RawDataImportParameters.java

/*
 * Copyright 2006-2016 The MZmine 3 Development Team
 * 
 * This file is part of MZmine 3.
 * 
 * MZmine 3 is free software; you can redistribute it and/or modify it under the terms of the GNU
 * General Public License as published by the Free Software Foundation; either version 2 of the
 * License, or (at your option) any later version.
 * 
 * MZmine 3 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 General Public License along with MZmine 3; if not,
 * write to the Free Software Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, MA 02110-1301
 * USA
 */

package io.github.mzmine.modules.rawdata.rawdataimport;

import java.io.File;
import java.util.Arrays;
import java.util.List;

import org.controlsfx.property.editor.PropertyEditor;

import com.google.common.base.Strings;

import io.github.mzmine.parameters.ParameterSet;
import io.github.mzmine.parameters.ParameterSheetView;
import io.github.mzmine.parameters.ParameterValidator;
import io.github.mzmine.parameters.parametertypes.ComboParameter;
import io.github.mzmine.parameters.parametertypes.StringParameter;
import io.github.mzmine.parameters.parametertypes.filenames.FileNamesParameter;
import io.github.mzmine.util.FileNameUtil;
import io.github.mzmine.util.JavaFXUtil;
import javafx.scene.Node;
import javafx.stage.FileChooser.ExtensionFilter;

public class RawDataImportParameters extends ParameterSet {

  private static final ExtensionFilter filters[] = new ExtensionFilter[] {
      new ExtensionFilter("All raw data files", "*.csv", "*.cdf", "*.nc", "*.mzData", "*.mzML",
          "*.mzXML", "*.raw", "*.xml"),
      new ExtensionFilter("Agilent CSV files", "*.csv"),
      new ExtensionFilter("mzData files", "*.mzData"), new ExtensionFilter("mzML files", "*.mzML"),
      new ExtensionFilter("mzXML files", "*.mzXML"),
      new ExtensionFilter("NetCDF files", "*.cdf", "*.nc"),
      new ExtensionFilter("Waters RAW folders", "*.raw"),
      new ExtensionFilter("XCalibur RAW files", "*.raw"), new ExtensionFilter("XML files", "*.xml"),
      new ExtensionFilter("All files", "*.*")};

  public static final FileNamesParameter fileNames =
      new FileNamesParameter("File names", "Add raw data files", "Input files",
          ParameterValidator.createNonEmptyValidator(), Arrays.asList(filters));

  public static final ComboParameter<RawDataImportMode> importMode =
      new ComboParameter<>("Import mode", "Select how the raw data points will be handled", "Mode",
          Arrays.asList(RawDataImportMode.values()), RawDataImportMode.TRANSPARENT);

  public static final StringParameter removePrefix =
      new StringParameter("Remove prefix", "Prefix to be removed from file names", "Prefixes");

  public static final StringParameter removeSuffix =
      new StringParameter("Remove suffix", "Suffix to be removed from file names", "Prefixes");

  public RawDataImportParameters() {

    super(fileNames, importMode, removePrefix, removeSuffix);

    removePrefix.setAutoSetAction(e -> {

      ParameterSheetView sheet =
          JavaFXUtil.getAncestorOfClass(ParameterSheetView.class, (Node) e.getSource());
      PropertyEditor<List<File>> fileNamesEditor = sheet.getEditorForParameter(fileNames);
      PropertyEditor<String> prefixEditor = sheet.getEditorForParameter(removePrefix);

      List<File> fileNames = fileNamesEditor.getValue();
      if (fileNames == null) {
        prefixEditor.setValue("");
      } else {
        String commonPrefix = FileNameUtil.findCommonPrefix(fileNames);
        prefixEditor.setValue(commonPrefix);
      }

    });

    removeSuffix.setAutoSetAction(e -> {

      ParameterSheetView sheet =
          JavaFXUtil.getAncestorOfClass(ParameterSheetView.class, (Node) e.getSource());
      PropertyEditor<List<File>> fileNamesEditor = sheet.getEditorForParameter(fileNames);
      PropertyEditor<String> suffixEditor = sheet.getEditorForParameter(removeSuffix);

      List<File> fileNames = fileNamesEditor.getValue();
      if (fileNames == null) {
        suffixEditor.setValue("");
      } else {
        String commonSuffix = FileNameUtil.findCommonSuffix(fileNames);
        // If no common suffix then remove file extension
        if (Strings.isNullOrEmpty(commonSuffix))
          commonSuffix = ".*";
        suffixEditor.setValue(commonSuffix);
      }

    });
  }

}