FeatureTableImportParameters.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.featuretableimport;

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

import org.controlsfx.control.PropertySheet;

import com.google.common.base.Strings;

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

public class FeatureTableImportParameters extends ParameterSet {

  private static final ExtensionFilter filters[] =
      new ExtensionFilter[] {new ExtensionFilter("All feature table files", "*.csv", "*.mzTab"),
          new ExtensionFilter("CSV files", "*.csv"), new ExtensionFilter("mzTab files", "*.mzTab"),
          new ExtensionFilter("All files", "*.*")};

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

  @SuppressWarnings({"unchecked"})
  public static final StringParameter removePrefix = new StringParameter("Remove prefix",
      "Prefix to be removed from file names", "Prefixes", null, null, e -> {
        StringEditor editor = null;
        PropertySheet sheet = null;
        Node src = (Node) e.getSource();
        while (src != null) {
          if (src instanceof StringEditor)
            editor = (StringEditor) src;
          if (src instanceof PropertySheet) {
            sheet = (PropertySheet) src;
            break;
          }
          src = src.getParent();

        }
        if (sheet != null && editor != null) {
          for (PropertySheet.Item item : sheet.getItems()) {
            if (item instanceof FileNamesParameter) {
              List<File> fileNames = (List<File>) item.getValue();
              if (fileNames == null)
                return;
              String commonPrefix = FileNameUtil.findCommonPrefix(fileNames);
              editor.setValue(commonPrefix);
            }
          }
        }
      });

  @SuppressWarnings({"unchecked"})
  public static final StringParameter removeSuffix = new StringParameter("Remove suffix",
      "Suffix to be removed from file names", "Prefixes", null, null, e -> {
        StringEditor editor = null;
        PropertySheet sheet = null;
        Node src = (Node) e.getSource();
        while (src != null) {
          if (src instanceof StringEditor)
            editor = (StringEditor) src;
          if (src instanceof PropertySheet) {
            sheet = (PropertySheet) src;
            break;
          }
          src = src.getParent();

        }
        if (sheet != null && editor != null) {
          for (PropertySheet.Item item : sheet.getItems()) {
            if (item instanceof FileNamesParameter) {
              List<File> fileNames = (List<File>) item.getValue();
              if (fileNames == null)
                continue;
              String commonSuffix = FileNameUtil.findCommonSuffix(fileNames);
              // If no common suffix then remove file extension
              if (Strings.isNullOrEmpty(commonSuffix))
                commonSuffix = ".*";
              editor.setValue(commonSuffix);
            }
          }
        }
      });

  public FeatureTableImportParameters() {
    super(fileNames, removePrefix, removeSuffix);
  }

}