def __init__(self, parent=None):
gui.OWComponent.__init__(self, widget=parent)
pg.PlotWidget.__init__(self, parent=parent, viewBox=KaplanMeierViewBox(self))
self.setLabels(left='Survival Probability', bottom='Time')
self.highlighted_curve: Optional[int] = None
self.curves: Dict[int, EstimatedFunctionCurve] = {}
self.__selection_items: Dict[int, Optional[pg.PlotDataItem]] = {}
self.view_box: KaplanMeierViewBox = self.getViewBox()
self._mouse_moved_signal = pg.SignalProxy(
self.plotItem.scene().sigMouseMoved, slot=self.mouseMovedEvent, delay=0.15, rateLimit=10
)
self.view_box.selection_changed.connect(self.on_selection_changed)
self.legend = LegendItem()
self.legend.setParentItem(self.getViewBox())
self.legend.restoreAnchor(((1, 0), (1, 0)))
class KaplanMeierPlot(gui.OWComponent, pg.PlotWidget):
HIGHLIGHT_RADIUS = 20 # in pixels
selection_changed = Signal()
selection: Dict[int,
Optional[SelectionInterval]] = Setting({},
schema_only=True)
def __init__(self, parent=None):
gui.OWComponent.__init__(self, widget=parent)
pg.PlotWidget.__init__(self,
parent=parent,
viewBox=KaplanMeierViewBox(self))
self.setLabels(left='Survival Probability', bottom='Time')
self.highlighted_curve: Optional[int] = None
self.curves: Dict[int, EstimatedFunctionCurve] = {}
self.__selection_items: Dict[int, Optional[pg.PlotDataItem]] = {}
self.view_box: KaplanMeierViewBox = self.getViewBox()
self._mouse_moved_signal = pg.SignalProxy(
self.plotItem.scene().sigMouseMoved,
slot=self.mouseMovedEvent,
delay=0.15,
rateLimit=10)
self.view_box.selection_changed.connect(self.on_selection_changed)
self.legend = LegendItem()
self.legend.setParentItem(self.getViewBox())
self.legend.restoreAnchor(((1, 0), (1, 0)))
def mouseMovedEvent(self, ev):
pos = self.view_box.mapSceneToView(ev[0])
mouse_x_pos, mouse_y_pos = pos.x(), pos.y()
x_pixel_size, y_pixel_size = self.view_box.viewPixelSize()
x_pixel = self.HIGHLIGHT_RADIUS * x_pixel_size
y_pixel = self.HIGHLIGHT_RADIUS * y_pixel_size
for curve_id, curve in self.curves.items():
points = np.column_stack((curve.x, curve.y))
line_segments = np.column_stack((points[:-1, :], points[1:, :]))
mask = np.argwhere(line_segments[:, 0] != line_segments[:, 2])
horizontal_segments = np.squeeze(line_segments[mask], axis=1)
mask = np.argwhere(line_segments[:, 1] != line_segments[:, 3])
vertical_segments = np.squeeze(line_segments[mask], axis=1)
mouse_on_horizontal_segment = (
# check X axis
(horizontal_segments[:, 0] < mouse_x_pos)
& (mouse_x_pos < horizontal_segments[:, 2])
# check Y axis
& (horizontal_segments[:, 1] + y_pixel > mouse_y_pos)
& (mouse_y_pos > horizontal_segments[:, 3] - y_pixel))
mouse_on_vertical_segment = (
# check X axis
(vertical_segments[:, 0] - x_pixel < mouse_x_pos)
& (mouse_x_pos < vertical_segments[:, 2] + x_pixel)
# check Y axis
& (vertical_segments[:, 1] > mouse_y_pos)
& (mouse_y_pos > vertical_segments[:, 3]))
if np.any(mouse_on_horizontal_segment) | np.any(
mouse_on_vertical_segment):
self.highlight(curve_id)
return
else:
self.highlight(None)
def highlight(self, curve_id: Optional[int]):
old = self.highlighted_curve
self.highlighted_curve = curve_id
if self.highlighted_curve is None and old is not None:
curve = self.curves[old]
curve.set_highlighted(False)
return
if old != self.highlighted_curve:
curve = self.curves[curve_id]
curve.set_highlighted(True)
def clear_selection(self, curve_id: Optional[int] = None):
""" If curve id is None clear all else clear only highlighted curve """
if curve_id is not None:
self.curves[curve_id].selection.hide()
self.selection = {
key: val
for key, val in self.selection.items() if key != curve_id
}
return
for curve in self.curves.values():
curve.selection.hide()
self.selection = {}
def set_selection(self):
for curve_id in self.selection.keys():
self.set_selection_item(curve_id)
def set_selection_item(self, curve_id: int):
if curve_id not in self.selection:
return
selection = self.selection[curve_id]
curve = self.curves[curve_id]
curve.selection.setData(selection.x, selection.y)
curve.selection.show()
def on_selection_changed(self, selection_interval, is_finished):
self.clear_selection(self.highlighted_curve)
if self.highlighted_curve is None or not selection_interval:
if is_finished:
self.selection_changed.emit()
return
curve = self.curves[self.highlighted_curve]
start_x, end_x = sorted(selection_interval)
if end_x < curve.x[0] or start_x > curve.x[-1]:
return
start_x = max(curve.x[0], start_x)
end_x = min(curve.x[-1], end_x)
left, right = np.argmax(curve.x > start_x), np.argmax(curve.x > end_x)
right = right if right else -1
left_selection = (start_x, curve.y[left])
right_selection = (end_x, curve.y[right])
middle_selection = np.column_stack((curve.x, curve.y))[left:right]
selected = np.vstack(
(left_selection, middle_selection, right_selection))
self.selection[self.highlighted_curve] = SelectionInterval(
selected[:, 0], selected[:, 1])
self.set_selection_item(self.highlighted_curve)
if is_finished:
self.selection_changed.emit()
def update_plot(self,
confidence_interval=False,
median=False,
censored=False):
self.clear()
self.legend.clear()
if not self.curves:
return
if median:
self.addItem(HORIZONTAL_LINE)
for curve in self.curves.values():
self.addItem(curve.estimated_fun)
self.addItem(curve.selection)
if confidence_interval:
self.addItem(curve.lower_conf_limit)
self.addItem(curve.upper_conf_limit)
self.addItem(curve.confidence_interval)
if median:
self.addItem(curve.median_vertical)
if censored:
self.addItem(curve.censored_data)
self.set_selection()
self.update_legend()
def update_legend(self):
self.legend.hide()
for curve in [
curve for curve in self.curves.values()
if curve.color and curve.label
]:
c = QColor(*curve.color)
dot = pg.ScatterPlotItem(pen=c, brush=c, size=10, symbol='s')
self.legend.addItem(dot, escape(curve.label))
if bool(len(self.legend.items)):
self.legend.show()
def select_button_clicked(self):
self.view_box.mode = SELECT
self.view_box.setMouseMode(self.view_box.RectMode)
def pan_button_clicked(self):
self.view_box.mode = PANNING
self.view_box.setMouseMode(self.view_box.PanMode)
def zoom_button_clicked(self):
self.view_box.mode = ZOOMING
self.view_box.setMouseMode(self.view_box.RectMode)
def reset_button_clicked(self):
self.view_box.autoRange()
self.view_box.enableAutoRange()
def _create_legend(self, anchor, brush=QBrush(QColor(232, 232, 232, 200))):
# by default the legend transparency was to high for colorful maps
legend = LegendItem(brush=brush)
legend.setParentItem(self.plot_widget.getViewBox())
legend.restoreAnchor(anchor)
return legend
def _create_legend(self, anchor):
legend = LegendItem()
legend.setParentItem(self.plot_widget.getViewBox())
legend.restoreAnchor(anchor)
return legend
def _create_legend(self):
legend = LegendItem()
legend.setParentItem(self.getViewBox())
legend.anchor((1, 0), (1, 0), offset=(-3, 1))
legend.hide()
return legend