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An open source implementation of the Watset algorithm for fuzzy graph clustering.

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/*
 * Copyright 2020 Dmitry Ustalov
 *
 * Licensed under the Apache License, Version 2.0 (the "License");
 * you may not use this file except in compliance with the License.
 * You may obtain a copy of the License at
 *
 *   http://www.apache.org/licenses/LICENSE-2.0
 *
 * Unless required by applicable law or agreed to in writing, software
 * distributed under the License is distributed on an "AS IS" BASIS,
 * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
 * See the License for the specific language governing permissions and
 * limitations under the License.
 *
 */

package org.nlpub.watset.cli;

import com.beust.jcommander.DynamicParameter;
import com.beust.jcommander.Parameter;
import org.apache.commons.math3.random.JDKRandomGenerator;
import org.jgrapht.Graph;
import org.jgrapht.graph.DefaultWeightedEdge;
import org.nlpub.watset.util.ABCFormat;

import java.io.*;
import java.lang.System.Logger.Level;
import java.nio.charset.StandardCharsets;
import java.nio.file.Files;
import java.nio.file.Path;
import java.util.HashMap;
import java.util.Map;
import java.util.stream.Stream;

import static java.util.Objects.isNull;
import static java.util.Objects.requireNonNull;

/**
 * A generic command of the Watset command-line interface.
 */
abstract class Command implements Runnable {
    /**
     * Watset command-line interface parameters.
     */
    @SuppressWarnings("unused")
    public final static class MainParameters {
        /**
         * The input file.
         */
        @Parameter(names = {"-i", "--input"}, description = "Input file")
        public Path input;

        /**
         * The output file.
         */
        @Parameter(names = {"-o", "--output"}, description = "Output file")
        public Path output;

        /**
         * The random seed.
         */
        @Parameter(names = {"-s", "--seed"}, description = "Random seed", converter = RandomConverter.class)
        public JDKRandomGenerator random = new JDKRandomGenerator();

        /**
         * m
         * The version information flag.
         */
        @Parameter(names = {"-v", "--version"}, description = "Print version information")
        public boolean version;
    }

    /**
     * Number of clusters parameters.
     */
    @SuppressWarnings("unused")
    public final static class FixedClustersParameters {
        /**
         * The desired number of clusters.
         */
        @SuppressWarnings("unused")
        @Parameter(required = true, description = "Desired number of clusters", names = "-k")
        public Integer k;
    }

    /**
     * Local clustering command-line interface parameters.
     */
    @SuppressWarnings("unused")
    public final static class LocalParameters {
        /**
         * The local clustering algorithm.
         */
        @Parameter(required = true, description = "Local clustering algorithm", names = {"-l", "--local"})
        public String algorithm;

        /**
         * The local clustering algorithm parameters.
         */
        @DynamicParameter(description = "Local clustering algorithm parameters", names = {"-lp", "--local-params"})
        public Map params = new HashMap<>();
    }

    /**
     * Global clustering command-line interface parameters.
     */
    @SuppressWarnings("unused")
    public final static class GlobalParameters {
        /**
         * The global clustering algorithm.
         */
        @Parameter(required = true, description = "Global clustering algorithm", names = {"-g", "--global"})
        public String algorithm;

        /**
         * The global clustering algorithm parameters.
         */
        @DynamicParameter(description = "Global clustering algorithm parameters", names = {"-gp", "--global-params"})
        public Map params = new HashMap<>();
    }

    private static final System.Logger logger = System.getLogger(Command.class.getSimpleName());

    /**
     * The main command-line parameters.
     */
    public final MainParameters parameters;

    /**
     * Create an instance of command.
     *
     * @param parameters the parameters
     */
    protected Command(MainParameters parameters) {
        this.parameters = requireNonNull(parameters, "parameters are not initialized");
    }

    /**
     * Provide a stream to the input file.
     *
     * @return the lines from the file as a {@code Stream}
     * @throws IOException if an I/O error occurs
     */
    public Stream newInputStream() throws IOException {
        requireNonNull(parameters, "parameters are not initialized");
        return newInputStream(parameters.input);
    }

    /**
     * Provide a stream to the input file.
     * 

* Please do not forget to close the stream after use. * * @return the lines from the file as a {@code Stream} * @throws IOException if an I/O error occurs */ @SuppressWarnings("StreamResourceLeak") public Stream newInputStream(Path input) throws IOException { if (isNull(input)) { logger.log(Level.INFO, "Reading from standard input."); return new BufferedReader(new InputStreamReader(System.in, StandardCharsets.UTF_8)).lines(); } logger.log(Level.INFO, "Reading from {0}.", input); return Files.lines(input); } /** * Provide a writer to the output file. * * @return a new buffered writer to write output * @throws IOException if an I/O error occurs */ public BufferedWriter newOutputWriter() throws IOException { requireNonNull(parameters, "parameters are not initialized"); if (isNull(parameters.output)) { logger.log(Level.INFO, "Writing to standard output."); return new BufferedWriter(new OutputStreamWriter(System.out, StandardCharsets.UTF_8)); } logger.log(Level.INFO, "Writing to {0}.", parameters.output); return Files.newBufferedWriter(parameters.output); } /** * Read, parse, and return the input graph stored in {@link MainParameters#input}. * * @return a graph * @see ABCFormat#parse(Stream) */ public Graph getGraph() { try (final var stream = newInputStream()) { final var graph = ABCFormat.parse(stream); logger.log(Level.INFO, "Read {0} nodes and {1} edges.", graph.vertexSet().size(), graph.edgeSet().size()); return graph; } catch (IOException e) { throw new UncheckedIOException(e); } } }





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