3 import jalview.gui.AlignFrame;
5 import org.junit.Assert;
11 private static String exonerateSeqs = "examples/testdata/exonerateseqs.fa",
12 exonerateOutput = "examples/testdata/exonerateoutput.gff";
15 public void testExonerateImport()
17 // exonerate does not tag sequences after features, so we have a more
18 // conventional annotation import test here
20 FileLoader loader = new FileLoader(false);
22 AlignFrame af = loader.LoadFileWaitTillLoaded(exonerateSeqs,
25 Assert.assertEquals("Unexpected number of DNA protein associations", 0,
26 af.getViewport().getAlignment().getCodonFrames().size());
28 af.loadJalviewDataFile(exonerateOutput, FormatAdapter.FILE, null, null);
30 Assert.assertNotEquals("Expected at least one DNA protein association",
31 0, af.getViewport().getAlignment().getCodonFrames().size());
36 // public final void testPrintGFFFormatSequenceIArrayMapOfStringObject()
38 // fail("Not yet implemented");
42 // public final void testAlignFileBooleanStringString()
44 // fail("Not yet implemented");