AlignmentI smallAl = gen.generate(7, 2, 2, 5, 5);
- @BeforeMethod
+ @BeforeMethod(alwaysRun = true)
public void cleanUp()
{
ColumnSelection sel = new ColumnSelection();
al.getHiddenColumns().revealAllHiddenColumns(sel);
al.getHiddenSequences().showAll(null);
+ smallAl.getHiddenColumns().revealAllHiddenColumns(sel);
+ smallAl.getHiddenSequences().showAll(null);
}
@Test(groups = { "Functional" })
ViewportRanges vrsmall = new ViewportRanges(smallAl);
vrsmall.setStartEndRes(al.getWidth(), al.getWidth());
assertEquals(vrsmall.getEndRes(), 6);
+
+ // make visible alignment width = 0
+ smallAl.getHiddenColumns().hideColumns(0, 6);
+ vrsmall.setStartEndRes(0, 4);
+ assertEquals(vrsmall.getStartRes(), 0);
+ assertEquals(vrsmall.getEndRes(), 0);
}
@Test(groups = { "Functional" })
vr.setStartEndSeq(al.getHeight(), al.getHeight());
assertEquals(vr.getEndSeq(), al.getHeight() - 1);
+
+ // make visible alignment height = 0
+ smallAl.getHiddenSequences().hideSequence(smallAl.getSequenceAt(0));
+ smallAl.getHiddenSequences().hideSequence(smallAl.getSequenceAt(0));
+ ViewportRanges vrsmall = new ViewportRanges(smallAl);
+ vrsmall.setStartEndSeq(0, 3);
+ assertEquals(vrsmall.getStartSeq(), 0);
+ assertEquals(vrsmall.getEndSeq(), 0);
}
@Test(groups = { "Functional" })