import jalview.bin.Cache;
import jalview.bin.Jalview;
import jalview.datamodel.Alignment;
+import jalview.datamodel.AlignmentAnnotation;
import jalview.datamodel.AlignmentI;
import jalview.datamodel.Sequence;
import jalview.datamodel.SequenceI;
import jalview.io.FileLoader;
import java.awt.Event;
+import java.awt.EventQueue;
import java.awt.event.MouseEvent;
+import java.lang.reflect.InvocationTargetException;
+
+import javax.swing.JLabel;
import org.testng.annotations.AfterMethod;
import org.testng.annotations.BeforeClass;
import org.testng.annotations.Test;
+import junit.extensions.PA;
+
public class SeqPanelTest
{
AlignFrame af;
assertEquals(
alignFrame.alignPanel.getSeqPanel().setStatusMessage(
visAl.getSequenceAt(1), 1, 1), 2);
- assertEquals(alignFrame.statusBar.getText(),
+ assertEquals(((JLabel) PA.getValue(alignFrame, "statusBar")).getText(),
"Sequence 2 ID: Seq2 Residue: ALA (2)");
assertEquals(
alignFrame.alignPanel.getSeqPanel().setStatusMessage(
visAl.getSequenceAt(1), 4, 1), 3);
- assertEquals(alignFrame.statusBar.getText(),
+ assertEquals(((JLabel) PA.getValue(alignFrame, "statusBar")).getText(),
"Sequence 2 ID: Seq2 Residue: GLU (3)");
// no status message at a gap, returns next residue position to the right
assertEquals(
alignFrame.alignPanel.getSeqPanel().setStatusMessage(
visAl.getSequenceAt(1), 2, 1), 3);
- assertEquals(alignFrame.statusBar.getText(), "Sequence 2 ID: Seq2");
+ assertEquals(((JLabel) PA.getValue(alignFrame, "statusBar")).getText(),
+ "Sequence 2 ID: Seq2");
assertEquals(
alignFrame.alignPanel.getSeqPanel().setStatusMessage(
visAl.getSequenceAt(1), 3, 1), 3);
- assertEquals(alignFrame.statusBar.getText(), "Sequence 2 ID: Seq2");
+ assertEquals(((JLabel) PA.getValue(alignFrame, "statusBar")).getText(),
+ "Sequence 2 ID: Seq2");
}
@Test(groups = "Functional")
assertEquals(
alignFrame.alignPanel.getSeqPanel().setStatusMessage(
visAl.getSequenceAt(1), 1, 1), 2);
- assertEquals(alignFrame.statusBar.getText(),
+ assertEquals(((JLabel) PA.getValue(alignFrame, "statusBar")).getText(),
"Sequence 2 ID: Seq2 Residue: B (2)");
}
av.setScaleLeftWrapped(false);
av.setScaleRightWrapped(false);
alignFrame.alignPanel.paintAlignment(false, false);
+ waitForSwing(); // for Swing thread
final int charHeight = av.getCharHeight();
final int charWidth = av.getCharWidth();
assertEquals(pos.seqIndex, alignmentHeight - 1);
assertEquals(pos.annotationIndex, -1);
- /*
- * cursor at the top of the first annotation
- */
- y += 1;
- evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, y, 0, 0, 0,
- false, 0);
- pos = testee.findMousePosition(evt);
- assertEquals(pos.seqIndex, alignmentHeight - 1);
- assertEquals(pos.annotationIndex, 0); // over first annotation
-
- /*
- * cursor at the bottom of the first annotation
- */
- y += av.getAlignment().getAlignmentAnnotation()[0].height - 1;
- evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, y, 0, 0, 0,
- false, 0);
- pos = testee.findMousePosition(evt);
- assertEquals(pos.seqIndex, alignmentHeight - 1);
- assertEquals(pos.annotationIndex, 0);
-
- /*
- * cursor at the top of the second annotation
- */
- y += 1;
- evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, y, 0, 0, 0,
- false, 0);
- pos = testee.findMousePosition(evt);
- assertEquals(pos.seqIndex, alignmentHeight - 1);
- assertEquals(pos.annotationIndex, 1);
-
- /*
- * cursor at the bottom of the second annotation
- */
- y += av.getAlignment().getAlignmentAnnotation()[1].height - 1;
- evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, y, 0, 0, 0,
- false, 0);
- pos = testee.findMousePosition(evt);
- assertEquals(pos.seqIndex, alignmentHeight - 1);
- assertEquals(pos.annotationIndex, 1);
-
- /*
- * cursor at the top of the third annotation
- */
- y += 1;
- evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, y, 0, 0, 0,
- false, 0);
- pos = testee.findMousePosition(evt);
- assertEquals(pos.seqIndex, alignmentHeight - 1);
- assertEquals(pos.annotationIndex, 2);
-
- /*
- * cursor at the bottom of the third annotation
- */
- y += av.getAlignment().getAlignmentAnnotation()[2].height - 1;
- evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, y, 0, 0, 0,
- false, 0);
- pos = testee.findMousePosition(evt);
- assertEquals(pos.seqIndex, alignmentHeight - 1);
- assertEquals(pos.annotationIndex, 2);
+ AlignmentAnnotation[] annotationRows = av.getAlignment()
+ .getAlignmentAnnotation();
+ for (int n = 0; n < annotationRows.length; n++)
+ {
+ /*
+ * cursor at the top of the n'th annotation
+ */
+ y += 1;
+ evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, y, 0, 0, 0,
+ false, 0);
+ pos = testee.findMousePosition(evt);
+ assertEquals(pos.seqIndex, alignmentHeight - 1);
+ assertEquals(pos.annotationIndex, n); // over n'th annotation
+
+ /*
+ * cursor at the bottom of the n'th annotation
+ */
+ y += annotationRows[n].height - 1;
+ evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, y, 0, 0, 0,
+ false, 0);
+ pos = testee.findMousePosition(evt);
+ assertEquals(pos.seqIndex, alignmentHeight - 1);
+ assertEquals(pos.annotationIndex, n);
+ }
/*
* cursor in gap between wrapped widths
av.setScaleLeftWrapped(false);
av.setScaleRightWrapped(false);
alignFrame.alignPanel.paintAlignment(false, false);
-
+ waitForSwing();
+
final int charHeight = av.getCharHeight();
final int charWidth = av.getCharWidth();
final int alignmentHeight = av.getAlignment().getHeight();
assertEquals(pos.seqIndex, alignmentHeight - 1);
assertEquals(pos.annotationIndex, -1);
- /*
- * cursor at the top of the first annotation
- */
- y += 1;
- evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, y, 0, 0, 0,
- false, 0);
- pos = testee.findMousePosition(evt);
- assertEquals(pos.seqIndex, alignmentHeight - 1);
- assertEquals(pos.annotationIndex, 0); // over first annotation
-
- /*
- * cursor at the bottom of the first annotation
- */
- y += av.getAlignment().getAlignmentAnnotation()[0].height - 1;
- evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, y, 0, 0, 0,
- false, 0);
- pos = testee.findMousePosition(evt);
- assertEquals(pos.seqIndex, alignmentHeight - 1);
- assertEquals(pos.annotationIndex, 0);
-
- /*
- * cursor at the top of the second annotation
- */
- y += 1;
- evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, y, 0, 0, 0,
- false, 0);
- pos = testee.findMousePosition(evt);
- assertEquals(pos.seqIndex, alignmentHeight - 1);
- assertEquals(pos.annotationIndex, 1);
-
- /*
- * cursor at the bottom of the second annotation
- */
- y += av.getAlignment().getAlignmentAnnotation()[1].height - 1;
- evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, y, 0, 0, 0,
- false, 0);
- pos = testee.findMousePosition(evt);
- assertEquals(pos.seqIndex, alignmentHeight - 1);
- assertEquals(pos.annotationIndex, 1);
-
- /*
- * cursor at the top of the third annotation
- */
- y += 1;
- evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, y, 0, 0, 0,
- false, 0);
- pos = testee.findMousePosition(evt);
- assertEquals(pos.seqIndex, alignmentHeight - 1);
- assertEquals(pos.annotationIndex, 2);
-
- /*
- * cursor at the bottom of the third annotation
- */
- y += av.getAlignment().getAlignmentAnnotation()[2].height - 1;
- evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, y, 0, 0, 0,
- false, 0);
- pos = testee.findMousePosition(evt);
- assertEquals(pos.seqIndex, alignmentHeight - 1);
- assertEquals(pos.annotationIndex, 2);
+ AlignmentAnnotation[] annotationRows = av.getAlignment().getAlignmentAnnotation();
+ for (int n = 0; n < annotationRows.length; n++)
+ {
+ /*
+ * cursor at the top of the n'th annotation
+ */
+ y += 1;
+ evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, y, 0, 0, 0,
+ false, 0);
+ pos = testee.findMousePosition(evt);
+ assertEquals(pos.seqIndex, alignmentHeight - 1);
+ assertEquals(pos.annotationIndex, n); // over n'th annotation
+
+ /*
+ * cursor at the bottom of the n'th annotation
+ */
+ y += annotationRows[n].height - 1;
+ evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, y, 0, 0, 0,
+ false, 0);
+ pos = testee.findMousePosition(evt);
+ assertEquals(pos.seqIndex, alignmentHeight - 1);
+ assertEquals(pos.annotationIndex, n);
+ }
/*
* cursor in gap between wrapped widths
assertEquals(pos.seqIndex, 0);
assertEquals(pos.annotationIndex, -1);
}
+
@Test(groups = "Functional")
public void testFindMousePosition_wrapped_noAnnotations()
{
av.setScaleLeftWrapped(false);
av.setScaleRightWrapped(false);
alignFrame.alignPanel.paintAlignment(false, false);
-
+ waitForSwing();
+
final int charHeight = av.getCharHeight();
final int charWidth = av.getCharWidth();
final int alignmentHeight = av.getAlignment().getHeight();
assertEquals(pos.seqIndex, 0);
assertEquals(pos.annotationIndex, -1);
}
+
+ @Test(groups = "Functional")
+ public void testFindColumn_unwrapped()
+ {
+ Cache.applicationProperties.setProperty("WRAP_ALIGNMENT", "false");
+ AlignFrame alignFrame = new FileLoader().LoadFileWaitTillLoaded(
+ "examples/uniref50.fa", DataSourceType.FILE);
+ SeqPanel testee = alignFrame.alignPanel.getSeqPanel();
+ int x = 0;
+ final int charWidth = alignFrame.getViewport().getCharWidth();
+ assertTrue(charWidth > 0); // sanity check
+ assertEquals(alignFrame.getViewport().getRanges().getStartRes(), 0);
+
+ /*
+ * mouse at top left of unwrapped panel
+ */
+ MouseEvent evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, 0,
+ 0, 0, 0, false, 0);
+ assertEquals(testee.findColumn(evt), 0);
+
+ /*
+ * not quite one charWidth across
+ */
+ x = charWidth-1;
+ evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, 0,
+ 0, 0, 0, false, 0);
+ assertEquals(testee.findColumn(evt), 0);
+
+ /*
+ * one charWidth across
+ */
+ x = charWidth;
+ evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, 0, 0, 0, 0,
+ false, 0);
+ assertEquals(testee.findColumn(evt), 1);
+
+ /*
+ * two charWidths across
+ */
+ x = 2 * charWidth;
+ evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, 0, 0, 0, 0,
+ false, 0);
+ assertEquals(testee.findColumn(evt), 2);
+
+ /*
+ * limited to last column of seqcanvas
+ */
+ x = 20000;
+ evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, 0, 0, 0, 0,
+ false, 0);
+ SeqCanvas seqCanvas = alignFrame.alignPanel.getSeqPanel().seqCanvas;
+ int w = seqCanvas.getWidth();
+ // limited to number of whole columns, base 0
+ int expected = w / charWidth - 1;
+ assertEquals(testee.findColumn(evt), expected);
+
+ /*
+ * hide columns 5-10 (base 1)
+ */
+ alignFrame.getViewport().hideColumns(4, 9);
+ x = 5 * charWidth + 2;
+ // x is in 6th visible column, absolute column 12, or 11 base 0
+ evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, 0, 0, 0, 0,
+ false, 0);
+ assertEquals(testee.findColumn(evt), 11);
+ }
+
+ @Test(groups = "Functional")
+ public void testFindColumn_wrapped()
+ {
+ Cache.applicationProperties.setProperty("WRAP_ALIGNMENT", "true");
+ AlignFrame alignFrame = new FileLoader().LoadFileWaitTillLoaded(
+ "examples/uniref50.fa", DataSourceType.FILE);
+ AlignViewport av = alignFrame.getViewport();
+ av.setScaleAboveWrapped(false);
+ av.setScaleLeftWrapped(false);
+ av.setScaleRightWrapped(false);
+ alignFrame.alignPanel.paintAlignment(false, false);
+ // need to wait for repaint to finish!
+ waitForSwing();
+ SeqPanel testee = alignFrame.alignPanel.getSeqPanel();
+ int x = 0;
+ final int charWidth = av.getCharWidth();
+ assertTrue(charWidth > 0); // sanity check
+ assertEquals(av.getRanges().getStartRes(), 0);
+
+ /*
+ * mouse at top left of wrapped panel, no West (left) scale
+ */
+ MouseEvent evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, 0,
+ 0, 0, 0, false, 0);
+ assertEquals(testee.findColumn(evt), 0);
+
+ /*
+ * not quite one charWidth across
+ */
+ x = charWidth-1;
+ evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, 0,
+ 0, 0, 0, false, 0);
+ assertEquals(testee.findColumn(evt), 0);
+
+ /*
+ * one charWidth across
+ */
+ x = charWidth;
+ evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, 0, 0, 0, 0,
+ false, 0);
+ assertEquals(testee.findColumn(evt), 1);
+
+ /*
+ * x over scale left (before drawn columns) results in -1
+ */
+ av.setScaleLeftWrapped(true);
+ alignFrame.alignPanel.paintAlignment(false, false);
+ waitForSwing();
+ SeqCanvas seqCanvas = testee.seqCanvas;
+ int labelWidth = (int) PA.getValue(seqCanvas, "labelWidthWest");
+ assertTrue(labelWidth > 0);
+ x = labelWidth - 1;
+ evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, 0, 0, 0, 0,
+ false, 0);
+ assertEquals(testee.findColumn(evt), -1);
+
+ x = labelWidth;
+ evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, 0, 0, 0, 0,
+ false, 0);
+ assertEquals(testee.findColumn(evt), 0);
+
+ /*
+ * x over right edge of last residue (including scale left)
+ */
+ int residuesWide = av.getRanges().getViewportWidth();
+ assertTrue(residuesWide > 0);
+ x = labelWidth + charWidth * residuesWide - 1;
+ evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, 0, 0, 0, 0,
+ false, 0);
+ assertEquals(testee.findColumn(evt), residuesWide - 1);
+
+ /*
+ * x over scale right (beyond drawn columns) results in -1
+ */
+ av.setScaleRightWrapped(true);
+ alignFrame.alignPanel.paintAlignment(false, false);
+ waitForSwing();
+ labelWidth = (int) PA.getValue(seqCanvas, "labelWidthEast");
+ assertTrue(labelWidth > 0);
+ int residuesWide2 = av.getRanges().getViewportWidth();
+ assertTrue(residuesWide2 > 0);
+ assertTrue(residuesWide2 < residuesWide); // available width reduced
+ x += 1; // just over left edge of scale right
+ evt = new MouseEvent(testee, Event.MOUSE_MOVE, 0L, 0, x, 0, 0, 0, 0,
+ false, 0);
+ assertEquals(testee.findColumn(evt), -1);
+
+ // todo add startRes offset, hidden columns
+
+ }
@BeforeClass(alwaysRun = true)
public static void setUpBeforeClass() throws Exception
{
Cache.loadProperties("test/jalview/io/testProps.jvprops");
Jalview.main(new String[] { "-nonews" });
}
+
+ /**
+ * waits for Swing event dispatch queue to empty
+ */
+ synchronized void waitForSwing()
+ {
+ try
+ {
+ EventQueue.invokeAndWait(new Runnable()
+ {
+ @Override
+ public void run()
+ {
+ }
+ });
+ } catch (InterruptedException | InvocationTargetException e)
+ {
+ e.printStackTrace();
+ }
+ }
}
git://source.jalview.org / jalview.git / blobdiff