Examples with PluginPredictor edu.neu.ccs.pyramid.multilabel_classification.PluginPredictor used on opensource projects

Example 1 with PluginPredictor

use of edu.neu.ccs.pyramid.multilabel_classification.PluginPredictor in project pyramid by cheng-li.

the class App2 method report.

static void report(Config config, String dataName, Logger logger) throws Exception {
    logger.info("generating reports for data set " + dataName);
    String output = config.getString("output.folder");
    String modelName = "model_app3";
    File analysisFolder = new File(new File(output, "reports_app3"), dataName + "_reports");
    analysisFolder.mkdirs();
    FileUtils.cleanDirectory(analysisFolder);
    IMLGradientBoosting boosting = IMLGradientBoosting.deserialize(new File(output, modelName));
    String predictTarget = config.getString("predict.target");
    PluginPredictor<IMLGradientBoosting> pluginPredictorTmp = null;
    switch(predictTarget) {
        case "subsetAccuracy":
            pluginPredictorTmp = new SubsetAccPredictor(boosting);
            break;
        case "hammingLoss":
            pluginPredictorTmp = new HammingPredictor(boosting);
            break;
        case "instanceFMeasure":
            pluginPredictorTmp = new InstanceF1Predictor(boosting);
            break;
        case "macroFMeasure":
            TunedMarginalClassifier tunedMarginalClassifier = (TunedMarginalClassifier) Serialization.deserialize(new File(output, "predictor_macro_f"));
            pluginPredictorTmp = new MacroF1Predictor(boosting, tunedMarginalClassifier);
            break;
        default:
            throw new IllegalArgumentException("unknown prediction target measure " + predictTarget);
    }
    // just to make Lambda expressions happy
    final PluginPredictor<IMLGradientBoosting> pluginPredictor = pluginPredictorTmp;
    MultiLabelClfDataSet dataSet = loadData(config, dataName);
    MLMeasures mlMeasures = new MLMeasures(pluginPredictor, dataSet);
    mlMeasures.getMacroAverage().setLabelTranslator(boosting.getLabelTranslator());
    logger.info("performance on dataset " + dataName);
    logger.info(mlMeasures.toString());
    boolean simpleCSV = true;
    if (simpleCSV) {
        logger.info("start generating simple CSV report");
        double probThreshold = config.getDouble("report.classProbThreshold");
        File csv = new File(analysisFolder, "report.csv");
        List<String> strs = IntStream.range(0, dataSet.getNumDataPoints()).parallel().mapToObj(i -> IMLGBInspector.simplePredictionAnalysis(boosting, pluginPredictor, dataSet, i, probThreshold)).collect(Collectors.toList());
        try (BufferedWriter bw = new BufferedWriter(new FileWriter(csv))) {
            for (int i = 0; i < dataSet.getNumDataPoints(); i++) {
                String str = strs.get(i);
                bw.write(str);
            }
        }
        logger.info("finish generating simple CSV report");
    }
    boolean rulesToJson = config.getBoolean("report.showPredictionDetail");
    if (rulesToJson) {
        logger.info("start writing rules to json");
        int ruleLimit = config.getInt("report.rule.limit");
        int numDocsPerFile = config.getInt("report.numDocsPerFile");
        int numFiles = (int) Math.ceil((double) dataSet.getNumDataPoints() / numDocsPerFile);
        double probThreshold = config.getDouble("report.classProbThreshold");
        int labelSetLimit = config.getInt("report.labelSetLimit");
        IntStream.range(0, numFiles).forEach(i -> {
            int start = i * numDocsPerFile;
            int end = start + numDocsPerFile;
            List<MultiLabelPredictionAnalysis> partition = IntStream.range(start, Math.min(end, dataSet.getNumDataPoints())).parallel().mapToObj(a -> IMLGBInspector.analyzePrediction(boosting, pluginPredictor, dataSet, a, ruleLimit, labelSetLimit, probThreshold)).collect(Collectors.toList());
            ObjectMapper mapper = new ObjectMapper();
            String file = "report_" + (i + 1) + ".json";
            try {
                mapper.writeValue(new File(analysisFolder, file), partition);
            } catch (IOException e) {
                e.printStackTrace();
            }
            logger.info("progress = " + Progress.percentage(i + 1, numFiles));
        });
        logger.info("finish writing rules to json");
    }
    boolean dataInfoToJson = true;
    if (dataInfoToJson) {
        logger.info("start writing data info to json");
        Set<String> modelLabels = IntStream.range(0, boosting.getNumClasses()).mapToObj(i -> boosting.getLabelTranslator().toExtLabel(i)).collect(Collectors.toSet());
        Set<String> dataSetLabels = DataSetUtil.gatherLabels(dataSet).stream().map(i -> dataSet.getLabelTranslator().toExtLabel(i)).collect(Collectors.toSet());
        JsonGenerator jsonGenerator = new JsonFactory().createGenerator(new File(analysisFolder, "data_info.json"), JsonEncoding.UTF8);
        jsonGenerator.writeStartObject();
        jsonGenerator.writeStringField("dataSet", dataName);
        jsonGenerator.writeNumberField("numClassesInModel", boosting.getNumClasses());
        jsonGenerator.writeNumberField("numClassesInDataSet", dataSetLabels.size());
        jsonGenerator.writeNumberField("numClassesInModelDataSetCombined", dataSet.getNumClasses());
        Set<String> modelNotDataLabels = SetUtil.complement(modelLabels, dataSetLabels);
        Set<String> dataNotModelLabels = SetUtil.complement(dataSetLabels, modelLabels);
        jsonGenerator.writeNumberField("numClassesInDataSetButNotModel", dataNotModelLabels.size());
        jsonGenerator.writeNumberField("numClassesInModelButNotDataSet", modelNotDataLabels.size());
        jsonGenerator.writeArrayFieldStart("classesInDataSetButNotModel");
        for (String label : dataNotModelLabels) {
            jsonGenerator.writeObject(label);
        }
        jsonGenerator.writeEndArray();
        jsonGenerator.writeArrayFieldStart("classesInModelButNotDataSet");
        for (String label : modelNotDataLabels) {
            jsonGenerator.writeObject(label);
        }
        jsonGenerator.writeEndArray();
        jsonGenerator.writeNumberField("labelCardinality", dataSet.labelCardinality());
        jsonGenerator.writeEndObject();
        jsonGenerator.close();
        logger.info("finish writing data info to json");
    }
    boolean modelConfigToJson = true;
    if (modelConfigToJson) {
        logger.info("start writing model config to json");
        ObjectMapper objectMapper = new ObjectMapper();
        objectMapper.writeValue(new File(analysisFolder, "model_config.json"), config);
        logger.info("finish writing model config to json");
    }
    boolean dataConfigToJson = true;
    if (dataConfigToJson) {
        logger.info("start writing data config to json");
        File dataConfigFile = Paths.get(config.getString("input.folder"), "data_sets", dataName, "data_config.json").toFile();
        if (dataConfigFile.exists()) {
            FileUtils.copyFileToDirectory(dataConfigFile, analysisFolder);
        }
        logger.info("finish writing data config to json");
    }
    boolean performanceToJson = true;
    if (performanceToJson) {
        ObjectMapper objectMapper = new ObjectMapper();
        objectMapper.writeValue(new File(analysisFolder, "performance.json"), mlMeasures);
    }
    boolean individualPerformance = true;
    if (individualPerformance) {
        logger.info("start writing individual label performance to json");
        ObjectMapper objectMapper = new ObjectMapper();
        objectMapper.writeValue(new File(analysisFolder, "individual_performance.json"), mlMeasures.getMacroAverage());
        logger.info("finish writing individual label performance to json");
    }
    logger.info("reports generated");
}

Example 2 with PluginPredictor

use of edu.neu.ccs.pyramid.multilabel_classification.PluginPredictor in project pyramid by cheng-li.

the class IMLGBInspector method analyzePrediction.

//todo  speed up
public static MultiLabelPredictionAnalysis analyzePrediction(IMLGradientBoosting boosting, PluginPredictor<IMLGradientBoosting> pluginPredictor, MultiLabelClfDataSet dataSet, int dataPointIndex, int ruleLimit, int labelSetLimit, double classProbThreshold) {
    MultiLabelPredictionAnalysis predictionAnalysis = new MultiLabelPredictionAnalysis();
    LabelTranslator labelTranslator = dataSet.getLabelTranslator();
    IdTranslator idTranslator = dataSet.getIdTranslator();
    predictionAnalysis.setInternalId(dataPointIndex);
    predictionAnalysis.setId(idTranslator.toExtId(dataPointIndex));
    predictionAnalysis.setInternalLabels(dataSet.getMultiLabels()[dataPointIndex].getMatchedLabelsOrdered());
    List<String> labels = dataSet.getMultiLabels()[dataPointIndex].getMatchedLabelsOrdered().stream().map(labelTranslator::toExtLabel).collect(Collectors.toList());
    predictionAnalysis.setLabels(labels);
    if (pluginPredictor instanceof SubsetAccPredictor || pluginPredictor instanceof InstanceF1Predictor) {
        predictionAnalysis.setProbForTrueLabels(boosting.predictAssignmentProbWithConstraint(dataSet.getRow(dataPointIndex), dataSet.getMultiLabels()[dataPointIndex]));
    }
    if (pluginPredictor instanceof HammingPredictor || pluginPredictor instanceof MacroF1Predictor) {
        predictionAnalysis.setProbForTrueLabels(boosting.predictAssignmentProbWithoutConstraint(dataSet.getRow(dataPointIndex), dataSet.getMultiLabels()[dataPointIndex]));
    }
    MultiLabel predictedLabels = pluginPredictor.predict(dataSet.getRow(dataPointIndex));
    List<Integer> internalPrediction = predictedLabels.getMatchedLabelsOrdered();
    predictionAnalysis.setInternalPrediction(internalPrediction);
    List<String> prediction = internalPrediction.stream().map(labelTranslator::toExtLabel).collect(Collectors.toList());
    predictionAnalysis.setPrediction(prediction);
    if (pluginPredictor instanceof SubsetAccPredictor || pluginPredictor instanceof InstanceF1Predictor) {
        predictionAnalysis.setProbForPredictedLabels(boosting.predictAssignmentProbWithConstraint(dataSet.getRow(dataPointIndex), predictedLabels));
    }
    if (pluginPredictor instanceof HammingPredictor || pluginPredictor instanceof MacroF1Predictor) {
        predictionAnalysis.setProbForPredictedLabels(boosting.predictAssignmentProbWithoutConstraint(dataSet.getRow(dataPointIndex), predictedLabels));
    }
    double[] classProbs = boosting.predictClassProbs(dataSet.getRow(dataPointIndex));
    List<Integer> classes = new ArrayList<Integer>();
    for (int k = 0; k < boosting.getNumClasses(); k++) {
        if (classProbs[k] >= classProbThreshold || dataSet.getMultiLabels()[dataPointIndex].matchClass(k) || predictedLabels.matchClass(k)) {
            classes.add(k);
        }
    }
    List<ClassScoreCalculation> classScoreCalculations = new ArrayList<>();
    for (int k : classes) {
        ClassScoreCalculation classScoreCalculation = decisionProcess(boosting, labelTranslator, dataSet.getRow(dataPointIndex), k, ruleLimit);
        classScoreCalculations.add(classScoreCalculation);
    }
    predictionAnalysis.setClassScoreCalculations(classScoreCalculations);
    List<MultiLabelPredictionAnalysis.ClassRankInfo> labelRanking = classes.stream().map(label -> {
        MultiLabelPredictionAnalysis.ClassRankInfo rankInfo = new MultiLabelPredictionAnalysis.ClassRankInfo();
        rankInfo.setClassIndex(label);
        rankInfo.setClassName(labelTranslator.toExtLabel(label));
        rankInfo.setProb(boosting.predictClassProb(dataSet.getRow(dataPointIndex), label));
        return rankInfo;
    }).collect(Collectors.toList());
    predictionAnalysis.setPredictedRanking(labelRanking);
    List<MultiLabelPredictionAnalysis.LabelSetProbInfo> labelSetRanking = null;
    if (pluginPredictor instanceof SubsetAccPredictor || pluginPredictor instanceof InstanceF1Predictor) {
        double[] labelSetProbs = boosting.predictAllAssignmentProbsWithConstraint(dataSet.getRow(dataPointIndex));
        labelSetRanking = IntStream.range(0, boosting.getAssignments().size()).mapToObj(i -> {
            MultiLabel multiLabel = boosting.getAssignments().get(i);
            double setProb = labelSetProbs[i];
            MultiLabelPredictionAnalysis.LabelSetProbInfo labelSetProbInfo = new MultiLabelPredictionAnalysis.LabelSetProbInfo(multiLabel, setProb, labelTranslator);
            return labelSetProbInfo;
        }).sorted(Comparator.comparing(MultiLabelPredictionAnalysis.LabelSetProbInfo::getProbability).reversed()).limit(labelSetLimit).collect(Collectors.toList());
    }
    if (pluginPredictor instanceof HammingPredictor || pluginPredictor instanceof MacroF1Predictor) {
        labelSetRanking = new ArrayList<>();
        DynamicProgramming dp = new DynamicProgramming(classProbs);
        for (int c = 0; c < labelSetLimit; c++) {
            DynamicProgramming.Candidate candidate = dp.nextHighest();
            MultiLabel multiLabel = candidate.getMultiLabel();
            double setProb = candidate.getProbability();
            MultiLabelPredictionAnalysis.LabelSetProbInfo labelSetProbInfo = new MultiLabelPredictionAnalysis.LabelSetProbInfo(multiLabel, setProb, labelTranslator);
            labelSetRanking.add(labelSetProbInfo);
        }
    }
    predictionAnalysis.setPredictedLabelSetRanking(labelSetRanking);
    return predictionAnalysis;
}

Example 3 with PluginPredictor

use of edu.neu.ccs.pyramid.multilabel_classification.PluginPredictor in project pyramid by cheng-li.

the class App6 method report.

static void report(Config config, MultiLabelClfDataSet dataSet, String dataName) throws Exception {
    System.out.println("generating reports for data set " + dataName);
    String output = config.getString("output.folder");
    String modelName = "model_crf";
    File analysisFolder = new File(new File(output, "reports_crf"), dataName + "_reports");
    analysisFolder.mkdirs();
    FileUtils.cleanDirectory(analysisFolder);
    CMLCRF crf = (CMLCRF) Serialization.deserialize(new File(output, modelName));
    PluginPredictor<CMLCRF> predictorTmp = null;
    String predictTarget = config.getString("predict.target");
    switch(predictTarget) {
        case "subsetAccuracy":
            predictorTmp = new SubsetAccPredictor(crf);
            break;
        case "instanceFMeasure":
            predictorTmp = new InstanceF1Predictor(crf);
            break;
        default:
            throw new IllegalArgumentException("predict.target must be subsetAccuracy or instanceFMeasure");
    }
    // just to make Lambda expressions happy
    final PluginPredictor<CMLCRF> predictor = predictorTmp;
    MLMeasures mlMeasures = new MLMeasures(predictor, dataSet);
    mlMeasures.getMacroAverage().setLabelTranslator(crf.getLabelTranslator());
    System.out.println("performance on dataset " + dataName);
    System.out.println(mlMeasures);
    boolean simpleCSV = true;
    if (simpleCSV) {
        // System.out.println("start generating simple CSV report");
        double probThreshold = config.getDouble("report.classProbThreshold");
        File csv = new File(analysisFolder, "report.csv");
        List<String> strs = IntStream.range(0, dataSet.getNumDataPoints()).parallel().mapToObj(i -> CRFInspector.simplePredictionAnalysis(crf, predictor, dataSet, i, probThreshold)).collect(Collectors.toList());
        StringBuilder sb = new StringBuilder();
        for (int i = 0; i < dataSet.getNumDataPoints(); i++) {
            String str = strs.get(i);
            sb.append(str);
        }
        FileUtils.writeStringToFile(csv, sb.toString(), false);
    // System.out.println("finish generating simple CSV report");
    }
    boolean dataInfoToJson = true;
    if (dataInfoToJson) {
        // System.out.println("start writing data info to json");
        Set<String> modelLabels = IntStream.range(0, crf.getNumClasses()).mapToObj(i -> crf.getLabelTranslator().toExtLabel(i)).collect(Collectors.toSet());
        Set<String> dataSetLabels = DataSetUtil.gatherLabels(dataSet).stream().map(i -> dataSet.getLabelTranslator().toExtLabel(i)).collect(Collectors.toSet());
        JsonGenerator jsonGenerator = new JsonFactory().createGenerator(new File(analysisFolder, "data_info.json"), JsonEncoding.UTF8);
        jsonGenerator.writeStartObject();
        jsonGenerator.writeStringField("dataSet", dataName);
        jsonGenerator.writeNumberField("numClassesInModel", crf.getNumClasses());
        jsonGenerator.writeNumberField("numClassesInDataSet", dataSetLabels.size());
        jsonGenerator.writeNumberField("numClassesInModelDataSetCombined", dataSet.getNumClasses());
        Set<String> modelNotDataLabels = SetUtil.complement(modelLabels, dataSetLabels);
        Set<String> dataNotModelLabels = SetUtil.complement(dataSetLabels, modelLabels);
        jsonGenerator.writeNumberField("numClassesInDataSetButNotModel", dataNotModelLabels.size());
        jsonGenerator.writeNumberField("numClassesInModelButNotDataSet", modelNotDataLabels.size());
        jsonGenerator.writeArrayFieldStart("classesInDataSetButNotModel");
        for (String label : dataNotModelLabels) {
            jsonGenerator.writeObject(label);
        }
        jsonGenerator.writeEndArray();
        jsonGenerator.writeArrayFieldStart("classesInModelButNotDataSet");
        for (String label : modelNotDataLabels) {
            jsonGenerator.writeObject(label);
        }
        jsonGenerator.writeEndArray();
        jsonGenerator.writeNumberField("labelCardinality", dataSet.labelCardinality());
        jsonGenerator.writeEndObject();
        jsonGenerator.close();
    // System.out.println("finish writing data info to json");
    }
    boolean modelConfigToJson = true;
    if (modelConfigToJson) {
        // System.out.println("start writing model config to json");
        ObjectMapper objectMapper = new ObjectMapper();
        objectMapper.writeValue(new File(analysisFolder, "model_config.json"), config);
    // System.out.println("finish writing model config to json");
    }
    boolean performanceToJson = true;
    if (performanceToJson) {
        ObjectMapper objectMapper = new ObjectMapper();
        objectMapper.writeValue(new File(analysisFolder, "performance.json"), mlMeasures);
    }
    boolean individualPerformance = true;
    if (individualPerformance) {
        // System.out.println("start writing individual label performance to json");
        ObjectMapper objectMapper = new ObjectMapper();
        objectMapper.writeValue(new File(analysisFolder, "individual_performance.json"), mlMeasures.getMacroAverage());
    // System.out.println("finish writing individual label performance to json");
    }
    System.out.println("reports generated");
}