MsSpectrumLayersDialogController.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.modules.plots.msspectrum;

import java.util.List;

import io.github.msdk.datamodel.msspectra.MsSpectrumType;
import io.github.mzmine.main.MZmineCore;
import io.github.mzmine.modules.plots.msspectrum.datasets.MsSpectrumDataSet;
import io.github.mzmine.modules.plots.msspectrum.fxcomponents.SpinnerTableCell;
import io.github.mzmine.util.fxcomponents.ColorTableCell;
import javafx.collections.FXCollections;
import javafx.collections.ObservableList;
import javafx.event.Event;
import javafx.fxml.FXML;
import javafx.scene.control.TableColumn;
import javafx.scene.control.TableRow;
import javafx.scene.control.TableView;
import javafx.scene.control.cell.CheckBoxTableCell;
import javafx.scene.control.cell.ChoiceBoxTableCell;
import javafx.scene.control.cell.TextFieldTableCell;
import javafx.scene.paint.Color;
import javafx.stage.Stage;
import javafx.util.converter.NumberStringConverter;

/**
 * MS spectrum layer setup dialog controller
 */
public class MsSpectrumLayersDialogController {

  @FXML
  private Stage dialogStage;

  @FXML
  private TableView<MsSpectrumDataSet> layersTable;

  @FXML
  private TableColumn<MsSpectrumDataSet, MsSpectrumType> renderingTypeColumn;

  @FXML
  private TableColumn<MsSpectrumDataSet, Color> colorColumn;

  @FXML
  private TableColumn<MsSpectrumDataSet, Number> intensityScaleColumn;

  @FXML
  private TableColumn<MsSpectrumDataSet, Integer> lineThicknessColumn;

  @FXML
  private TableColumn<MsSpectrumDataSet, Boolean> showDataPointsColumn;

  private MsSpectrumPlotWindowController plotController;

  public void initialize() {

    final ObservableList<MsSpectrumType> renderingChoices =
        FXCollections.observableArrayList(MsSpectrumType.CENTROIDED, MsSpectrumType.PROFILE);
    renderingTypeColumn.setCellFactory(ChoiceBoxTableCell.forTableColumn(renderingChoices));

    colorColumn.setCellFactory(column -> new ColorTableCell<MsSpectrumDataSet>(column));

    lineThicknessColumn
        .setCellFactory(column -> new SpinnerTableCell<MsSpectrumDataSet>(column, 1, 5));

    intensityScaleColumn.setCellFactory(TextFieldTableCell.forTableColumn(
        new NumberStringConverter(MZmineCore.getConfiguration().getIntensityFormat())));

    showDataPointsColumn
        .setCellFactory(column -> new CheckBoxTableCell<MsSpectrumDataSet, Boolean>() {
          {
            tableRowProperty().addListener(e -> {
              TableRow<?> row = getTableRow();
              if (row == null)
                return;
              MsSpectrumDataSet dataSet = (MsSpectrumDataSet) row.getItem();
              if (dataSet == null)
                return;
              disableProperty()
                  .bind(dataSet.renderingTypeProperty().isEqualTo(MsSpectrumType.CENTROIDED));

            });
          }
        });
  }

  public void handleDeleteLayer(Event event) {
    List<MsSpectrumDataSet> selected = layersTable.getSelectionModel().getSelectedItems();
    layersTable.getItems().removeAll(selected);
  }

  public void handleAddScan(Event event) {
    plotController.handleAddScan(event);
  }

  public void handleAddSpectrumFromText(Event event) {
    plotController.handleAddSpectrumFromText(event);
  }

  public void handleAddIsotopePattern(Event event) {
    plotController.handleAddIsotopePattern(event);
  }

  public void handleClose(Event event) {
    dialogStage.close();
  }

  public void configure(ObservableList<MsSpectrumDataSet> items,
      MsSpectrumPlotWindowController plotController) {
    layersTable.setItems(items);
    this.plotController = plotController;
  }

}