coolmap.application.io.internal.cmatrix.DefaultCMatrixExporter.java Source code

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Here is the source code for coolmap.application.io.internal.cmatrix.DefaultCMatrixExporter.java

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package coolmap.application.io.internal.cmatrix;

import coolmap.application.io.IOTerm;
import coolmap.application.io.internal.cmatrix.interfaces.InternalCMatrixExporter;
import coolmap.data.cmatrix.model.CMatrix;
import de.schlichtherle.truezip.file.TFile;
import de.schlichtherle.truezip.file.TFileOutputStream;
import java.io.BufferedWriter;
import java.io.File;
import java.io.OutputStreamWriter;
import org.json.JSONObject;

/**
 * Export a CMatrix using embedded object's toString method
 * @author sugang
 */
public class DefaultCMatrixExporter implements InternalCMatrixExporter {

    @Override
    public void dumpData(CMatrix matrix, TFile zipFolder) throws Exception {
        TFile outputFile = new TFile(zipFolder.getAbsolutePath() + File.separator + IOTerm.FILE_DATA);
        TFile propertyFile = new TFile(zipFolder.getAbsolutePath() + File.separator + IOTerm.FILE_PROPERTY);

        BufferedWriter propertyWriter = new BufferedWriter(
                new OutputStreamWriter(new TFileOutputStream(propertyFile)));

        JSONObject cmatrixPropertyEntry = new JSONObject();
        cmatrixPropertyEntry.put(IOTerm.ATTR_ID, matrix.getID());
        cmatrixPropertyEntry.put(IOTerm.ATTR_NAME, matrix.getName());
        cmatrixPropertyEntry.put(IOTerm.ATTR_CMATRIX_NUMROW, matrix.getNumRows());
        cmatrixPropertyEntry.put(IOTerm.ATTR_CMATRIX_NUMCOLUMN, matrix.getNumColumns());
        cmatrixPropertyEntry.put(IOTerm.ATTR_CLASS, matrix.getClass().getName());
        cmatrixPropertyEntry.put(IOTerm.ATTR_CMATRIX_MEMBERCLASS, matrix.getMemberClass().getName());

        //        System.out.println(cmatrixPropertyEntry);

        propertyWriter.write(cmatrixPropertyEntry.toString());

        propertyWriter.flush();
        propertyWriter.close();

        BufferedWriter dataWriter = new BufferedWriter(new OutputStreamWriter(new TFileOutputStream(outputFile)));

        //        dataWriter.write("This is where cmatrix will be dumped");
        //        part of the following code can be extracted for other use
        //        dataWriter properties
        dataWriter.write("Row/Column");
        for (int i = 0; i < matrix.getNumColumns(); i++) {
            dataWriter.write("\t");
            String colLabelString = matrix.getColLabel(i);
            if (colLabelString == null)
                colLabelString = "";
            dataWriter.write(colLabelString);
        }
        dataWriter.write("\n");

        for (int i = 0; i < matrix.getNumRows(); i++) {

            String rowLabelString = matrix.getRowLabel(i);
            if (rowLabelString == null)
                rowLabelString = "";
            dataWriter.write(rowLabelString);

            for (int j = 0; j < matrix.getNumColumns(); j++) {
                dataWriter.write("\t");
                Object value = matrix.getValue(i, j);

                if (value != null) {
                    dataWriter.write(value.toString());
                }
            }
            dataWriter.write("\n");

        }

        dataWriter.flush();
        dataWriter.close();

        //        System.out.println("Dumping successful");
    }

}