Examples with PointsROI qupath.lib.roi.PointsROI used on opensource projects

Example 6 with PointsROI

use of qupath.lib.roi.PointsROI in project qupath by qupath.

the class CountingPane method copyCoordinatesToClipboard.

public static void copyCoordinatesToClipboard(PathObject pathObject) {
    // PathObject pathObject = viewer.getPathObjectHierarchy().getSelectionModel().getSelectedPathObject();
    if (pathObject == null || !pathObject.hasROI() || !(pathObject.getROI() instanceof PointsROI)) {
        Dialogs.showErrorMessage("Copy points to clipboard", "No points selected!");
        return;
    }
    StringBuilder sb = new StringBuilder();
    String name = pathObject.getDisplayedName();
    PointsROI points = (PointsROI) pathObject.getROI();
    for (Point2 p : points.getAllPoints()) sb.append(name).append("\t").append(p.getX()).append("\t").append(p.getY()).append("\n");
    StringSelection stringSelection = new StringSelection(sb.toString());
    Clipboard clipboard = Toolkit.getDefaultToolkit().getSystemClipboard();
    clipboard.setContents(stringSelection, null);
}

Example 7 with PointsROI

use of qupath.lib.roi.PointsROI in project qupath by qupath.

the class PointsTool method handleAltClick.

/**
 * Alt-clicks remove the selected point, or selects a new 'family' of points (i.e. a different object) if
 * a point from the current object isn't clicked.
 *
 * @param x
 * @param y
 * @param currentObject
 * @return
 */
private boolean handleAltClick(double x, double y, PathObject currentObject) {
    var viewer = getViewer();
    var viewerPlane = viewer.getImagePlane();
    PathObjectHierarchy hierarchy = viewer.getHierarchy();
    double distance = PathPrefs.pointRadiusProperty().get();
    // Remove a point if the current selection has one
    if (currentObject != null && PathObjectTools.hasPointROI(currentObject)) {
        PointsROI points = (PointsROI) currentObject.getROI();
        if (points.getImagePlane().equals(viewerPlane)) {
            ROI points2 = removeNearbyPoint(points, x, y, distance);
            if (points != points2) {
                ((PathROIObject) currentObject).setROI(points2);
                hierarchy.updateObject(currentObject, false);
                // hierarchy.fireHierarchyChangedEvent(this, currentObject);
                return true;
            }
        }
    }
    // Activate a points object if there is one
    for (PathObject pathObject : hierarchy.getPointObjects(PathObject.class)) {
        // Don't check the current object again
        if (pathObject == currentObject || !pathObject.getROI().getImagePlane().equals(viewerPlane))
            continue;
        // See if we've almost clicked on a point
        if (((PointsROI) pathObject.getROI()).getNearest(x, y, distance) != null) {
            viewer.setSelectedObject(pathObject);
            // hierarchy.getSelectionModel().setSelectedPathObject(pathObject);
            return true;
        }
    }
    // Select nothing
    viewer.setSelectedObject(null);
    return true;
}

Example 8 with PointsROI

use of qupath.lib.roi.PointsROI in project qupath by qupath.

the class PointsTool method mouseDragged.

@Override
public void mouseDragged(MouseEvent e) {
    super.mouseDragged(e);
    if (!e.isPrimaryButtonDown() || e.isConsumed()) {
        return;
    }
    var viewer = getViewer();
    RoiEditor editor = viewer.getROIEditor();
    if (!(editor.getROI() instanceof PointsROI) || !editor.hasActiveHandle())
        return;
    PointsROI points = getCurrentPoints();
    // Find out the coordinates in the image domain & update the adjustment
    Point2D pAdjusting = mouseLocationToImage(e, true, requestPixelSnapping());
    // double radius = PointsROI.defaultPointRadiusProperty().get();
    PointsROI points2 = (PointsROI) editor.setActiveHandlePosition(pAdjusting.getX(), pAdjusting.getY(), 0.25, e.isShiftDown());
    if (points2 == points)
        return;
    PathROIObject currentObject = (PathROIObject) viewer.getSelectedObject();
    currentObject.setROI(points2);
    viewer.repaint();
// viewer.getHierarchy().fireHierarchyChangedEvent(this, currentObject);
// //		points.updateAdjustment(pAdjusting.getX(), pAdjusting.getY(), e.isShiftDown());
// 
// //		Point2 p = points.getNearest(pAdjusting.getX(), pAdjusting.getY(), radius);
// if (p == null) {
// } else {
// p.setLocation(pAdjusting.getX(), pAdjusting.getY());
// //			points.resetMeasurements();
// viewer.repaint();
// }
}

Example 9 with PointsROI

use of qupath.lib.roi.PointsROI in project qupath by qupath.

the class PointsTool method mousePressed.

@Override
public void mousePressed(MouseEvent e) {
    super.mousePressed(e);
    if (!e.isPrimaryButtonDown() || e.isConsumed()) {
        return;
    }
    // Get a server, if we can
    var viewer = getViewer();
    ImageServer<?> server = viewer.getServer();
    if (server == null)
        return;
    var viewerPlane = viewer.getImagePlane();
    // Find out the coordinates in the image domain
    Point2D p = mouseLocationToImage(e, false, requestPixelSnapping());
    double xx = p.getX();
    double yy = p.getY();
    // If we are outside the image, ignore click
    if (xx < 0 || yy < 0 || xx >= server.getWidth() || yy >= server.getHeight())
        return;
    // See if we have a selected ROI
    PathObject currentObjectTemp = viewer.getSelectedObject();
    if (!(currentObjectTemp == null || currentObjectTemp instanceof PathROIObject))
        return;
    PathROIObject currentObject = (PathROIObject) currentObjectTemp;
    ROI currentROI = currentObject == null ? null : currentObject.getROI();
    RoiEditor editor = viewer.getROIEditor();
    double radius = PathPrefs.pointRadiusProperty().get();
    ROI points = null;
    if (currentROI != null && currentROI.isPoint() && (currentROI.isEmpty() || currentROI.getImagePlane().equals(viewerPlane)))
        points = currentROI;
    // If Alt is pressed, try to delete a point
    if (e.isAltDown()) {
        handleAltClick(xx, yy, currentObject);
    } else // Create a new ROI if we've got Alt & Shift pressed - or we just don't have a point ROI
    if (points == null || (!PathPrefs.multipointToolProperty().get() && !editor.grabHandle(xx, yy, radius, e.isShiftDown())) || (e.isShiftDown() && e.getClickCount() > 1)) {
        // PathPoints is effectively ready from the start - don't need to finalize
        points = ROIs.createPointsROI(xx, yy, viewerPlane);
        currentObject = (PathROIObject) PathObjects.createAnnotationObject(points, PathPrefs.autoSetAnnotationClassProperty().get());
        viewer.getHierarchy().addPathObject(currentObject);
        viewer.setSelectedObject(currentObject);
        // viewer.createAnnotationObject(points);
        editor.setROI(points);
        editor.grabHandle(xx, yy, radius, e.isShiftDown());
    } else if (points != null) {
        // Add point to current ROI, or adjust the position of a nearby point
        ImagePlane plane = points == null || points.isEmpty() ? viewerPlane : points.getImagePlane();
        ROI points2 = addPoint(points, xx, yy, radius, plane);
        if (points2 == points) {
            // If we didn't add a point, try to grab a handle
            if (!editor.grabHandle(xx, yy, radius, e.isShiftDown()))
                return;
            points2 = (PointsROI) editor.setActiveHandlePosition(xx, yy, 0.25, e.isShiftDown());
        } else {
            editor.setROI(points2);
            editor.grabHandle(xx, yy, radius, e.isShiftDown());
        }
        if (points2 != points) {
            currentObject.setROI(points2);
            viewer.getHierarchy().updateObject(currentObject, true);
        // viewer.getHierarchy().fireHierarchyChangedEvent(this, currentObject);
        }
    }
    viewer.repaint();
}

Example 10 with PointsROI

use of qupath.lib.roi.PointsROI in project qupath by qupath.

the class PointsTool method getCurrentPoints.

private PointsROI getCurrentPoints() {
    var viewer = getViewer();
    PathObject currentObject = viewer.getSelectedObject();
    if (currentObject == null)
        return null;
    return (currentObject.getROI() instanceof PointsROI) ? (PointsROI) currentObject.getROI() : null;
}