Examples with Precision edu.neu.ccs.pyramid.eval.Precision used on opensource projects

Example 1 with Precision

use of edu.neu.ccs.pyramid.eval.Precision in project pyramid by cheng-li.

the class BRPrediction method report.

private static void report(Config config, String dataPath, Logger logger) throws Exception {
    DataSetType dataSetType;
    switch(config.getString("dataSetType")) {
        case "sparse_random":
            dataSetType = DataSetType.ML_CLF_SPARSE;
            break;
        case "sparse_sequential":
            dataSetType = DataSetType.ML_CLF_SEQ_SPARSE;
            break;
        default:
            throw new IllegalArgumentException("unknown dataSetType");
    }
    MultiLabelClfDataSet test = TRECFormat.loadMultiLabelClfDataSet(dataPath, dataSetType, true);
    MultiLabelClassifier.ClassProbEstimator classProbEstimator = (MultiLabelClassifier.ClassProbEstimator) Serialization.deserialize(Paths.get(config.getString("output.dir"), "model_predictions", config.getString("output.modelFolder"), "models", "classifier"));
    LabelCalibrator labelCalibrator = (LabelCalibrator) Serialization.deserialize(Paths.get(config.getString("output.dir"), "model_predictions", config.getString("output.modelFolder"), "models", "calibrators", config.getString("output.calibratorFolder"), "label_calibrator").toFile());
    VectorCalibrator setCalibrator = (VectorCalibrator) Serialization.deserialize(Paths.get(config.getString("output.dir"), "model_predictions", config.getString("output.modelFolder"), "models", "calibrators", config.getString("output.calibratorFolder"), "set_calibrator").toFile());
    PredictionFeatureExtractor predictionFeatureExtractor = (PredictionFeatureExtractor) Serialization.deserialize(Paths.get(config.getString("output.dir"), "model_predictions", config.getString("output.modelFolder"), "models", "calibrators", config.getString("output.calibratorFolder"), "prediction_feature_extractor").toFile());
    File testDataFile = new File(dataPath);
    List<MultiLabel> support = (List<MultiLabel>) Serialization.deserialize(Paths.get(config.getString("output.dir"), "model_predictions", config.getString("output.modelFolder"), "models", "support").toFile());
    String reportFolder = Paths.get(config.getString("output.dir"), "model_predictions", config.getString("output.modelFolder"), "predictions", testDataFile.getName() + "_reports").toString();
    MultiLabelClassifier classifier = null;
    switch(config.getString("predict.mode")) {
        case "independent":
            classifier = new IndependentPredictor(classProbEstimator, labelCalibrator);
            break;
        case "support":
            classifier = new edu.neu.ccs.pyramid.multilabel_classification.predictor.SupportPredictor(classProbEstimator, labelCalibrator, setCalibrator, predictionFeatureExtractor, support);
            break;
        case "reranker":
            Reranker reranker = (Reranker) setCalibrator;
            reranker.setMinPredictionSize(config.getInt("predict.minSize"));
            reranker.setMaxPredictionSize(config.getInt("predict.maxSize"));
            classifier = reranker;
            break;
        default:
            throw new IllegalArgumentException("illegal predict.mode");
    }
    MultiLabel[] predictions = classifier.predict(test);
    logger.info("classification performance on dataset " + testDataFile.getName());
    MLMeasures mlMeasures = new MLMeasures(test.getNumClasses(), test.getMultiLabels(), predictions);
    mlMeasures.getMacroAverage().updateAveragePrecision(classProbEstimator, test);
    logger.info(mlMeasures.toString());
    CalibrationDataGenerator calibrationDataGenerator = new CalibrationDataGenerator(labelCalibrator, predictionFeatureExtractor);
    if (true) {
        logger.info("calibration performance on dataset " + testDataFile.getName());
        List<CalibrationDataGenerator.CalibrationInstance> instances = IntStream.range(0, test.getNumDataPoints()).parallel().boxed().map(i -> calibrationDataGenerator.createInstance(classProbEstimator, test.getRow(i), predictions[i], test.getMultiLabels()[i], config.getString("calibrate.target"))).collect(Collectors.toList());
        BRCalibration.eval(instances, setCalibrator, logger, config.getString("calibrate.target"));
    }
    MultiLabelClassifier fClassifier = classifier;
    boolean simpleCSV = true;
    if (simpleCSV) {
        File csv = Paths.get(reportFolder, "report.csv").toFile();
        csv.getParentFile().mkdirs();
        if (csv.exists()) {
            csv.delete();
        }
        StringBuilder sb = new StringBuilder();
        sb.append("doc_id").append("\t").append("predictions").append("\t").append("prediction_type").append("\t").append("confidence").append("\t").append("truth").append("\t").append("ground_truth").append("\t").append("precision").append("\t").append("recall").append("\t").append("F1").append("\n");
        FileUtils.writeStringToFile(csv, sb.toString());
        List<Integer> list = IntStream.range(0, test.getNumDataPoints()).boxed().collect(Collectors.toList());
        ParallelStringMapper<Integer> mapper = (list1, i) -> simplePredictionAnalysisCalibrated(classProbEstimator, labelCalibrator, setCalibrator, test, i, fClassifier, predictionFeatureExtractor);
        ParallelFileWriter.mapToString(mapper, list, csv, 100, true);
    }
    boolean topSets = true;
    if (topSets) {
        File csv = Paths.get(reportFolder, "top_sets.csv").toFile();
        csv.getParentFile().mkdirs();
        List<Integer> list = IntStream.range(0, test.getNumDataPoints()).boxed().collect(Collectors.toList());
        ParallelStringMapper<Integer> mapper = (list1, i) -> topKSets(config, classProbEstimator, labelCalibrator, setCalibrator, test, i, fClassifier, predictionFeatureExtractor);
        ParallelFileWriter.mapToString(mapper, list, csv, 100);
    }
    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) test.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, test.getNumDataPoints())).parallel().mapToObj(a -> BRInspector.analyzePrediction(classProbEstimator, labelCalibrator, setCalibrator, test, fClassifier, predictionFeatureExtractor, a, ruleLimit, labelSetLimit, probThreshold)).collect(Collectors.toList());
            ObjectMapper mapper = new ObjectMapper();
            File jsonFile = Paths.get(reportFolder, "report_" + (i + 1) + ".json").toFile();
            try {
                mapper.writeValue(jsonFile, partition);
            } catch (IOException e) {
                e.printStackTrace();
            }
            logger.info("progress = " + Progress.percentage(i + 1, numFiles));
        });
        logger.info("finish writing rules to json");
    }
    boolean individualPerformance = true;
    if (individualPerformance) {
        logger.info("start writing individual label performance to json");
        ObjectMapper objectMapper = new ObjectMapper();
        objectMapper.writeValue(Paths.get(reportFolder, "individual_performance.json").toFile(), mlMeasures.getMacroAverage());
        logger.info("finish writing individual label performance to json");
    }
    boolean dataConfigToJson = true;
    if (dataConfigToJson) {
        logger.info("start writing data config to json");
        File dataConfigFile = Paths.get(dataPath, "data_config.json").toFile();
        if (dataConfigFile.exists()) {
            FileUtils.copyFileToDirectory(dataConfigFile, new File(reportFolder));
        }
        logger.info("finish writing data config to json");
    }
    boolean dataInfoToJson = true;
    if (dataInfoToJson) {
        logger.info("start writing data info to json");
        Set<String> modelLabels = IntStream.range(0, classifier.getNumClasses()).mapToObj(i -> classProbEstimator.getLabelTranslator().toExtLabel(i)).collect(Collectors.toSet());
        Set<String> dataSetLabels = DataSetUtil.gatherLabels(test).stream().map(i -> test.getLabelTranslator().toExtLabel(i)).collect(Collectors.toSet());
        JsonGenerator jsonGenerator = new JsonFactory().createGenerator(Paths.get(reportFolder, "data_info.json").toFile(), JsonEncoding.UTF8);
        jsonGenerator.writeStartObject();
        jsonGenerator.writeStringField("dataSet", testDataFile.getName());
        jsonGenerator.writeNumberField("numClassesInModel", classifier.getNumClasses());
        jsonGenerator.writeNumberField("numClassesInDataSet", dataSetLabels.size());
        jsonGenerator.writeNumberField("numClassesInModelDataSetCombined", test.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", test.labelCardinality());
        jsonGenerator.writeEndObject();
        jsonGenerator.close();
        logger.info("finish writing data info to json");
    }
    boolean performanceToJson = true;
    if (performanceToJson) {
        ObjectMapper objectMapper = new ObjectMapper();
        objectMapper.writeValue(Paths.get(reportFolder, "performance.json").toFile(), mlMeasures);
    }
    if (config.getBoolean("report.produceHTML")) {
        logger.info("start producing html files");
        Config savedApp1Config = new Config(Paths.get(config.getString("output.dir"), "meta_data", "saved_config_app1").toFile());
        List<String> hosts = savedApp1Config.getStrings("index.hosts");
        List<Integer> ports = savedApp1Config.getIntegers("index.ports");
        // todo make it better
        if (savedApp1Config.getString("index.clientType").equals("node")) {
            hosts = new ArrayList<>();
            for (int port : ports) {
                hosts.add("localhost");
            }
            // default setting
            hosts.add("localhost");
            ports.add(9200);
        }
        try (Visualizer visualizer = new Visualizer(logger, hosts, ports)) {
            visualizer.produceHtml(new File(reportFolder));
            logger.info("finish producing html files");
        }
    }
}