FeatureTablesSelection.java

/*
 * Copyright 2006-2015 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.parameters.parametertypes.selectors;

import java.util.ArrayList;
import java.util.Collections;
import java.util.List;

import javax.annotation.concurrent.Immutable;

import com.google.common.base.Preconditions;
import com.google.common.base.Strings;
import com.google.common.collect.ImmutableList;

import io.github.msdk.datamodel.featuretables.FeatureTable;
import io.github.mzmine.gui.MZmineGUI;
import io.github.mzmine.main.MZmineCore;
import io.github.mzmine.util.TextUtils;

@Immutable
public class FeatureTablesSelection implements Cloneable {

  private final FeatureTablesSelectionType selectionType;
  private final List<FeatureTable> specificFiles;
  private final String namePattern;

  public FeatureTablesSelection(FeatureTablesSelectionType selectionType,
      List<FeatureTable> specificFiles, String namePattern) {

    Preconditions.checkNotNull(selectionType);
    this.selectionType = selectionType;

    if (specificFiles != null)
      this.specificFiles = ImmutableList.copyOf(specificFiles);
    else
      this.specificFiles = null;

    this.namePattern = namePattern;
  }

  public List<FeatureTable> getMatchingFeatureTables() {

    switch (selectionType) {

      case GUI_SELECTED_FEATURE_TABLES:
        return MZmineGUI.getSelectedFeatureTables();
      case ALL_FEATURE_TABLES:
        return MZmineCore.getCurrentProject().getFeatureTables();
      case SPECIFIC_FEATURE_TABLES:
        if (specificFiles == null)
          return Collections.emptyList();
        else
          return specificFiles;
      case NAME_PATTERN:
        if (Strings.isNullOrEmpty(namePattern))
          return Collections.emptyList();
        ArrayList<FeatureTable> matchingDataFiles = new ArrayList<FeatureTable>();
        List<FeatureTable> allDataFiles = MZmineCore.getCurrentProject().getFeatureTables();

        fileCheck: for (FeatureTable file : allDataFiles) {

          final String fileName = file.getName();

          final String regex = TextUtils.createRegexFromWildcards(namePattern);

          if (fileName.matches(regex)) {
            if (matchingDataFiles.contains(file))
              continue;
            matchingDataFiles.add(file);
            continue fileCheck;
          }
        }
        return matchingDataFiles;
      case BATCH_LAST_FEATURE_TABLES:
        return Collections.emptyList();
    }

    throw new IllegalStateException("This code should be unreachable");

  }

  public FeatureTablesSelectionType getSelectionType() {
    return selectionType;
  }

  public List<FeatureTable> getSpecificFeatureTables() {
    return specificFiles;
  }

  public String getNamePattern() {
    return namePattern;
  }

  public String toString() {
    StringBuilder str = new StringBuilder();
    List<FeatureTable> files = getMatchingFeatureTables();
    for (int i = 0; i < files.size(); i++) {
      if (i > 0)
        str.append("\n");
      str.append(files.get(i).getName());
    }
    return str.toString();
  }

}