/*
* 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 .
* The Jalview Authors are detailed in the 'AUTHORS' file.
*/
package jalview.ext.rbvi.chimera;
import static org.testng.Assert.assertEquals;
import static org.testng.Assert.assertTrue;
import jalview.api.AlignmentViewPanel;
import jalview.api.FeatureRenderer;
import jalview.datamodel.Alignment;
import jalview.datamodel.AlignmentI;
import jalview.datamodel.ColumnSelection;
import jalview.datamodel.HiddenColumns;
import jalview.datamodel.Sequence;
import jalview.datamodel.SequenceI;
import jalview.gui.AlignFrame;
import jalview.gui.JvOptionPane;
import jalview.gui.SequenceRenderer;
import jalview.schemes.ColourSchemeI;
import jalview.schemes.JalviewColourScheme;
import jalview.structure.AtomSpec;
import jalview.structure.StructureMapping;
import jalview.structure.StructureMappingcommandSet;
import jalview.structure.StructureSelectionManager;
import jalview.structures.models.AAStructureBindingModel;
import java.awt.Color;
import java.util.HashMap;
import java.util.LinkedHashMap;
import java.util.List;
import java.util.Map;
import org.testng.annotations.BeforeClass;
import org.testng.annotations.Test;
import junit.extensions.PA;
public class ChimeraCommandsTest
{
private SequenceRenderer sr;
private AAStructureBindingModel mockBinding = new AAStructureBindingModel(
null, null)
{
@Override
public void releaseReferences(Object svl)
{
}
@Override
public void highlightAtoms(List atoms)
{
}
@Override
public List getChainNames()
{
return null;
}
@Override
public void setJalviewColourScheme(ColourSchemeI cs)
{
}
@Override
public String superposeStructures(AlignmentI[] alignments,
int[] structureIndices, HiddenColumns[] hiddenCols)
{
return null;
}
@Override
public void setBackgroundColour(Color col)
{
}
@Override
protected StructureMappingcommandSet[] getColourBySequenceCommands(
String[] files, AlignmentViewPanel avp)
{
return null;
}
@Override
public jalview.api.SequenceRenderer getSequenceRenderer(
AlignmentViewPanel alignment)
{
return sr;
}
@Override
protected void colourBySequence(
StructureMappingcommandSet[] colourBySequenceCommands)
{
}
@Override
public void colourByChain()
{
}
@Override
public void colourByCharge()
{
}
@Override
public FeatureRenderer getFeatureRenderer(AlignmentViewPanel alignment)
{
return null;
}
@Override
public String[] getStructureFiles()
{
return null;
}
@Override
public String getModelSpec(int model)
{
return "#" + String.valueOf(model);
}
};
@BeforeClass(alwaysRun = true)
public void setUpJvOptionPane()
{
JvOptionPane.setInteractiveMode(false);
JvOptionPane.setMockResponse(JvOptionPane.CANCEL_OPTION);
}
@Test(groups = { "Functional" })
public void testBuildColourCommands()
{
Map