import jalview.datamodel.SequenceDummy;
import jalview.datamodel.SequenceI;
import jalview.gui.AlignFrame;
+import jalview.gui.JvOptionPane;
import jalview.io.DataSourceType;
import jalview.io.FileLoader;
import java.util.List;
import java.util.Map;
+import org.testng.annotations.BeforeClass;
import org.testng.annotations.Test;
public class ExonerateHelperTest
{
+
+ @BeforeClass(alwaysRun = true)
+ public void setUpJvOptionPane()
+ {
+ JvOptionPane.setInteractiveMode(false);
+ JvOptionPane.setMockResponse(JvOptionPane.CANCEL_OPTION);
+ }
+
@Test(groups = "Functional")
public void testGetMappingType()
{
// protein-to-dna:
- assertSame(MappingType.PeptideToNucleotide,
+ assertSame(MappingType.PeptideToGenome,
ExonerateHelper
.getMappingType("exonerate:protein2genome:local"));
- assertSame(MappingType.PeptideToNucleotide,
+ assertSame(MappingType.PeptideToGenome,
ExonerateHelper.getMappingType("exonerate:protein2dna:local"));
// dna-to-dna:
- assertSame(MappingType.NucleotideToNucleotide,
+ assertSame(MappingType.GenomeToCdna,
ExonerateHelper.getMappingType("coding2coding"));
- assertSame(MappingType.NucleotideToNucleotide,
+ assertSame(MappingType.GenomeToCdna,
ExonerateHelper.getMappingType("coding2genome"));
- assertSame(MappingType.NucleotideToNucleotide,
+ assertSame(MappingType.GenomeToCdna,
ExonerateHelper.getMappingType("cdna2genome"));
- assertSame(MappingType.NucleotideToNucleotide,
+ assertSame(MappingType.GenomeToCdna,
ExonerateHelper.getMappingType("genome2genome"));
assertNull(ExonerateHelper.getMappingType("affine:local"));
}