import jalview.datamodel.SequenceI;
import jalview.datamodel.features.SequenceFeatures;
import jalview.gui.AlignFrame;
+import jalview.gui.Desktop;
import jalview.gui.JvOptionPane;
+import jalview.structure.StructureSelectionManager;
import java.awt.Color;
import java.io.File;
import java.util.List;
import java.util.Map;
+import org.testng.annotations.AfterClass;
import org.testng.annotations.BeforeClass;
import org.testng.annotations.Test;
public class FeaturesFileTest
{
+ private static String simpleGffFile = "examples/testdata/simpleGff3.gff";
+
+ @AfterClass(alwaysRun = true)
+ public void tearDownAfterClass()
+ {
+ /*
+ * remove any sequence mappings created so they don't pollute other tests
+ */
+ StructureSelectionManager ssm = StructureSelectionManager
+ .getStructureSelectionManager(Desktop.instance);
+ ssm.resetAll();
+ }
@BeforeClass(alwaysRun = true)
public void setUpJvOptionPane()
JvOptionPane.setMockResponse(JvOptionPane.CANCEL_OPTION);
}
- private static String simpleGffFile = "examples/testdata/simpleGff3.gff";
-
@Test(groups = { "Functional" })
public void testParse() throws Exception
{
* updated - JAL-1904), and verify (some) feature group colours
*/
colours = af.getFeatureRenderer().getFeatureColours();
- assertEquals("26 feature group colours not found", 26, colours.size());
+ assertEquals("27 feature group colours not found", 27, colours.size());
assertEquals(colours.get("Cath").getColour(), new Color(0x93b1d1));
assertEquals(colours.get("ASX-MOTIF").getColour(), new Color(0x6addbb));
+ FeatureColourI kdColour = colours.get("kdHydrophobicity");
+ assertTrue(kdColour.isGraduatedColour());
+ assertTrue(kdColour.isAboveThreshold());
+ assertEquals(-2f, kdColour.getThreshold());
/*
* verify (some) features on sequences