org.emau.icmvc.ganimed.deduplication.impl.CommonPreprocessor.java Source code

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Here is the source code for org.emau.icmvc.ganimed.deduplication.impl.CommonPreprocessor.java

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package org.emau.icmvc.ganimed.deduplication.impl;

/*
 * ###license-information-start###
 * E-PIX - Enterprise Patient Identifier Cross-referencing
 * __
 * Copyright (C) 2009 - 2017 The MOSAIC Project - Institut fuer Community Medicine der
 *                      Universitaetsmedizin Greifswald - mosaic-projekt@uni-greifswald.de
 *                      concept and implementation
 *                      c. schack, d.langner, l. geidel
 *                      web client
 *                      a. blumentritt
 *                      g. weiher
 *                      please cite our publications
 *                      http://dx.doi.org/10.3414/ME14-01-0133
 *                      http://dx.doi.org/10.1186/s12967-015-0545-6
 * __
 * This program is free software: you can redistribute it and/or modify
 * it under the terms of the GNU Affero General Public License as published by
 * the Free Software Foundation, either version 3 of the License, or
 * (at your option) any later version.
 * 
 * This program is distributed in the hope that it will be useful,
 * but WITHOUT ANY WARRANTY; without even the implied warranty of
 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
 * GNU General Public License for more details.
 * 
 * You should have received a copy of the GNU Affero General Public License
 * along with this program.  If not, see <http://www.gnu.org/licenses/>.
 * ###license-information-end###
 */

import java.util.List;

import org.apache.commons.lang3.StringUtils;
import org.emau.icmvc.ganimed.deduplication.PreprocessingStrategy;
import org.emau.icmvc.ganimed.deduplication.config.model.ComplexTransformation;
import org.emau.icmvc.ganimed.deduplication.config.model.PreprocessingField;
import org.emau.icmvc.ganimed.deduplication.config.model.PreprocessingType;
import org.emau.icmvc.ganimed.deduplication.config.model.SimpleTransformation;
import org.emau.icmvc.ganimed.deduplication.config.model.Transformation;
import org.emau.icmvc.ganimed.deduplication.preprocessing.impl.IComplexTransformation;
import org.emau.icmvc.ganimed.epix.common.utils.ReflectionUtil;
import org.emau.icmvc.ganimed.exception.DeduplicationException;

/**
 * 
 * @author Christian Schack
 * @since 23.09.2011
 *
 */

public class CommonPreprocessor<T> extends PreprocessingStrategy<T> {

    @Override
    public T preprocess(T preprocessable) throws DeduplicationException {
        if (preprocessingConfig != null) {
            List<PreprocessingType> preprocessingTypes = preprocessingConfig.getPreprocessingTypes();
            for (PreprocessingType preprocessingType : preprocessingTypes) {
                preprocessComplexType(preprocessable, preprocessingType);
            }
        }
        return preprocessable;
    }

    private <V> void preprocessComplexType(V preprocessable, PreprocessingType preprocessingTypes)
            throws DeduplicationException {
        List<PreprocessingField> preprocessingFields = preprocessingTypes.getPreprocessingField();

        for (PreprocessingField preprocessingField : preprocessingFields) {

            if (preprocessingField.getSimpleTransformationType() != null) {
                preprocessSimpleType(preprocessable, preprocessingField);
            }

            if (preprocessingField.getComplexTransformationType() != null) {
                preprocessComplexType(preprocessable, preprocessingField.getComplexTransformationType());
            }

            if (preprocessingField.getListTransformationType() != null) {
                preprocessListType(preprocessable, preprocessingField.getListTransformationType(),
                        preprocessingField.getFieldName());
            }
        }
    }

    @SuppressWarnings("unchecked")
    private <V> void preprocessListType(V preprocessable, PreprocessingType preprocessingType, String fieldname)
            throws DeduplicationException {
        try {
            List<V> processableList = (List<V>) ReflectionUtil.getProperty(preprocessable, fieldname);
            for (V preprocessableItem : processableList) {
                preprocessComplexType(preprocessableItem, preprocessingType);
            }
        } catch (Exception e) {
            throw new DeduplicationException(e.getLocalizedMessage(), e);
        }
    }

    private <V> void preprocessSimpleType(V processable, PreprocessingField preprocessingField)
            throws DeduplicationException {
        if (preprocessingField != null) {
            String propertyName = preprocessingField.getFieldName();
            for (Transformation transformation : preprocessingField.getSimpleTransformationType()) {
                transform(processable, transformation, propertyName);
            }
        }
    }

    protected <V> void transform(V processable, Transformation transformation, String propertyName)
            throws DeduplicationException {
        String newValue = null;
        if (transformation != null && transformation instanceof SimpleTransformation) {
            newValue = performSimpleTransformation(processable, (SimpleTransformation) transformation,
                    propertyName);
        } else if (transformation != null && transformation instanceof ComplexTransformation) {
            newValue = performComplexTransformation(processable, (ComplexTransformation) transformation,
                    propertyName);
        }
        try {
            ReflectionUtil.setProperty(processable, propertyName, newValue, String.class);
        } catch (Exception e) {
            throw new DeduplicationException(e.getLocalizedMessage(), e);
        }
    }

    /**
     * 
     * @param processable
     * @param transformationConfig
     * @param propertyName
     * @return
     * @throws DeduplicationException
     */
    protected <V> String performSimpleTransformation(V processable, SimpleTransformation transformationConfig,
            String propertyName) throws DeduplicationException {
        try {
            String inputPattern = transformationConfig.getInputPattern();
            String outputPattern = transformationConfig.getOutputPattern();

            String propertyValue = (String) ReflectionUtil.getProperty(processable, propertyName);
            String newValue = propertyValue;

            if (propertyValue != null) {
                if (outputPattern != null) {
                    // standard string replacement 
                    newValue = StringUtils.replace(propertyValue, inputPattern, outputPattern);
                }
            }

            return newValue;
        } catch (Exception e) {
            throw new DeduplicationException(e.getLocalizedMessage(), e);
        }
    }

    protected <V> String performComplexTransformation(V processable, ComplexTransformation transformationConfig,
            String propertyName) throws DeduplicationException {
        try {
            String propertyValue = (String) ReflectionUtil.getProperty(processable, propertyName);
            String newValue = null;
            if (propertyValue != null) {
                if (transformationConfig == null) {
                    throw new IllegalStateException("Invalid matching configuration !");
                }
                //TODO cache
                IComplexTransformation transformation = (IComplexTransformation) ReflectionUtil
                        .newInstance(transformationConfig.getQualifiedClassName());
                newValue = transformation.transform(propertyName, propertyValue);

            } else {
                logger.warn(String.format("Property %s is empty!", propertyName));
            }
            return newValue;
        } catch (Exception e) {
            throw new DeduplicationException(e.getLocalizedMessage(), e);
        }
    }

}