() {

FILE: src/main/java/org/clueminer/clustering/benchmark/ParamExperiment.java
  class ParamExperiment (line 31) | public class ParamExperiment<E extends Instance> extends Experiment<E> {
    method ParamExperiment (line 35) | public ParamExperiment(BenchParams params, String results) {
    method ParamExperiment (line 39) | public ParamExperiment(BenchParams params, String results, Props[] con...
    method run (line 45) | @Override

FILE: src/main/java/org/clueminer/clustering/benchmark/chameleon2/Cham2Bench.java
  class Cham2Bench (line 34) | public class Cham2Bench extends Hclust {
    method main (line 39) | @Override

FILE: src/main/java/org/clueminer/clustering/benchmark/consensus/ConsensusExp.java
  class ConsensusExp (line 31) | public class ConsensusExp extends Bench {
    method parseArguments (line 35) | protected static ConsensusParams parseArguments(String[] args) {
    method main (line 42) | @Override

FILE: src/main/java/org/clueminer/clustering/benchmark/consensus/ConsensusParams.java
  class ConsensusParams (line 26) | public class ConsensusParams extends AbsParams {

FILE: src/main/java/org/clueminer/clustering/benchmark/consensus/ConsensusRun.java
  class ConsensusRun (line 52) | public class ConsensusRun implements Runnable {
    method ConsensusRun (line 62) | public ConsensusRun(ConsensusParams params, String benchmarkFolder, Da...
    method createTable (line 71) | private void createTable() {
    method run (line 82) | @Override
    method algorithmSetup (line 139) | private Props algorithmSetup(String alg) {

FILE: src/main/java/org/clueminer/clustering/benchmark/cutoff/CutoffComparison.java
  class CutoffComparison (line 51) | public class CutoffComparison implements Runnable {
    method CutoffComparison (line 61) | public CutoffComparison(CutoffParams params, String benchmarkFolder, A...
    method run (line 68) | @Override
    method loadExternalEvals (line 115) | private void loadExternalEvals() {
    method writeHeader (line 124) | private void writeHeader(Dataset<? extends Instance> dataset) {
    method writeValues (line 137) | private void writeValues(CutoffStrategy cutoff, String internaEval, Cl...
    method writeAverages (line 164) | private void writeAverages() {
    method getCutoffStrategy (line 179) | private CutoffStrategy getCutoffStrategy(String strategy, String eval) {
    method initAverages (line 187) | private void initAverages() {
    class Average (line 205) | private class Average {
      method Average (line 212) | Average(String name) {
      method getAverage (line 222) | public double getAverage(String eval) {
      method addValues (line 226) | public void addValues(Clustering c) {

FILE: src/main/java/org/clueminer/clustering/benchmark/cutoff/CutoffExp.java
  class CutoffExp (line 33) | public class CutoffExp extends Bench {
    method parseArguments (line 37) | protected static CutoffParams parseArguments(String[] args) {
    method main (line 44) | @Override
    method createDatasetsArray (line 76) | private ArrayList<Dataset<? extends Instance>> createDatasetsArray(Str...

FILE: src/main/java/org/clueminer/clustering/benchmark/cutoff/CutoffParams.java
  class CutoffParams (line 26) | public class CutoffParams extends AbsParams {

FILE: src/main/java/org/clueminer/clustering/benchmark/cutoff/FirstJumpOptimization.java
  class FirstJumpOptimization (line 46) | public class FirstJumpOptimization implements Runnable {
    method FirstJumpOptimization (line 55) | public FirstJumpOptimization(CutoffParams params, String benchmarkFold...
    method run (line 64) | @Override
    method testParameters (line 102) | private double testParameters(int i, double j) {
    method computeDendrograms (line 135) | private void computeDendrograms(AgglomerativeClustering alg) {
    method getCutoffStrategy (line 143) | private CutoffStrategy getCutoffStrategy(String strategy) {

FILE: src/main/java/org/clueminer/clustering/benchmark/evolve/EvolveExp.java
  class EvolveExp (line 46) | public class EvolveExp implements Runnable {
    method EvolveExp (line 56) | public EvolveExp(EvolveParams params, String benchmarkFolder, ClusterE...
    method run (line 73) | @Override
    method fetchExternal (line 113) | private ClusterEvaluation fetchExternal(String external) {

FILE: src/main/java/org/clueminer/clustering/benchmark/evolve/EvolveParams.java
  class EvolveParams (line 26) | public class EvolveParams extends AbsParams {

FILE: src/main/java/org/clueminer/clustering/benchmark/exp/Data.java
  class Data (line 46) | public class Data extends Bench {
    method main (line 58) | @Override
    method init (line 117) | private void init() {
    method execute (line 141) | public void execute(String datasetName) {

FILE: src/main/java/org/clueminer/clustering/benchmark/exp/EvolveScores.java
  class EvolveScores (line 38) | public class EvolveScores extends Bench {
    method parseArguments (line 42) | protected static EvolveParams parseArguments(String[] args) {
    method main (line 49) | @Override

FILE: src/main/java/org/clueminer/clustering/benchmark/exp/HclusPar.java
  class HclusPar (line 35) | public class HclusPar extends Hclust {
    method main (line 40) | @Override

FILE: src/main/java/org/clueminer/clustering/benchmark/exp/HclusPar2.java
  class HclusPar2 (line 36) | public class HclusPar2 extends Hclust {
    method main (line 41) | @Override

FILE: src/main/java/org/clueminer/clustering/benchmark/exp/Hclust.java
  class Hclust (line 37) | public class Hclust extends Bench {
    method main (line 44) | @Override
    method parseArguments (line 61) | protected static BenchParams parseArguments(String[] args) {
    method printUsage (line 68) | public static void printUsage(String[] args, JCommander cmd, BenchPara...

FILE: src/main/java/org/clueminer/clustering/benchmark/gen/NsgaGen.java
  class NsgaGen (line 37) | public class NsgaGen extends Bench {
    method parseArguments (line 41) | protected static NsgaGenParams parseArguments(String[] args) {
    method main (line 48) | @Override

FILE: src/main/java/org/clueminer/clustering/benchmark/gen/NsgaGenExp.java
  class NsgaGenExp (line 43) | public class NsgaGenExp implements Runnable {
    method NsgaGenExp (line 55) | public NsgaGenExp(NsgaGenParams params, String benchmarkFolder, Cluste...
    method createTable (line 66) | private void createTable() {
    method run (line 77) | @Override

FILE: src/main/java/org/clueminer/clustering/benchmark/gen/NsgaGenParams.java
  class NsgaGenParams (line 26) | public class NsgaGenParams extends AbsParams {

FILE: src/main/java/org/clueminer/clustering/benchmark/nsga/NsgaExp.java
  class NsgaExp (line 43) | public class NsgaExp implements Runnable {
    method NsgaExp (line 54) | public NsgaExp(NsgaParams params, String benchmarkFolder, ClusterEvalu...
    method run (line 64) | @Override
    method createTable (line 124) | private void createTable() {

FILE: src/main/java/org/clueminer/clustering/benchmark/nsga/NsgaParams.java
  class NsgaParams (line 26) | public class NsgaParams extends AbsParams {

FILE: src/main/java/org/clueminer/clustering/benchmark/nsga/NsgaScore.java
  class NsgaScore (line 38) | public class NsgaScore extends Bench {
    method parseArguments (line 42) | protected static NsgaParams parseArguments(String[] args) {
    method main (line 49) | @Override

FILE: src/main/java/org/clueminer/clustering/benchmark/partition/PartitionBench.java
  class PartitionBench (line 38) | public class PartitionBench implements Runnable {
    method PartitionBench (line 45) | public PartitionBench(PartitionParams params, String results, Partitio...
    method run (line 52) | @Override
    method bench (line 96) | public Runnable bench(final Partitioning algorithm, final Graph g, fin...
    method generateData (line 116) | protected Dataset<? extends Instance> generateData(int size, int dim) {
    method determineK (line 132) | private int determineK(Dataset<? extends Instance> dataset) {
    method determineMaxPartitionSize (line 141) | private int determineMaxPartitionSize(Dataset<? extends Instance> data...

FILE: src/main/java/org/clueminer/clustering/benchmark/partition/PartitionExp.java
  class PartitionExp (line 33) | public class PartitionExp extends Bench {
    method parseArguments (line 37) | protected static PartitionParams parseArguments(String[] args) {
    method main (line 44) | @Override

FILE: src/main/java/org/clueminer/clustering/benchmark/partition/PartitionParams.java
  class PartitionParams (line 26) | public class PartitionParams extends AbsParams {

FILE: src/main/java/org/clueminer/data/DataLoader.java
  class DataLoader (line 43) | public class DataLoader implements DataProvider {
    method DataLoader (line 50) | public DataLoader(Map<String, String> datasets, String prefix, Map<Str...
    method getDatasetNames (line 57) | @Override
    method getDataset (line 62) | @Override
    method first (line 76) | @Override
    method count (line 85) | @Override
    method loadDataset (line 97) | private Dataset<? extends Instance> loadDataset(String name, String ty...
    method resource (line 126) | public File resource(String path, String fullPath) {
    method loadResource (line 158) | private File loadResource(String resource) {
    method createLoader (line 177) | public static DataProvider createLoader(String p1, String p2) {
    method iterator (line 202) | @Override
    method hasDataset (line 207) | @Override
    class DataLoaderIterator (line 217) | private class DataLoaderIterator implements Iterator<Dataset<? extends...
      method DataLoaderIterator (line 221) | public DataLoaderIterator() {
      method hasNext (line 225) | @Override
      method next (line 230) | @Override
      method remove (line 235) | @Override

FILE: src/main/java/org/clueminer/data/ResourceList.java
  class ResourceList (line 43) | public class ResourceList {
    method getResources (line 55) | public static Collection<String> getResources(String p1, String p2) {
    method browseFiles (line 91) | private static void browseFiles(final List<String> retval, File fileMe...
    method getResources (line 106) | private static Collection<String> getResources(final String element, f...
    method getResourcesFromJarFile (line 119) | private static Collection<String> getResourcesFromJarFile(final File f...
    method getResourcesFromDirectory (line 148) | private static Collection<String> getResourcesFromDirectory(
    method isWindows (line 171) | public static boolean isWindows() {
    method isMac (line 175) | public static boolean isMac() {
    method isUnix (line 179) | public static boolean isUnix() {
    method isSolaris (line 183) | public static boolean isSolaris() {
    method loadFromJar (line 193) | private static void loadFromJar(List<String> retval, Pattern pattern) {

FILE: src/test/java/org/clueminer/clustering/benchmark/ExperimentTest.java
  class ExperimentTest (line 31) | public class ExperimentTest {
    method testGenerateData (line 35) | @Test

FILE: src/test/java/org/clueminer/clustering/benchmark/HclustBenchmarkTest.java
  class HclustBenchmarkTest (line 36) | public class HclustBenchmarkTest {
    method HclustBenchmarkTest (line 40) | public HclustBenchmarkTest() {
    method testSingleLinkage (line 45) | @Test
    method testCompleteLinkage (line 56) | @Test
    method testSingleLinkageSameResultTwoAlg (line 67) | @Test
    method testSingleLinkageSameResult (line 89) | public void testSingleLinkageSameResult() {
    method testAverageLinkageResult (line 96) | @Test
    method testMedianLinkageResult (line 108) | public void testMedianLinkageResult() {
    method compareTreeResults (line 115) | private void compareTreeResults(Dataset<? extends Instance> dataset, S...

FILE: src/test/java/org/clueminer/clustering/benchmark/chameleon2/Cham2BenchTest.java
  class Cham2BenchTest (line 29) | public class Cham2BenchTest {
    method testMain (line 31) | @Test

FILE: updreadme.rb
  function basename (line 8) | def basename(file)