# -*- coding: utf-8 -*- """ ROI.py - Interactive graphics items for GraphicsView (ROI widgets) Copyright 2010 Luke Campagnola Distributed under MIT/X11 license. See license.txt for more infomation. Implements a series of graphics items which display movable/scalable/rotatable shapes for use as region-of-interest markers. ROI class automatically handles extraction of array data from ImageItems. The ROI class is meant to serve as the base for more specific types; see several examples of how to build an ROI at the bottom of the file. """ from pyqtgraph.Qt import QtCore, QtGui #if not hasattr(QtCore, 'Signal'): #QtCore.Signal = QtCore.pyqtSignal import numpy as np from numpy.linalg import norm import scipy.ndimage as ndimage from pyqtgraph.Point import * from pyqtgraph.SRTTransform import SRTTransform from math import cos, sin import pyqtgraph.functions as fn from .GraphicsObject import GraphicsObject from .UIGraphicsItem import UIGraphicsItem __all__ = [ 'ROI', 'TestROI', 'RectROI', 'EllipseROI', 'CircleROI', 'PolygonROI', 'LineROI', 'MultiLineROI', 'MultiRectROI', 'LineSegmentROI', 'PolyLineROI', 'SpiralROI', ] def rectStr(r): return "[%f, %f] + [%f, %f]" % (r.x(), r.y(), r.width(), r.height()) class ROI(GraphicsObject): """Generic region-of-interest widget. Can be used for implementing many types of selection box with rotate/translate/scale handles. """ sigRegionChangeFinished = QtCore.Signal(object) sigRegionChangeStarted = QtCore.Signal(object) sigRegionChanged = QtCore.Signal(object) sigHoverEvent = QtCore.Signal(object) sigClicked = QtCore.Signal(object, object) sigRemoveRequested = QtCore.Signal(object) def __init__(self, pos, size=Point(1, 1), angle=0.0, invertible=False, maxBounds=None, snapSize=1.0, scaleSnap=False, translateSnap=False, rotateSnap=False, parent=None, pen=None, movable=True, removable=False): #QObjectWorkaround.__init__(self) GraphicsObject.__init__(self, parent) self.setAcceptedMouseButtons(QtCore.Qt.NoButton) pos = Point(pos) size = Point(size) self.aspectLocked = False self.translatable = movable self.rotateAllowed = True self.removable = removable self.menu = None self.freeHandleMoved = False ## keep track of whether free handles have moved since last change signal was emitted. self.mouseHovering = False if pen is None: pen = (255, 255, 255) self.setPen(pen) self.handlePen = QtGui.QPen(QtGui.QColor(150, 255, 255)) self.handles = [] self.state = {'pos': Point(0,0), 'size': Point(1,1), 'angle': 0} ## angle is in degrees for ease of Qt integration self.lastState = None self.setPos(pos) self.setAngle(angle) self.setSize(size) self.setZValue(10) self.isMoving = False self.handleSize = 5 self.invertible = invertible self.maxBounds = maxBounds self.snapSize = snapSize self.translateSnap = translateSnap self.rotateSnap = rotateSnap self.scaleSnap = scaleSnap #self.setFlag(self.ItemIsSelectable, True) def getState(self): return self.stateCopy() def stateCopy(self): sc = {} sc['pos'] = Point(self.state['pos']) sc['size'] = Point(self.state['size']) sc['angle'] = self.state['angle'] return sc def saveState(self): """Return the state of the widget in a format suitable for storing to disk. (Points are converted to tuple)""" state = {} state['pos'] = tuple(self.state['pos']) state['size'] = tuple(self.state['size']) state['angle'] = self.state['angle'] return state def setState(self, state, update=True): self.setPos(state['pos'], update=False) self.setSize(state['size'], update=False) self.setAngle(state['angle'], update=update) def setZValue(self, z): QtGui.QGraphicsItem.setZValue(self, z) for h in self.handles: h['item'].setZValue(z+1) def parentBounds(self): return self.mapToParent(self.boundingRect()).boundingRect() def setPen(self, pen): self.pen = fn.mkPen(pen) self.currentPen = self.pen self.update() def size(self): return self.getState()['size'] def pos(self): return self.getState()['pos'] def angle(self): return self.getState()['angle'] def setPos(self, pos, update=True, finish=True): """Set the position of the ROI (in the parent's coordinate system). By default, this will cause both sigRegionChanged and sigRegionChangeFinished to be emitted. If finish is False, then sigRegionChangeFinished will not be emitted. You can then use stateChangeFinished() to cause the signal to be emitted after a series of state changes. If update is False, the state change will be remembered but not processed and no signals will be emitted. You can then use stateChanged() to complete the state change. This allows multiple change functions to be called sequentially while minimizing processing overhead and repeated signals. Setting update=False also forces finish=False. """ pos = Point(pos) self.state['pos'] = pos QtGui.QGraphicsItem.setPos(self, pos) if update: self.stateChanged(finish=finish) def setSize(self, size, update=True, finish=True): """Set the size of the ROI. May be specified as a QPoint, Point, or list of two values. See setPos() for an explanation of the update and finish arguments. """ size = Point(size) self.prepareGeometryChange() self.state['size'] = size if update: self.stateChanged(finish=finish) def setAngle(self, angle, update=True, finish=True): """Set the angle of rotation (in degrees) for this ROI. See setPos() for an explanation of the update and finish arguments. """ self.state['angle'] = angle tr = QtGui.QTransform() #tr.rotate(-angle * 180 / np.pi) tr.rotate(angle) self.setTransform(tr) if update: self.stateChanged(finish=finish) def scale(self, s, center=[0,0], update=True, finish=True): """ Resize the ROI by scaling relative to *center*. See setPos() for an explanation of the *update* and *finish* arguments. """ c = self.mapToParent(Point(center) * self.state['size']) self.prepareGeometryChange() newSize = self.state['size'] * s c1 = self.mapToParent(Point(center) * newSize) newPos = self.state['pos'] + c - c1 self.setSize(newSize, update=False) self.setPos(newPos, update=update, finish=finish) def translate(self, *args, **kargs): """ Move the ROI to a new position. Accepts either (x, y, snap) or ([x,y], snap) as arguments If the ROI is bounded and the move would exceed boundaries, then the ROI is moved to the nearest acceptable position instead. snap can be: None (default): use self.translateSnap and self.snapSize to determine whether/how to snap False: do not snap Point(w,h) snap to rectangular grid with spacing (w,h) True: snap using self.snapSize (and ignoring self.translateSnap) Also accepts *update* and *finish* arguments (see setPos() for a description of these). """ if len(args) == 1: pt = args[0] else: pt = args newState = self.stateCopy() newState['pos'] = newState['pos'] + pt ## snap position #snap = kargs.get('snap', None) #if (snap is not False) and not (snap is None and self.translateSnap is False): snap = kargs.get('snap', None) if snap is None: snap = self.translateSnap if snap is not False: newState['pos'] = self.getSnapPosition(newState['pos'], snap=snap) #d = ev.scenePos() - self.mapToScene(self.pressPos) if self.maxBounds is not None: r = self.stateRect(newState) #r0 = self.sceneTransform().mapRect(self.boundingRect()) d = Point(0,0) if self.maxBounds.left() > r.left(): d[0] = self.maxBounds.left() - r.left() elif self.maxBounds.right() < r.right(): d[0] = self.maxBounds.right() - r.right() if self.maxBounds.top() > r.top(): d[1] = self.maxBounds.top() - r.top() elif self.maxBounds.bottom() < r.bottom(): d[1] = self.maxBounds.bottom() - r.bottom() newState['pos'] += d #self.state['pos'] = newState['pos'] update = kargs.get('update', True) finish = kargs.get('finish', True) self.setPos(newState['pos'], update=update, finish=finish) #if 'update' not in kargs or kargs['update'] is True: #self.stateChanged() def rotate(self, angle, update=True, finish=True): self.setAngle(self.angle()+angle, update=update, finish=finish) def handleMoveStarted(self): self.preMoveState = self.getState() def addTranslateHandle(self, pos, axes=None, item=None, name=None, index=None): pos = Point(pos) return self.addHandle({'name': name, 'type': 't', 'pos': pos, 'item': item}, index=index) def addFreeHandle(self, pos=None, axes=None, item=None, name=None, index=None): if pos is not None: pos = Point(pos) return self.addHandle({'name': name, 'type': 'f', 'pos': pos, 'item': item}, index=index) def addScaleHandle(self, pos, center, axes=None, item=None, name=None, lockAspect=False, index=None): pos = Point(pos) center = Point(center) info = {'name': name, 'type': 's', 'center': center, 'pos': pos, 'item': item, 'lockAspect': lockAspect} if pos.x() == center.x(): info['xoff'] = True if pos.y() == center.y(): info['yoff'] = True return self.addHandle(info, index=index) def addRotateHandle(self, pos, center, item=None, name=None, index=None): pos = Point(pos) center = Point(center) return self.addHandle({'name': name, 'type': 'r', 'center': center, 'pos': pos, 'item': item}, index=index) def addScaleRotateHandle(self, pos, center, item=None, name=None, index=None): pos = Point(pos) center = Point(center) if pos[0] != center[0] and pos[1] != center[1]: raise Exception("Scale/rotate handles must have either the same x or y coordinate as their center point.") return self.addHandle({'name': name, 'type': 'sr', 'center': center, 'pos': pos, 'item': item}, index=index) def addRotateFreeHandle(self, pos, center, axes=None, item=None, name=None, index=None): pos = Point(pos) center = Point(center) return self.addHandle({'name': name, 'type': 'rf', 'center': center, 'pos': pos, 'item': item}, index=index) def addHandle(self, info, index=None): ## If a Handle was not supplied, create it now if 'item' not in info or info['item'] is None: h = Handle(self.handleSize, typ=info['type'], pen=self.handlePen, parent=self) h.setPos(info['pos'] * self.state['size']) info['item'] = h else: h = info['item'] if info['pos'] is None: info['pos'] = h.pos() ## connect the handle to this ROI #iid = len(self.handles) h.connectROI(self) if index is None: self.handles.append(info) else: self.handles.insert(index, info) h.setZValue(self.zValue()+1) self.stateChanged() return h def indexOfHandle(self, handle): if isinstance(handle, Handle): index = [i for i, info in enumerate(self.handles) if info['item'] is handle] if len(index) == 0: raise Exception("Cannot remove handle; it is not attached to this ROI") return index[0] else: return handle def removeHandle(self, handle): """Remove a handle from this ROI. Argument may be either a Handle instance or the integer index of the handle.""" index = self.indexOfHandle(handle) handle = self.handles[index]['item'] self.handles.pop(index) handle.disconnectROI(self) if len(handle.rois) == 0: self.scene().removeItem(handle) self.stateChanged() def replaceHandle(self, oldHandle, newHandle): """Replace one handle in the ROI for another. This is useful when connecting multiple ROIs together. *oldHandle* may be a Handle instance or the index of a handle.""" #print "=========================" #print "replace", oldHandle, newHandle #print self #print self.handles #print "-----------------" index = self.indexOfHandle(oldHandle) info = self.handles[index] self.removeHandle(index) info['item'] = newHandle info['pos'] = newHandle.pos() self.addHandle(info, index=index) #print self.handles def checkRemoveHandle(self, handle): ## This is used when displaying a Handle's context menu to determine ## whether removing is allowed. ## Subclasses may wish to override this to disable the menu entry. ## Note: by default, handles are not user-removable even if this method returns True. return True def getLocalHandlePositions(self, index=None): """Returns the position of a handle in ROI coordinates""" if index == None: positions = [] for h in self.handles: positions.append((h['name'], h['pos'])) return positions else: return (self.handles[index]['name'], self.handles[index]['pos']) def getSceneHandlePositions(self, index=None): if index == None: positions = [] for h in self.handles: positions.append((h['name'], h['item'].scenePos())) return positions else: return (self.handles[index]['name'], self.handles[index]['item'].scenePos()) def getHandles(self): return [h['item'] for h in self.handles] def mapSceneToParent(self, pt): return self.mapToParent(self.mapFromScene(pt)) def setSelected(self, s): QtGui.QGraphicsItem.setSelected(self, s) #print "select", self, s if s: for h in self.handles: h['item'].show() else: for h in self.handles: h['item'].hide() def hoverEvent(self, ev): hover = False if not ev.isExit(): if self.translatable and ev.acceptDrags(QtCore.Qt.LeftButton): hover=True for btn in [QtCore.Qt.LeftButton, QtCore.Qt.RightButton, QtCore.Qt.MidButton]: if int(self.acceptedMouseButtons() & btn) > 0 and ev.acceptClicks(btn): hover=True if self.contextMenuEnabled(): ev.acceptClicks(QtCore.Qt.RightButton) if hover: self.setMouseHover(True) self.sigHoverEvent.emit(self) ev.acceptClicks(QtCore.Qt.LeftButton) ## If the ROI is hilighted, we should accept all clicks to avoid confusion. ev.acceptClicks(QtCore.Qt.RightButton) ev.acceptClicks(QtCore.Qt.MidButton) else: self.setMouseHover(False) def setMouseHover(self, hover): ## Inform the ROI that the mouse is(not) hovering over it if self.mouseHovering == hover: return self.mouseHovering = hover if hover: self.currentPen = fn.mkPen(255, 255, 0) else: self.currentPen = self.pen self.update() def contextMenuEnabled(self): return self.removable def raiseContextMenu(self, ev): if not self.contextMenuEnabled(): return menu = self.getMenu() menu = self.scene().addParentContextMenus(self, menu, ev) pos = ev.screenPos() menu.popup(QtCore.QPoint(pos.x(), pos.y())) def getMenu(self): if self.menu is None: self.menu = QtGui.QMenu() self.menu.setTitle("ROI") remAct = QtGui.QAction("Remove ROI", self.menu) remAct.triggered.connect(self.removeClicked) self.menu.addAction(remAct) self.menu.remAct = remAct return self.menu def removeClicked(self): ## Send remove event only after we have exited the menu event handler self.removeTimer = QtCore.QTimer() self.removeTimer.timeout.connect(lambda: self.sigRemoveRequested.emit(self)) self.removeTimer.start(0) def mouseDragEvent(self, ev): if ev.isStart(): #p = ev.pos() #if not self.isMoving and not self.shape().contains(p): #ev.ignore() #return if ev.button() == QtCore.Qt.LeftButton: self.setSelected(True) if self.translatable: self.isMoving = True self.preMoveState = self.getState() self.cursorOffset = self.pos() - self.mapToParent(ev.buttonDownPos()) self.sigRegionChangeStarted.emit(self) ev.accept() else: ev.ignore() elif ev.isFinish(): if self.translatable: if self.isMoving: self.stateChangeFinished() self.isMoving = False return if self.translatable and self.isMoving and ev.buttons() == QtCore.Qt.LeftButton: snap = True if (ev.modifiers() & QtCore.Qt.ControlModifier) else None newPos = self.mapToParent(ev.pos()) + self.cursorOffset self.translate(newPos - self.pos(), snap=snap, finish=False) def mouseClickEvent(self, ev): if ev.button() == QtCore.Qt.RightButton and self.isMoving: ev.accept() self.cancelMove() if ev.button() == QtCore.Qt.RightButton and self.contextMenuEnabled(): self.raiseContextMenu(ev) ev.accept() elif int(ev.button() & self.acceptedMouseButtons()) > 0: ev.accept() self.sigClicked.emit(self, ev) else: ev.ignore() def cancelMove(self): self.isMoving = False self.setState(self.preMoveState) #def pointDragEvent(self, pt, ev): ### just for handling drag start/stop. ### drag moves are handled through movePoint() #if ev.isStart(): #self.isMoving = True #self.preMoveState = self.getState() #self.sigRegionChangeStarted.emit(self) #elif ev.isFinish(): #self.isMoving = False #self.sigRegionChangeFinished.emit(self) #return #def pointPressEvent(self, pt, ev): ##print "press" #self.isMoving = True #self.preMoveState = self.getState() ##self.emit(QtCore.SIGNAL('regionChangeStarted'), self) #self.sigRegionChangeStarted.emit(self) ##self.pressPos = self.mapFromScene(ev.scenePos()) ##self.pressHandlePos = self.handles[pt]['item'].pos() #def pointReleaseEvent(self, pt, ev): ##print "release" #self.isMoving = False ##self.emit(QtCore.SIGNAL('regionChangeFinished'), self) #self.sigRegionChangeFinished.emit(self) #def pointMoveEvent(self, pt, ev): #self.movePoint(pt, ev.scenePos(), ev.modifiers()) def checkPointMove(self, handle, pos, modifiers): """When handles move, they must ask the ROI if the move is acceptable. By default, this always returns True. Subclasses may wish override. """ return True def movePoint(self, handle, pos, modifiers=QtCore.Qt.KeyboardModifier(), finish=True, coords='parent'): ## called by Handles when they are moved. ## pos is the new position of the handle in scene coords, as requested by the handle. newState = self.stateCopy() index = self.indexOfHandle(handle) h = self.handles[index] p0 = self.mapToParent(h['pos'] * self.state['size']) p1 = Point(pos) if coords == 'parent': pass elif coords == 'scene': p1 = self.mapSceneToParent(p1) else: raise Exception("New point location must be given in either 'parent' or 'scene' coordinates.") ## transform p0 and p1 into parent's coordinates (same as scene coords if there is no parent). I forget why. #p0 = self.mapSceneToParent(p0) #p1 = self.mapSceneToParent(p1) ## Handles with a 'center' need to know their local position relative to the center point (lp0, lp1) if 'center' in h: c = h['center'] cs = c * self.state['size'] lp0 = self.mapFromParent(p0) - cs lp1 = self.mapFromParent(p1) - cs if h['type'] == 't': snap = True if (modifiers & QtCore.Qt.ControlModifier) else None #if self.translateSnap or (): #snap = Point(self.snapSize, self.snapSize) self.translate(p1-p0, snap=snap, update=False) elif h['type'] == 'f': newPos = self.mapFromParent(p1) h['item'].setPos(newPos) h['pos'] = newPos self.freeHandleMoved = True #self.sigRegionChanged.emit(self) ## should be taken care of by call to stateChanged() elif h['type'] == 's': ## If a handle and its center have the same x or y value, we can't scale across that axis. if h['center'][0] == h['pos'][0]: lp1[0] = 0 if h['center'][1] == h['pos'][1]: lp1[1] = 0 ## snap if self.scaleSnap or (modifiers & QtCore.Qt.ControlModifier): lp1[0] = round(lp1[0] / self.snapSize) * self.snapSize lp1[1] = round(lp1[1] / self.snapSize) * self.snapSize ## preserve aspect ratio (this can override snapping) if h['lockAspect'] or (modifiers & QtCore.Qt.AltModifier): #arv = Point(self.preMoveState['size']) - lp1 = lp1.proj(lp0) ## determine scale factors and new size of ROI hs = h['pos'] - c if hs[0] == 0: hs[0] = 1 if hs[1] == 0: hs[1] = 1 newSize = lp1 / hs ## Perform some corrections and limit checks if newSize[0] == 0: newSize[0] = newState['size'][0] if newSize[1] == 0: newSize[1] = newState['size'][1] if not self.invertible: if newSize[0] < 0: newSize[0] = newState['size'][0] if newSize[1] < 0: newSize[1] = newState['size'][1] if self.aspectLocked: newSize[0] = newSize[1] ## Move ROI so the center point occupies the same scene location after the scale s0 = c * self.state['size'] s1 = c * newSize cc = self.mapToParent(s0 - s1) - self.mapToParent(Point(0, 0)) ## update state, do more boundary checks newState['size'] = newSize newState['pos'] = newState['pos'] + cc if self.maxBounds is not None: r = self.stateRect(newState) if not self.maxBounds.contains(r): return self.setPos(newState['pos'], update=False) self.setSize(newState['size'], update=False) elif h['type'] in ['r', 'rf']: if h['type'] == 'rf': self.freeHandleMoved = True if not self.rotateAllowed: return ## If the handle is directly over its center point, we can't compute an angle. if lp1.length() == 0 or lp0.length() == 0: return ## determine new rotation angle, constrained if necessary ang = newState['angle'] - lp0.angle(lp1) if ang is None: ## this should never happen.. return if self.rotateSnap or (modifiers & QtCore.Qt.ControlModifier): ang = round(ang / 15.) * 15. ## 180/12 = 15 ## create rotation transform tr = QtGui.QTransform() tr.rotate(ang) ## move ROI so that center point remains stationary after rotate cc = self.mapToParent(cs) - (tr.map(cs) + self.state['pos']) newState['angle'] = ang newState['pos'] = newState['pos'] + cc ## check boundaries, update if self.maxBounds is not None: r = self.stateRect(newState) if not self.maxBounds.contains(r): return #self.setTransform(tr) self.setPos(newState['pos'], update=False) self.setAngle(ang, update=False) #self.state = newState ## If this is a free-rotate handle, its distance from the center may change. if h['type'] == 'rf': h['item'].setPos(self.mapFromScene(p1)) ## changes ROI coordinates of handle elif h['type'] == 'sr': if h['center'][0] == h['pos'][0]: scaleAxis = 1 else: scaleAxis = 0 if lp1.length() == 0 or lp0.length() == 0: return ang = newState['angle'] - lp0.angle(lp1) if ang is None: return if self.rotateSnap or (modifiers & QtCore.Qt.ControlModifier): #ang = round(ang / (np.pi/12.)) * (np.pi/12.) ang = round(ang / 15.) * 15. hs = abs(h['pos'][scaleAxis] - c[scaleAxis]) newState['size'][scaleAxis] = lp1.length() / hs #if self.scaleSnap or (modifiers & QtCore.Qt.ControlModifier): if self.scaleSnap: ## use CTRL only for angular snap here. newState['size'][scaleAxis] = round(newState['size'][scaleAxis] / self.snapSize) * self.snapSize if newState['size'][scaleAxis] == 0: newState['size'][scaleAxis] = 1 c1 = c * newState['size'] tr = QtGui.QTransform() tr.rotate(ang) cc = self.mapToParent(cs) - (tr.map(c1) + self.state['pos']) newState['angle'] = ang newState['pos'] = newState['pos'] + cc if self.maxBounds is not None: r = self.stateRect(newState) if not self.maxBounds.contains(r): return #self.setTransform(tr) #self.setPos(newState['pos'], update=False) #self.prepareGeometryChange() #self.state = newState self.setState(newState, update=False) self.stateChanged(finish=finish) def stateChanged(self, finish=True): """Process changes to the state of the ROI. If there are any changes, then the positions of handles are updated accordingly and sigRegionChanged is emitted. If finish is True, then sigRegionChangeFinished will also be emitted.""" changed = False if self.lastState is None: changed = True else: for k in list(self.state.keys()): if self.state[k] != self.lastState[k]: changed = True self.prepareGeometryChange() if changed: ## Move all handles to match the current configuration of the ROI for h in self.handles: if h['item'] in self.childItems(): p = h['pos'] h['item'].setPos(h['pos'] * self.state['size']) #else: # trans = self.state['pos']-self.lastState['pos'] # h['item'].setPos(h['pos'] + h['item'].parentItem().mapFromParent(trans)) self.update() self.sigRegionChanged.emit(self) elif self.freeHandleMoved: self.sigRegionChanged.emit(self) self.freeHandleMoved = False self.lastState = self.stateCopy() if finish: self.stateChangeFinished() def stateChangeFinished(self): self.sigRegionChangeFinished.emit(self) def stateRect(self, state): r = QtCore.QRectF(0, 0, state['size'][0], state['size'][1]) tr = QtGui.QTransform() #tr.rotate(-state['angle'] * 180 / np.pi) tr.rotate(-state['angle']) r = tr.mapRect(r) return r.adjusted(state['pos'][0], state['pos'][1], state['pos'][0], state['pos'][1]) def getSnapPosition(self, pos, snap=None): ## Given that pos has been requested, return the nearest snap-to position ## optionally, snap may be passed in to specify a rectangular snap grid. ## override this function for more interesting snap functionality.. if snap is None or snap is True: if self.snapSize is None: return pos snap = Point(self.snapSize, self.snapSize) return Point( round(pos[0] / snap[0]) * snap[0], round(pos[1] / snap[1]) * snap[1] ) def boundingRect(self): return QtCore.QRectF(0, 0, self.state['size'][0], self.state['size'][1]).normalized() def paint(self, p, opt, widget): p.save() r = self.boundingRect() p.setRenderHint(QtGui.QPainter.Antialiasing) p.setPen(self.currentPen) p.translate(r.left(), r.top()) p.scale(r.width(), r.height()) p.drawRect(0, 0, 1, 1) p.restore() def getArraySlice(self, data, img, axes=(0,1), returnSlice=True): """Return a tuple of slice objects that can be used to slice the region from data covered by this ROI. Also returns the transform which maps the ROI into data coordinates. If returnSlice is set to False, the function returns a pair of tuples with the values that would have been used to generate the slice objects. ((ax0Start, ax0Stop), (ax1Start, ax1Stop))""" #print "getArraySlice" ## Determine shape of array along ROI axes dShape = (data.shape[axes[0]], data.shape[axes[1]]) #print " dshape", dShape ## Determine transform that maps ROI bounding box to image coordinates tr = self.sceneTransform() * fn.invertQTransform(img.sceneTransform()) ## Modify transform to scale from image coords to data coords #m = QtGui.QTransform() tr.scale(float(dShape[0]) / img.width(), float(dShape[1]) / img.height()) #tr = tr * m ## Transform ROI bounds into data bounds dataBounds = tr.mapRect(self.boundingRect()) #print " boundingRect:", self.boundingRect() #print " dataBounds:", dataBounds ## Intersect transformed ROI bounds with data bounds intBounds = dataBounds.intersect(QtCore.QRectF(0, 0, dShape[0], dShape[1])) #print " intBounds:", intBounds ## Determine index values to use when referencing the array. bounds = ( (int(min(intBounds.left(), intBounds.right())), int(1+max(intBounds.left(), intBounds.right()))), (int(min(intBounds.bottom(), intBounds.top())), int(1+max(intBounds.bottom(), intBounds.top()))) ) #print " bounds:", bounds if returnSlice: ## Create slice objects sl = [slice(None)] * data.ndim sl[axes[0]] = slice(*bounds[0]) sl[axes[1]] = slice(*bounds[1]) return tuple(sl), tr else: return bounds, tr def getArrayRegion(self, data, img, axes=(0,1), returnMappedCoords=False, **kwds): """Use the position and orientation of this ROI relative to an imageItem to pull a slice from an array. This method uses :func:`affineSlice ` to generate the slice from *data* and uses :func:`getAffineSliceParams ` to determine the parameters to pass to :func:`affineSlice `. If *returnMappedCoords* is True, then the method returns a tuple (result, coords) such that coords is the set of coordinates used to interpolate values from the original data, mapped into the parent coordinate system of the image. This is useful, when slicing data from images that have been transformed, for determining the location of each value in the sliced data. All extra keyword arguments are passed to :func:`affineSlice `. """ shape, vectors, origin = self.getAffineSliceParams(data, img, axes) if not returnMappedCoords: return fn.affineSlice(data, shape=shape, vectors=vectors, origin=origin, axes=axes, **kwds) else: kwds['returnCoords'] = True result, coords = fn.affineSlice(data, shape=shape, vectors=vectors, origin=origin, axes=axes, **kwds) #tr = fn.transformToArray(img.transform())[:2] ## remove perspective transform values ### separate translation from scale/rotate #translate = tr[:,2] #tr = tr[:,:2] #tr = tr.reshape((2,2) + (1,)*(coords.ndim-1)) #coords = coords[np.newaxis, ...] ### map coordinates and return #mapped = (tr*coords).sum(axis=0) ## apply scale/rotate #mapped += translate.reshape((2,1,1)) mapped = fn.transformCoordinates(img.transform(), coords) return result, mapped ### transpose data so x and y are the first 2 axes #trAx = range(0, data.ndim) #trAx.remove(axes[0]) #trAx.remove(axes[1]) #tr1 = tuple(axes) + tuple(trAx) #arr = data.transpose(tr1) ### Determine the minimal area of the data we will need #(dataBounds, roiDataTransform) = self.getArraySlice(data, img, returnSlice=False, axes=axes) ### Pad data boundaries by 1px if possible #dataBounds = ( #(max(dataBounds[0][0]-1, 0), min(dataBounds[0][1]+1, arr.shape[0])), #(max(dataBounds[1][0]-1, 0), min(dataBounds[1][1]+1, arr.shape[1])) #) ### Extract minimal data from array #arr1 = arr[dataBounds[0][0]:dataBounds[0][1], dataBounds[1][0]:dataBounds[1][1]] ### Update roiDataTransform to reflect this extraction #roiDataTransform *= QtGui.QTransform().translate(-dataBounds[0][0], -dataBounds[1][0]) #### (roiDataTransform now maps from ROI coords to extracted data coords) ### Rotate array #if abs(self.state['angle']) > 1e-5: #arr2 = ndimage.rotate(arr1, self.state['angle'] * 180 / np.pi, order=1) ### update data transforms to reflect this rotation #rot = QtGui.QTransform().rotate(self.state['angle'] * 180 / np.pi) #roiDataTransform *= rot ### The rotation also causes a shift which must be accounted for: #dataBound = QtCore.QRectF(0, 0, arr1.shape[0], arr1.shape[1]) #rotBound = rot.mapRect(dataBound) #roiDataTransform *= QtGui.QTransform().translate(-rotBound.left(), -rotBound.top()) #else: #arr2 = arr1 #### Shift off partial pixels ## 1. map ROI into current data space #roiBounds = roiDataTransform.mapRect(self.boundingRect()) ## 2. Determine amount to shift data #shift = (int(roiBounds.left()) - roiBounds.left(), int(roiBounds.bottom()) - roiBounds.bottom()) #if abs(shift[0]) > 1e-6 or abs(shift[1]) > 1e-6: ## 3. pad array with 0s before shifting #arr2a = np.zeros((arr2.shape[0]+2, arr2.shape[1]+2) + arr2.shape[2:], dtype=arr2.dtype) #arr2a[1:-1, 1:-1] = arr2 ## 4. shift array and udpate transforms #arr3 = ndimage.shift(arr2a, shift + (0,)*(arr2.ndim-2), order=1) #roiDataTransform *= QtGui.QTransform().translate(1+shift[0], 1+shift[1]) #else: #arr3 = arr2 #### Extract needed region from rotated/shifted array ## 1. map ROI into current data space (round these values off--they should be exact integer values at this point) #roiBounds = roiDataTransform.mapRect(self.boundingRect()) ##print self, roiBounds.height() ##import traceback ##traceback.print_stack() #roiBounds = QtCore.QRect(round(roiBounds.left()), round(roiBounds.top()), round(roiBounds.width()), round(roiBounds.height())) ##2. intersect ROI with data bounds #dataBounds = roiBounds.intersect(QtCore.QRect(0, 0, arr3.shape[0], arr3.shape[1])) ##3. Extract data from array #db = dataBounds #bounds = ( #(db.left(), db.right()+1), #(db.top(), db.bottom()+1) #) #arr4 = arr3[bounds[0][0]:bounds[0][1], bounds[1][0]:bounds[1][1]] #### Create zero array in size of ROI #arr5 = np.zeros((roiBounds.width(), roiBounds.height()) + arr4.shape[2:], dtype=arr4.dtype) ### Fill array with ROI data #orig = Point(dataBounds.topLeft() - roiBounds.topLeft()) #subArr = arr5[orig[0]:orig[0]+arr4.shape[0], orig[1]:orig[1]+arr4.shape[1]] #subArr[:] = arr4[:subArr.shape[0], :subArr.shape[1]] ### figure out the reverse transpose order #tr2 = np.array(tr1) #for i in range(0, len(tr2)): #tr2[tr1[i]] = i #tr2 = tuple(tr2) ### Untranspose array before returning #return arr5.transpose(tr2) def getAffineSliceParams(self, data, img, axes=(0,1)): """ Returns the parameters needed to use :func:`affineSlice ` to extract a subset of *data* using this ROI and *img* to specify the subset. See :func:`getArrayRegion ` for more information. """ if self.scene() is not img.scene(): raise Exception("ROI and target item must be members of the same scene.") shape = self.state['size'] origin = self.mapToItem(img, QtCore.QPointF(0, 0)) ## vx and vy point in the directions of the slice axes, but must be scaled properly vx = self.mapToItem(img, QtCore.QPointF(1, 0)) - origin vy = self.mapToItem(img, QtCore.QPointF(0, 1)) - origin lvx = np.sqrt(vx.x()**2 + vx.y()**2) lvy = np.sqrt(vy.x()**2 + vy.y()**2) pxLen = img.width() / float(data.shape[axes[0]]) #img.width is number of pixels or width of item? #need pxWidth and pxHeight instead of pxLen ? sx = pxLen / lvx sy = pxLen / lvy vectors = ((vx.x()*sx, vx.y()*sx), (vy.x()*sy, vy.y()*sy)) shape = self.state['size'] shape = [abs(shape[0]/sx), abs(shape[1]/sy)] origin = (origin.x(), origin.y()) return shape, vectors, origin def getGlobalTransform(self, relativeTo=None): """Return global transformation (rotation angle+translation) required to move from relative state to current state. If relative state isn't specified, then we use the state of the ROI when mouse is pressed.""" if relativeTo == None: relativeTo = self.preMoveState st = self.getState() ## this is only allowed because we will be comparing the two relativeTo['scale'] = relativeTo['size'] st['scale'] = st['size'] t1 = SRTTransform(relativeTo) t2 = SRTTransform(st) return t2/t1 #st = self.getState() ### rotation #ang = (st['angle']-relativeTo['angle']) * 180. / 3.14159265358 #rot = QtGui.QTransform() #rot.rotate(-ang) ### We need to come up with a universal transformation--one that can be applied to other objects ### such that all maintain alignment. ### More specifically, we need to turn the ROI's position and angle into ### a rotation _around the origin_ and a translation. #p0 = Point(relativeTo['pos']) ### base position, rotated #p1 = rot.map(p0) #trans = Point(st['pos']) - p1 #return trans, ang def applyGlobalTransform(self, tr): st = self.getState() st['scale'] = st['size'] st = SRTTransform(st) st = (st * tr).saveState() st['size'] = st['scale'] self.setState(st) class Handle(UIGraphicsItem): types = { ## defines number of sides, start angle for each handle type 't': (4, np.pi/4), 'f': (4, np.pi/4), 's': (4, 0), 'r': (12, 0), 'sr': (12, 0), 'rf': (12, 0), } sigClicked = QtCore.Signal(object, object) # self, event sigRemoveRequested = QtCore.Signal(object) # self def __init__(self, radius, typ=None, pen=(200, 200, 220), parent=None, deletable=False): #print " create item with parent", parent #self.bounds = QtCore.QRectF(-1e-10, -1e-10, 2e-10, 2e-10) #self.setFlags(self.ItemIgnoresTransformations | self.ItemSendsScenePositionChanges) self.rois = [] self.radius = radius self.typ = typ self.pen = fn.mkPen(pen) self.currentPen = self.pen self.pen.setWidth(0) self.pen.setCosmetic(True) self.isMoving = False self.sides, self.startAng = self.types[typ] self.buildPath() self._shape = None self.menu = self.buildMenu() UIGraphicsItem.__init__(self, parent=parent) self.setAcceptedMouseButtons(QtCore.Qt.NoButton) self.deletable = deletable if deletable: self.setAcceptedMouseButtons(QtCore.Qt.RightButton) #self.updateShape() self.setZValue(11) def connectROI(self, roi): ### roi is the "parent" roi, i is the index of the handle in roi.handles self.rois.append(roi) def disconnectROI(self, roi): self.rois.remove(roi) #for i, r in enumerate(self.roi): #if r[0] == roi: #self.roi.pop(i) #def close(self): #for r in self.roi: #r.removeHandle(self) def setDeletable(self, b): self.deletable = b if b: self.setAcceptedMouseButtons(self.acceptedMouseButtons() | QtCore.Qt.RightButton) else: self.setAcceptedMouseButtons(self.acceptedMouseButtons() & ~QtCore.Qt.RightButton) def removeClicked(self): self.sigRemoveRequested.emit(self) def hoverEvent(self, ev): hover = False if not ev.isExit(): if ev.acceptDrags(QtCore.Qt.LeftButton): hover=True for btn in [QtCore.Qt.LeftButton, QtCore.Qt.RightButton, QtCore.Qt.MidButton]: if int(self.acceptedMouseButtons() & btn) > 0 and ev.acceptClicks(btn): hover=True if hover: self.currentPen = fn.mkPen(255, 255,0) else: self.currentPen = self.pen self.update() #if (not ev.isExit()) and ev.acceptDrags(QtCore.Qt.LeftButton): #self.currentPen = fn.mkPen(255, 255,0) #else: #self.currentPen = self.pen #self.update() def mouseClickEvent(self, ev): ## right-click cancels drag if ev.button() == QtCore.Qt.RightButton and self.isMoving: self.isMoving = False ## prevents any further motion self.movePoint(self.startPos, finish=True) #for r in self.roi: #r[0].cancelMove() ev.accept() elif int(ev.button() & self.acceptedMouseButtons()) > 0: ev.accept() if ev.button() == QtCore.Qt.RightButton and self.deletable: self.raiseContextMenu(ev) self.sigClicked.emit(self, ev) else: ev.ignore() #elif self.deletable: #ev.accept() #self.raiseContextMenu(ev) #else: #ev.ignore() def buildMenu(self): menu = QtGui.QMenu() menu.setTitle("Handle") self.removeAction = menu.addAction("Remove handle", self.removeClicked) return menu def getMenu(self): return self.menu def getContextMenus(self, event): return [self.menu] def raiseContextMenu(self, ev): menu = self.scene().addParentContextMenus(self, self.getMenu(), ev) ## Make sure it is still ok to remove this handle removeAllowed = all([r.checkRemoveHandle(self) for r in self.rois]) self.removeAction.setEnabled(removeAllowed) pos = ev.screenPos() menu.popup(QtCore.QPoint(pos.x(), pos.y())) def mouseDragEvent(self, ev): if ev.button() != QtCore.Qt.LeftButton: return ev.accept() ## Inform ROIs that a drag is happening ## note: the ROI is informed that the handle has moved using ROI.movePoint ## this is for other (more nefarious) purposes. #for r in self.roi: #r[0].pointDragEvent(r[1], ev) if ev.isFinish(): if self.isMoving: for r in self.rois: r.stateChangeFinished() self.isMoving = False elif ev.isStart(): for r in self.rois: r.handleMoveStarted() self.isMoving = True self.startPos = self.scenePos() self.cursorOffset = self.scenePos() - ev.buttonDownScenePos() if self.isMoving: ## note: isMoving may become False in mid-drag due to right-click. pos = ev.scenePos() + self.cursorOffset self.movePoint(pos, ev.modifiers(), finish=False) def movePoint(self, pos, modifiers=QtCore.Qt.KeyboardModifier(), finish=True): for r in self.rois: if not r.checkPointMove(self, pos, modifiers): return #print "point moved; inform %d ROIs" % len(self.roi) # A handle can be used by multiple ROIs; tell each to update its handle position for r in self.rois: r.movePoint(self, pos, modifiers, finish=finish, coords='scene') def buildPath(self): size = self.radius self.path = QtGui.QPainterPath() ang = self.startAng dt = 2*np.pi / self.sides for i in range(0, self.sides+1): x = size * cos(ang) y = size * sin(ang) ang += dt if i == 0: self.path.moveTo(x, y) else: self.path.lineTo(x, y) def paint(self, p, opt, widget): ### determine rotation of transform #m = self.sceneTransform() ##mi = m.inverted()[0] #v = m.map(QtCore.QPointF(1, 0)) - m.map(QtCore.QPointF(0, 0)) #va = np.arctan2(v.y(), v.x()) ### Determine length of unit vector in painter's coords ##size = mi.map(Point(self.radius, self.radius)) - mi.map(Point(0, 0)) ##size = (size.x()*size.x() + size.y() * size.y()) ** 0.5 #size = self.radius #bounds = QtCore.QRectF(-size, -size, size*2, size*2) #if bounds != self.bounds: #self.bounds = bounds #self.prepareGeometryChange() p.setRenderHints(p.Antialiasing, True) p.setPen(self.currentPen) #p.rotate(va * 180. / 3.1415926) #p.drawPath(self.path) p.drawPath(self.shape()) #ang = self.startAng + va #dt = 2*np.pi / self.sides #for i in range(0, self.sides): #x1 = size * cos(ang) #y1 = size * sin(ang) #x2 = size * cos(ang+dt) #y2 = size * sin(ang+dt) #ang += dt #p.drawLine(Point(x1, y1), Point(x2, y2)) def shape(self): if self._shape is None: s = self.generateShape() if s is None: return self.path self._shape = s self.prepareGeometryChange() ## beware--this can cause the view to adjust, which would immediately invalidate the shape. return self._shape def boundingRect(self): #print 'roi:', self.roi s1 = self.shape() #print " s1:", s1 #s2 = self.shape() #print " s2:", s2 return self.shape().boundingRect() def generateShape(self): ## determine rotation of transform #m = self.sceneTransform() ## Qt bug: do not access sceneTransform() until we know this object has a scene. #mi = m.inverted()[0] dt = self.deviceTransform() if dt is None: self._shape = self.path return None v = dt.map(QtCore.QPointF(1, 0)) - dt.map(QtCore.QPointF(0, 0)) va = np.arctan2(v.y(), v.x()) dti = fn.invertQTransform(dt) devPos = dt.map(QtCore.QPointF(0,0)) tr = QtGui.QTransform() tr.translate(devPos.x(), devPos.y()) tr.rotate(va * 180. / 3.1415926) return dti.map(tr.map(self.path)) def viewRangeChanged(self): GraphicsObject.viewRangeChanged(self) self._shape = None ## invalidate shape, recompute later if requested. #self.updateShape() #def itemChange(self, change, value): #if change == self.ItemScenePositionHasChanged: #self.updateShape() class TestROI(ROI): def __init__(self, pos, size, **args): #QtGui.QGraphicsRectItem.__init__(self, pos[0], pos[1], size[0], size[1]) ROI.__init__(self, pos, size, **args) #self.addTranslateHandle([0, 0]) self.addTranslateHandle([0.5, 0.5]) self.addScaleHandle([1, 1], [0, 0]) self.addScaleHandle([0, 0], [1, 1]) self.addScaleRotateHandle([1, 0.5], [0.5, 0.5]) self.addScaleHandle([0.5, 1], [0.5, 0.5]) self.addRotateHandle([1, 0], [0, 0]) self.addRotateHandle([0, 1], [1, 1]) class RectROI(ROI): def __init__(self, pos, size, centered=False, sideScalers=False, **args): #QtGui.QGraphicsRectItem.__init__(self, 0, 0, size[0], size[1]) ROI.__init__(self, pos, size, **args) if centered: center = [0.5, 0.5] else: center = [0, 0] #self.addTranslateHandle(center) self.addScaleHandle([1, 1], center) if sideScalers: self.addScaleHandle([1, 0.5], [center[0], 0.5]) self.addScaleHandle([0.5, 1], [0.5, center[1]]) class LineROI(ROI): def __init__(self, pos1, pos2, width, **args): pos1 = Point(pos1) pos2 = Point(pos2) d = pos2-pos1 l = d.length() ang = Point(1, 0).angle(d) ra = ang * np.pi / 180. c = Point(-width/2. * sin(ra), -width/2. * cos(ra)) pos1 = pos1 + c ROI.__init__(self, pos1, size=Point(l, width), angle=ang, **args) self.addScaleRotateHandle([0, 0.5], [1, 0.5]) self.addScaleRotateHandle([1, 0.5], [0, 0.5]) self.addScaleHandle([0.5, 1], [0.5, 0.5]) class MultiRectROI(QtGui.QGraphicsObject): """ Chain of rectangular ROIs connected by handles. This is generally used to mark a curved path through an image similarly to PolyLineROI. It differs in that each segment of the chain is rectangular instead of linear and thus has width. """ sigRegionChangeFinished = QtCore.Signal(object) sigRegionChangeStarted = QtCore.Signal(object) sigRegionChanged = QtCore.Signal(object) def __init__(self, points, width, pen=None, **args): QtGui.QGraphicsObject.__init__(self) self.pen = pen self.roiArgs = args self.lines = [] if len(points) < 2: raise Exception("Must start with at least 2 points") ## create first segment self.addSegment(points[1], connectTo=points[0], scaleHandle=True) ## create remaining segments for p in points[2:]: self.addSegment(p) def paint(self, *args): pass def boundingRect(self): return QtCore.QRectF() def roiChangedEvent(self): w = self.lines[0].state['size'][1] for l in self.lines[1:]: w0 = l.state['size'][1] if w == w0: continue l.scale([1.0, w/w0], center=[0.5,0.5]) self.sigRegionChanged.emit(self) def roiChangeStartedEvent(self): self.sigRegionChangeStarted.emit(self) def roiChangeFinishedEvent(self): self.sigRegionChangeFinished.emit(self) def getHandlePositions(self): """Return the positions of all handles in local coordinates.""" pos = [self.mapFromScene(self.lines[0].getHandles()[0].scenePos())] for l in self.lines: pos.append(self.mapFromScene(l.getHandles()[1].scenePos())) return pos def getArrayRegion(self, arr, img=None, axes=(0,1)): rgns = [] for l in self.lines: rgn = l.getArrayRegion(arr, img, axes=axes) if rgn is None: continue #return None rgns.append(rgn) #print l.state['size'] ## make sure orthogonal axis is the same size ## (sometimes fp errors cause differences) ms = min([r.shape[axes[1]] for r in rgns]) sl = [slice(None)] * rgns[0].ndim sl[axes[1]] = slice(0,ms) rgns = [r[sl] for r in rgns] #print [r.shape for r in rgns], axes return np.concatenate(rgns, axis=axes[0]) def addSegment(self, pos=(0,0), scaleHandle=False, connectTo=None): """ Add a new segment to the ROI connecting from the previous endpoint to *pos*. (pos is specified in the parent coordinate system of the MultiRectROI) """ ## by default, connect to the previous endpoint if connectTo is None: connectTo = self.lines[-1].getHandles()[1] ## create new ROI newRoi = ROI((0,0), [1, 5], parent=self, pen=self.pen, **self.roiArgs) self.lines.append(newRoi) ## Add first SR handle if isinstance(connectTo, Handle): self.lines[-1].addScaleRotateHandle([0, 0.5], [1, 0.5], item=connectTo) newRoi.movePoint(connectTo, connectTo.scenePos(), coords='scene') else: h = self.lines[-1].addScaleRotateHandle([0, 0.5], [1, 0.5]) newRoi.movePoint(h, connectTo, coords='scene') ## add second SR handle h = self.lines[-1].addScaleRotateHandle([1, 0.5], [0, 0.5]) newRoi.movePoint(h, pos) ## optionally add scale handle (this MUST come after the two SR handles) if scaleHandle: newRoi.addScaleHandle([0.5, 1], [0.5, 0.5]) newRoi.translatable = False newRoi.sigRegionChanged.connect(self.roiChangedEvent) newRoi.sigRegionChangeStarted.connect(self.roiChangeStartedEvent) newRoi.sigRegionChangeFinished.connect(self.roiChangeFinishedEvent) self.sigRegionChanged.emit(self) def removeSegment(self, index=-1): """Remove a segment from the ROI.""" roi = self.lines[index] self.lines.pop(index) self.scene().removeItem(roi) roi.sigRegionChanged.disconnect(self.roiChangedEvent) roi.sigRegionChangeStarted.disconnect(self.roiChangeStartedEvent) roi.sigRegionChangeFinished.disconnect(self.roiChangeFinishedEvent) self.sigRegionChanged.emit(self) class MultiLineROI(MultiRectROI): def __init__(self, *args, **kwds): MultiRectROI.__init__(self, *args, **kwds) print("Warning: MultiLineROI has been renamed to MultiRectROI. (and MultiLineROI may be redefined in the future)") class EllipseROI(ROI): def __init__(self, pos, size, **args): #QtGui.QGraphicsRectItem.__init__(self, 0, 0, size[0], size[1]) ROI.__init__(self, pos, size, **args) self.addRotateHandle([1.0, 0.5], [0.5, 0.5]) self.addScaleHandle([0.5*2.**-0.5 + 0.5, 0.5*2.**-0.5 + 0.5], [0.5, 0.5]) def paint(self, p, opt, widget): r = self.boundingRect() p.setRenderHint(QtGui.QPainter.Antialiasing) p.setPen(self.currentPen) p.scale(r.width(), r.height())## workaround for GL bug r = QtCore.QRectF(r.x()/r.width(), r.y()/r.height(), 1,1) p.drawEllipse(r) def getArrayRegion(self, arr, img=None): arr = ROI.getArrayRegion(self, arr, img) if arr is None or arr.shape[0] == 0 or arr.shape[1] == 0: return None w = arr.shape[0] h = arr.shape[1] ## generate an ellipsoidal mask mask = np.fromfunction(lambda x,y: (((x+0.5)/(w/2.)-1)**2+ ((y+0.5)/(h/2.)-1)**2)**0.5 < 1, (w, h)) return arr * mask def shape(self): self.path = QtGui.QPainterPath() self.path.addEllipse(self.boundingRect()) return self.path class CircleROI(EllipseROI): def __init__(self, pos, size, **args): ROI.__init__(self, pos, size, **args) self.aspectLocked = True #self.addTranslateHandle([0.5, 0.5]) self.addScaleHandle([0.5*2.**-0.5 + 0.5, 0.5*2.**-0.5 + 0.5], [0.5, 0.5]) class PolygonROI(ROI): ## deprecated. Use PloyLineROI instead. def __init__(self, positions, pos=None, **args): if pos is None: pos = [0,0] ROI.__init__(self, pos, [1,1], **args) #ROI.__init__(self, positions[0]) for p in positions: self.addFreeHandle(p) self.setZValue(1000) print("Warning: PolygonROI is deprecated. Use PolyLineROI instead.") def listPoints(self): return [p['item'].pos() for p in self.handles] #def movePoint(self, *args, **kargs): #ROI.movePoint(self, *args, **kargs) #self.prepareGeometryChange() #for h in self.handles: #h['pos'] = h['item'].pos() def paint(self, p, *args): p.setRenderHint(QtGui.QPainter.Antialiasing) p.setPen(self.currentPen) for i in range(len(self.handles)): h1 = self.handles[i]['item'].pos() h2 = self.handles[i-1]['item'].pos() p.drawLine(h1, h2) def boundingRect(self): r = QtCore.QRectF() for h in self.handles: r |= self.mapFromItem(h['item'], h['item'].boundingRect()).boundingRect() ## |= gives the union of the two QRectFs return r def shape(self): p = QtGui.QPainterPath() p.moveTo(self.handles[0]['item'].pos()) for i in range(len(self.handles)): p.lineTo(self.handles[i]['item'].pos()) return p def stateCopy(self): sc = {} sc['pos'] = Point(self.state['pos']) sc['size'] = Point(self.state['size']) sc['angle'] = self.state['angle'] #sc['handles'] = self.handles return sc class PolyLineROI(ROI): """Container class for multiple connected LineSegmentROIs. Responsible for adding new line segments, and for translation/(rotation?) of multiple lines together.""" def __init__(self, positions, closed=False, pos=None, **args): if pos is None: pos = [0,0] #pen=args.get('pen', fn.mkPen((100,100,255))) ROI.__init__(self, pos, size=[1,1], **args) self.closed = closed self.segments = [] for p in positions: self.addFreeHandle(p) start = -1 if self.closed else 0 for i in range(start, len(self.handles)-1): self.addSegment(self.handles[i]['item'], self.handles[i+1]['item']) #for i in range(len(positions)-1): #h2 = self.addFreeHandle(positions[i+1]) #segment = LineSegmentROI(handles=(h, h2), pen=pen, parent=self, movable=False) #self.segments.append(segment) #h = h2 #for i, s in enumerate(self.segments): #h = s.handles[0] #self.addFreeHandle(h['pos'], item=h['item']) #s.setZValue(self.zValue() +1) #h = self.segments[-1].handles[1] #self.addFreeHandle(h['pos'], item=h['item']) #if closed: #h1 = self.handles[-1]['item'] #h2 = self.handles[0]['item'] #self.segments.append(LineSegmentROI([positions[-1], positions[0]], pos=pos, handles=(h1, h2), pen=pen, parent=self, movable=False)) #h2.setParentItem(self.segments[-1]) #for s in self.segments: #self.setSegmentSettings(s) #def movePoint(self, *args, **kargs): #pass def addSegment(self, h1, h2, index=None): seg = LineSegmentROI(handles=(h1, h2), pen=self.pen, parent=self, movable=False) if index is None: self.segments.append(seg) else: self.segments.insert(index, seg) seg.sigClicked.connect(self.segmentClicked) seg.setAcceptedMouseButtons(QtCore.Qt.LeftButton) seg.setZValue(self.zValue()+1) for h in seg.handles: h['item'].setDeletable(True) h['item'].setAcceptedMouseButtons(h['item'].acceptedMouseButtons() | QtCore.Qt.LeftButton) ## have these handles take left clicks too, so that handles cannot be added on top of other handles def setMouseHover(self, hover): ## Inform all the ROI's segments that the mouse is(not) hovering over it #if self.mouseHovering == hover: #return #self.mouseHovering = hover ROI.setMouseHover(self, hover) for s in self.segments: s.setMouseHover(hover) def addHandle(self, info, index=None): h = ROI.addHandle(self, info, index=index) h.sigRemoveRequested.connect(self.removeHandle) return h def segmentClicked(self, segment, ev=None, pos=None): ## pos should be in this item's coordinate system if ev != None: pos = segment.mapToParent(ev.pos()) elif pos != None: pos = pos else: raise Exception("Either an event or a position must be given.") h1 = segment.handles[0]['item'] h2 = segment.handles[1]['item'] i = self.segments.index(segment) h3 = self.addFreeHandle(pos, index=self.indexOfHandle(h2)) self.addSegment(h3, h2, index=i+1) segment.replaceHandle(h2, h3) #def report(self): #for s in self.segments: #print s #for h in s.handles: #print " ", h #for h in self.handles: #print h def removeHandle(self, handle, updateSegments=True): ROI.removeHandle(self, handle) handle.sigRemoveRequested.disconnect(self.removeHandle) if not updateSegments: return segments = handle.rois[:] if len(segments) == 1: self.removeSegment(segments[0]) else: handles = [h['item'] for h in segments[1].handles] handles.remove(handle) segments[0].replaceHandle(handle, handles[0]) self.removeSegment(segments[1]) def removeSegment(self, seg): for handle in seg.handles[:]: seg.removeHandle(handle['item']) self.segments.remove(seg) seg.sigClicked.disconnect(self.segmentClicked) self.scene().removeItem(seg) def checkRemoveHandle(self, h): ## called when a handle is about to display its context menu if self.closed: return len(self.handles) > 3 else: return len(self.handles) > 2 def paint(self, p, *args): #for s in self.segments: #s.update() #p.setPen(self.currentPen) #p.setPen(fn.mkPen('w')) #p.drawRect(self.boundingRect()) #p.drawPath(self.shape()) pass def boundingRect(self): return self.shape().boundingRect() #r = QtCore.QRectF() #for h in self.handles: #r |= self.mapFromItem(h['item'], h['item'].boundingRect()).boundingRect() ## |= gives the union of the two QRectFs #return r def shape(self): p = QtGui.QPainterPath() p.moveTo(self.handles[0]['item'].pos()) for i in range(len(self.handles)): p.lineTo(self.handles[i]['item'].pos()) p.lineTo(self.handles[0]['item'].pos()) return p class LineSegmentROI(ROI): """ ROI subclass with two freely-moving handles defining a line. """ def __init__(self, positions=(None, None), pos=None, handles=(None,None), **args): if pos is None: pos = [0,0] ROI.__init__(self, pos, [1,1], **args) #ROI.__init__(self, positions[0]) if len(positions) > 2: raise Exception("LineSegmentROI must be defined by exactly 2 positions. For more points, use PolyLineROI.") for i, p in enumerate(positions): self.addFreeHandle(p, item=handles[i]) def listPoints(self): return [p['item'].pos() for p in self.handles] def paint(self, p, *args): p.setRenderHint(QtGui.QPainter.Antialiasing) p.setPen(self.currentPen) h1 = self.handles[0]['item'].pos() h2 = self.handles[1]['item'].pos() p.drawLine(h1, h2) def boundingRect(self): return self.shape().boundingRect() def shape(self): p = QtGui.QPainterPath() h1 = self.handles[0]['item'].pos() h2 = self.handles[1]['item'].pos() dh = h2-h1 if dh.length() == 0: return p pxv = self.pixelVectors(h2-h1)[1] if pxv is None: return p pxv *= 4 p.moveTo(h1+pxv) p.lineTo(h2+pxv) p.lineTo(h2-pxv) p.lineTo(h1-pxv) p.lineTo(h1+pxv) return p def getArrayRegion(self, data, img, axes=(0,1)): """ Use the position of this ROI relative to an imageItem to pull a slice from an array. Since this pulls 1D data from a 2D coordinate system, the return value will have ndim = data.ndim-1 """ imgPts = [self.mapToItem(img, h['item'].pos()) for h in self.handles] rgns = [] for i in range(len(imgPts)-1): d = Point(imgPts[i+1] - imgPts[i]) o = Point(imgPts[i]) r = fn.affineSlice(data, shape=(int(d.length()),), vectors=[d.norm()], origin=o, axes=axes, order=1) rgns.append(r) return np.concatenate(rgns, axis=axes[0]) class SpiralROI(ROI): def __init__(self, pos=None, size=None, **args): if size == None: size = [100e-6,100e-6] if pos == None: pos = [0,0] ROI.__init__(self, pos, size, **args) self.translateSnap = False self.addFreeHandle([0.25,0], name='a') self.addRotateFreeHandle([1,0], [0,0], name='r') #self.getRadius() #QtCore.connect(self, QtCore.SIGNAL('regionChanged'), self. def getRadius(self): radius = Point(self.handles[1]['item'].pos()).length() #r2 = radius[1] #r3 = r2[0] return radius def boundingRect(self): r = self.getRadius() return QtCore.QRectF(-r*1.1, -r*1.1, 2.2*r, 2.2*r) #return self.bounds #def movePoint(self, *args, **kargs): #ROI.movePoint(self, *args, **kargs) #self.prepareGeometryChange() #for h in self.handles: #h['pos'] = h['item'].pos()/self.state['size'][0] def stateChanged(self): ROI.stateChanged(self) if len(self.handles) > 1: self.path = QtGui.QPainterPath() h0 = Point(self.handles[0]['item'].pos()).length() a = h0/(2.0*np.pi) theta = 30.0*(2.0*np.pi)/360.0 self.path.moveTo(QtCore.QPointF(a*theta*cos(theta), a*theta*sin(theta))) x0 = a*theta*cos(theta) y0 = a*theta*sin(theta) radius = self.getRadius() theta += 20.0*(2.0*np.pi)/360.0 i = 0 while Point(x0, y0).length() < radius and i < 1000: x1 = a*theta*cos(theta) y1 = a*theta*sin(theta) self.path.lineTo(QtCore.QPointF(x1,y1)) theta += 20.0*(2.0*np.pi)/360.0 x0 = x1 y0 = y1 i += 1 return self.path def shape(self): p = QtGui.QPainterPath() p.addEllipse(self.boundingRect()) return p def paint(self, p, *args): p.setRenderHint(QtGui.QPainter.Antialiasing) #path = self.shape() p.setPen(self.currentPen) p.drawPath(self.path) p.setPen(QtGui.QPen(QtGui.QColor(255,0,0))) p.drawPath(self.shape()) p.setPen(QtGui.QPen(QtGui.QColor(0,0,255))) p.drawRect(self.boundingRect())