/*
 * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
 * Copyright (C) $$Year-Rel$$ The Jalview Authors
 * 
 * This file is part of Jalview.
 * 
 * Jalview 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 3
 * of the License, or (at your option) any later version.
 *  
 * Jalview 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 Jalview.  If not, see <http://www.gnu.org/licenses/>.
 * The Jalview Authors are detailed in the 'AUTHORS' file.
 */
package jalview.gui;

import static org.testng.AssertJUnit.assertEquals;
import static org.testng.AssertJUnit.assertFalse;
import static org.testng.AssertJUnit.assertTrue;

import jalview.datamodel.Alignment;
import jalview.datamodel.AlignmentI;
import jalview.datamodel.Sequence;
import jalview.datamodel.SequenceFeature;
import jalview.datamodel.SequenceI;

import java.util.List;

import org.testng.annotations.BeforeClass;
import org.testng.annotations.Test;

public class AlignFrameTest
{

  @BeforeClass(alwaysRun = true)
  public void setUpJvOptionPane()
  {
    JvOptionPane.setInteractiveMode(false);
    JvOptionPane.setMockResponse(JvOptionPane.CANCEL_OPTION);
  }

  @Test(groups = "Functional")
  public void testHideFeatureColumns()
  {
    SequenceI seq1 = new Sequence("Seq1", "ABCDEFGHIJ");
    SequenceI seq2 = new Sequence("Seq2", "ABCDEFGHIJ");
    seq1.addSequenceFeature(new SequenceFeature("Metal", "", 1, 5,
            Float.NaN, null));
    seq2.addSequenceFeature(new SequenceFeature("Metal", "", 6, 10,
            Float.NaN, null));
    seq1.addSequenceFeature(new SequenceFeature("Turn", "", 2, 4,
            Float.NaN, null));
    seq2.addSequenceFeature(new SequenceFeature("Turn", "", 7, 9,
            Float.NaN, null));
    AlignmentI al = new Alignment(new SequenceI[] { seq1, seq2 });
    AlignFrame af = new AlignFrame(al, al.getWidth(), al.getHeight());

    /*
     * hiding a feature not present does nothing
     */
    assertFalse(af.hideFeatureColumns("exon", true));
    assertTrue(af.getViewport().getColumnSelection().isEmpty());
    assertTrue(af.getViewport().getColumnSelection().getHiddenColumns()
            .isEmpty());
    assertFalse(af.hideFeatureColumns("exon", false));
    assertTrue(af.getViewport().getColumnSelection().isEmpty());
    assertTrue(af.getViewport().getColumnSelection().getHiddenColumns()
            .isEmpty());

    /*
     * hiding a feature in all columns does nothing
     */
    assertFalse(af.hideFeatureColumns("Metal", true));
    assertTrue(af.getViewport().getColumnSelection().isEmpty());
    List<int[]> hidden = af.getViewport().getColumnSelection()
            .getHiddenColumns();
    assertTrue(hidden.isEmpty());

    /*
     * hide a feature present in some columns
     * sequence positions [2-4], [7-9] are column positions
     * [1-3], [6-8] base zero
     */
    assertTrue(af.hideFeatureColumns("Turn", true));
    hidden = af.getViewport().getColumnSelection().getHiddenColumns();
    assertEquals(2, hidden.size());
    assertEquals(1, hidden.get(0)[0]);
    assertEquals(3, hidden.get(0)[1]);
    assertEquals(6, hidden.get(1)[0]);
    assertEquals(8, hidden.get(1)[1]);
  }
}