*/
package jalview.io;
-import static org.junit.Assert.assertTrue;
-import static org.junit.Assert.fail;
-
-import java.io.File;
-
-import org.junit.AfterClass;
-import org.junit.Assert;
-import org.junit.BeforeClass;
-import org.junit.Test;
+import static org.testng.AssertJUnit.assertTrue;
import jalview.api.AlignmentViewPanel;
import jalview.api.ViewStyleI;
import jalview.schemes.AnnotationColourGradient;
import jalview.schemes.ColourSchemeI;
+import java.io.File;
+
+import org.testng.Assert;
+import org.testng.AssertJUnit;
+import org.testng.annotations.AfterClass;
+import org.testng.annotations.BeforeClass;
+import org.testng.annotations.Test;
+
public class Jalview2xmlTests
{
return numdsann;
}
- @Test
+ @Test(groups ={ "Functional" })
public void testRNAStructureRecovery() throws Exception
{
String inFile = "examples/RF00031_folded.stk";
af.getViewport().getGlobalColourScheme() instanceof jalview.schemes.RNAHelicesColour);
}
- @Test
+ @Test(groups ={ "Functional" })
public void testTCoffeeScores() throws Exception
{
String inFile = "examples/uniref50.fa", inAnnot = "examples/uniref50.score_ascii";
.println("T-Coffee score shading successfully recovered from project.");
}
- @Test
+ @Test(groups ={ "Functional" })
public void testColourByAnnotScores() throws Exception
{
String inFile = "examples/uniref50.fa", inAnnot = "examples/testdata/uniref50_iupred.jva";
.println("Per sequence (Group) colourscheme successfully applied and recovered.");
}
- @Test
+ @Test(groups ={ "Functional" })
public void gatherViewsHere() throws Exception
{
int origCount = Desktop.getAlignFrames() == null ? 0 : Desktop
}
- @Test
+ @Test(groups ={ "Functional" })
public void viewRefPdbAnnotation() throws Exception
{
Cache.applicationProperties.setProperty("STRUCT_FROM_PDB",
}
catch (NullPointerException q)
{
- fail("Mismatch of alignment annotations at position " + p
+ Assert.fail("Mismatch of alignment annotations at position " + p
+ " Ref seq ann: " + refan.annotations[p]
+ " alignment " + alaa.annotations[p]);
}
}
- @Test
+ @Test(groups ={ "Functional" })
public void testCopyViewSettings() throws Exception
{
AlignFrame af = new jalview.io.FileLoader().LoadFileWaitTillLoaded(
"examples/exampleFile_2_7.jar", FormatAdapter.FILE);
- Assert.assertTrue("Didn't read in the example file correctly.", af != null);
+ assertTrue("Didn't read in the example file correctly.", af != null);
AlignmentViewPanel sps = null, groups = null;
for (AlignmentViewPanel ap : af.alignPanel.alignFrame.getAlignPanels())
{
ViewStyleI structureStyle = sps.getAlignViewport().getViewStyle();
ViewStyleI groupStyle = groups.getAlignViewport().getViewStyle();
- Assert.assertFalse(structureStyle.sameStyle(groupStyle));
+ AssertJUnit.assertFalse(structureStyle.sameStyle(groupStyle));
groups.getAlignViewport().setViewStyle(structureStyle);
- Assert.assertFalse(groupStyle.sameStyle(groups.getAlignViewport()
+ AssertJUnit.assertFalse(groupStyle.sameStyle(groups.getAlignViewport()
.getViewStyle()));
Assert.assertTrue(structureStyle.sameStyle(groups.getAlignViewport()
.getViewStyle()));