def geometry_to_bitmap(geometry, radius: int = 0, crop_image_shape: tuple = None) -> list: """ Args: geometry: Geometry type which implemented 'draw', 'translate' and 'to_bbox` methods radius: half of thickness of drawed vector elements crop_image_shape: if not None - crop bitmap object by this shape (HxW) Returns: Bitmap (geometry) object """ thickness = radius + 1 bbox = geometry.to_bbox() extended_bbox = Rectangle(top=bbox.top - radius, left=bbox.left - radius, bottom=bbox.bottom + radius, right=bbox.right + radius) bitmap_data = np.full(shape=(extended_bbox.height, extended_bbox.width), fill_value=False) geometry = geometry.translate(-extended_bbox.top, -extended_bbox.left) geometry.draw(bitmap_data, color=True, thickness=thickness) origin = PointLocation(extended_bbox.top, extended_bbox.left) bitmap_geometry = Bitmap(data=bitmap_data, origin=origin) if crop_image_shape is not None: crop_rect = Rectangle.from_size(*crop_image_shape) return bitmap_geometry.crop(crop_rect) return [bitmap_geometry]
def crop(img: np.ndarray, rect: Rectangle) -> np.ndarray: ''' The function crop cut out part of the image with rectangle size. If rectangle for crop is out of image area it generates exception error(ValueError). :param img: image(numpy matrix) to be cropped :param rect: class object Rectangle of a certain size :return: cropped image ''' img_rect = Rectangle.from_array(img) if not img_rect.contains(rect): raise ValueError('Rectangle for crop out of image area!') return rect.get_cropped_numpy_slice(img)
def get_add_padding(self, source_shape): source_rect = Rectangle.from_size(source_shape) window_rect = Rectangle.from_size(self.window_shape) if not source_rect.contains(window_rect): raise RuntimeError( 'Sliding window: window is larger than source (image).') hw_limit = tuple(source_shape[i] - self.window_shape[i] for i in (0, 1)) for wind_top in range(0, hw_limit[0] + self.stride[0], self.stride[0]): for wind_left in range(0, hw_limit[1] + self.stride[1], self.stride[1]): roi = window_rect.translate(drow=wind_top, dcol=wind_left) yield roi
def test_crop(self): crop_rect = Rectangle(0, 0, 100, 100) res_geoms = self.rect.crop(crop_rect) self.assertEqual(len(res_geoms), 1) res_rect = res_geoms[0] self.assertRectEquals(res_rect, self.rect.top, self.rect.left, self.rect.bottom, self.rect.right)
def to_bbox(self): ''' The function to_bbox create Rectangle class object from current Bitmap class object :return: Rectangle class object ''' return Rectangle.from_array(self._data).translate( drow=self._origin.row, dcol=self._origin.col)
def detection_preds_to_sly_rects( idx_to_class, network_prediction: DetectionNetworkPrediction, img_shape, min_score_threshold, score_tag_meta) -> list: """ Converts network detection results to Supervisely Labels with Rectangle geometry. Args: idx_to_class: Dict matching predicted boxes with appropriate ObjClass. network_prediction: Network predictions packed into DetectionNetworkPrediction instance. img_shape: Size(height, width) of image that was used for inference. min_score_threshold: All detections with less scores will be dropped. score_tag_meta: TagMeta instance for score tags. Returns: A list containing labels with detection rectangles. """ labels = [] thr_mask = np.squeeze(network_prediction.scores) > min_score_threshold for box, class_id, score in zip( np.squeeze(network_prediction.boxes)[thr_mask], np.squeeze(network_prediction.classes)[thr_mask], np.squeeze(network_prediction.scores)[thr_mask]): xmin = round(float(box[1] * img_shape[1])) ymin = round(float(box[0] * img_shape[0])) xmax = round(float(box[3] * img_shape[1])) ymax = round(float(box[2] * img_shape[0])) rect = Rectangle(top=ymin, left=xmin, bottom=ymax, right=xmax) class_obj = idx_to_class[int(class_id)] label = Label(geometry=rect, obj_class=class_obj) score_tag = Tag(score_tag_meta, value=round(float(score), 4)) label = label.add_tag(score_tag) labels.append(label) return labels
def get_effective_nonoverlapping_masks(geometries, img_size=None): ''' Find nonoverlapping objects from given list of geometries :param geometries: list of geometry type objects(Point, Polygon, PolyLine, Bitmap etc.) :param img_size: tuple or list of integers :return: list of bitmaps, numpy array ''' if img_size is None: if len(geometries) > 0: common_bbox = Rectangle.from_geometries_list(geometries) img_size = (common_bbox.bottom + 1, common_bbox.right + 1) else: img_size = (0, 0) canvas = np.full(shape=img_size, fill_value=len(geometries), dtype=np.int32) for idx, geometry in enumerate(geometries): geometry.draw(canvas, color=idx) result_masks = [] for idx, geometry in enumerate(geometries): effective_indicator = (canvas == idx) if np.any(effective_indicator): result_masks.append(Bitmap(effective_indicator)) else: result_masks.append(None) return result_masks, canvas
def _rectangle_from_cropping_or_padding_bounds(img_shape, crop_config, do_crop: bool): def get_crop_pixels(raw_side, dim_name): side_crop_config = crop_config.get(dim_name) if side_crop_config is None: crop_pixels = 0 elif side_crop_config.endswith(PX): crop_pixels = int(side_crop_config[:-len(PX)]) elif side_crop_config.endswith(PERCENT): padding_fraction = float(side_crop_config[:-len(PERCENT)]) crop_pixels = int(raw_side * padding_fraction / 100.0) else: raise ValueError( 'Unknown padding size format: {}. Expected absolute values as "5px" or relative as "5%"' .format(side_crop_config)) if not do_crop: crop_pixels *= -1 # Pad instead of crop. return crop_pixels # TODO more informative error message. return Rectangle( top=get_crop_pixels(img_shape[0], TOP), left=get_crop_pixels(img_shape[1], LEFT), bottom=img_shape[0] - get_crop_pixels(img_shape[0], BOTTOM) - 1, right=img_shape[1] - get_crop_pixels(img_shape[1], RIGHT) - 1)
def test_crop(self): crop_rect = Rectangle(top=1, left=0, bottom=10, right=4) res_geoms = self.bitmap.crop(crop_rect) self.assertEqual(len(res_geoms), 1) res_bitmap = res_geoms[0] res_data = np.array([[[0.6, 0.7]]], dtype=np.float64) self.assertMultichannelBitmapEquals(res_bitmap, 1, 4, res_data)
def test_crop(self): crop_rect = Rectangle(25, 0, 200, 200) res_geoms = self.poly.crop(crop_rect) self.assertEqual(len(res_geoms), 1) crop = res_geoms[0] self.assertPolyEquals(crop, [[10, 25], [20, 25], [20, 30], [30, 30], [30, 25], [35, 25], [30, 40], [10, 30]], [])
def test_relative_crop(self): crop_rect = Rectangle(25, 0, 200, 200) res_geoms = self.poly.relative_crop(crop_rect) self.assertEqual(len(res_geoms), 1) crop = res_geoms[0] self.assertPolyEquals(crop, [[10, 0], [20, 0], [20, 5], [30, 5], [30, 0], [35, 0], [30, 15], [10, 5]], [])
def to_bbox(self): ''' The function to_bbox create Rectangle class object from current GraphNodes class object :return: Rectangle class object ''' return Rectangle.from_geometries_list([ Point.from_point_location(node.location) for node in self._nodes.values() ])
def to_bbox(self): ''' The function to_bbox create Rectangle class object from Point class object :return: Rectangle class object ''' return Rectangle(top=self.row, left=self.col, bottom=self.row, right=self.col)
def test_from_json(self): packed_obj = { 'some_stuff': 'aaa', POINTS: { EXTERIOR: [[17, 3], [34, 45]], INTERIOR: [] } } res_rect = Rectangle.from_json(packed_obj) self.assertRectEquals(res_rect, 3, 17, 45, 34)
def crop(self, rect: Rectangle): ''' The function "crop" return list containing graph if all nodes of graph located in given rectangle and an empty list otherwise :param rect: Rectangle class object :return: list containing GraphNodes class object or empty list ''' is_all_nodes_inside = all( rect.contains_point_location(node.location) for node in self._nodes.values()) return [self] if is_all_nodes_inside else []
def to_bbox(self): ''' The function to_bbox create Rectangle class object from current Cuboid class object :return: Rectangle class object ''' points_np = np.array([[self._points[p].row, self._points[p].col] for face in self._faces for p in face.tolist()]) rows, cols = points_np[:, 0], points_np[:, 1] return Rectangle(top=round(min(rows).item()), left=round(min(cols).item()), bottom=round(max(rows).item()), right=round(max(cols).item()))
def test_crop(self): # @TODO: mb delete compress while cropping crop_rect = Rectangle(0, 0, 8, 8) res_geoms = self.bitmap.crop(crop_rect) self.assertEqual(len(res_geoms), 1) res_bitmap = res_geoms[0] res_mask = np.array( [[0, 0, 1, 0], [0, 1, 1, 1], [1, 0, 1, 0], [0, 0, 1, 0], [0, 0, 1, 0], [0, 0, 1, 0], [0, 0, 1, 0]], dtype=np.bool) self.assertBitmapEquals(res_bitmap, 0, 5, res_mask)
def get_change_size(self, source_shape): source_rect = Rectangle.from_size(source_shape) window_rect = Rectangle.from_size(self.window_shape) if not source_rect.contains(window_rect): raise RuntimeError( 'Sliding window: window is larger than source (image).') hw_limit = tuple(source_shape[i] - self.window_shape[i] for i in (0, 1)) for wind_top in range(0, hw_limit[0] + self.stride[0], self.stride[0]): for wind_left in range(0, hw_limit[1] + self.stride[1], self.stride[1]): wind_bottom = min(wind_top + self.stride[0], source_shape[0]) wind_right = min(wind_left + self.stride[1], source_shape[1]) roi = Rectangle(wind_top, wind_left, wind_bottom - 1, wind_right - 1) if not source_rect.contains(roi): raise RuntimeError( 'Sliding window: result crop bounds are invalid.') yield roi
def to_bbox(self): ''' The function to_bbox create Rectangle class object from current VectorGeometry class object :return: Rectangle class object ''' exterior_np = self.exterior_np rows, cols = exterior_np[:, 0], exterior_np[:, 1] return Rectangle(top=round(min(rows).item()), left=round(min(cols).item()), bottom=round(max(rows).item()), right=round(max(cols).item()))
def _add_labels_impl(self, dest, labels): ''' The function _add_labels_impl extend list of the labels of the current Annotation object :param dest: destination list of the Label class objects :param labels: list of the Label class objects to be added to the destination list :return: list of the Label class objects ''' for label in labels: # TODO Reconsider silent automatic normalization, reimplement canvas_rect = Rectangle.from_size(self.img_size) dest.extend(label.crop(canvas_rect))
def _find_mask_tight_bbox(raw_mask: np.ndarray) -> Rectangle: rows = list(np.any(raw_mask, axis=1).tolist( )) # Redundant conversion to list to help PyCharm static analysis. cols = list(np.any(raw_mask, axis=0).tolist()) top_margin = rows.index(True) bottom_margin = rows[::-1].index(True) left_margin = cols.index(True) right_margin = cols[::-1].index(True) return Rectangle(top=top_margin, left=left_margin, bottom=len(rows) - 1 - bottom_margin, right=len(cols) - 1 - right_margin)
def _calc_inner_crop(self): """ Given a rectangle of self.src_imsize HxW that has been rotated by self.angle_degrees_ccw (in degrees), computes the location of the largest possible axis-aligned rectangle within the rotated rectangle. """ # TODO This needs significant streamlinig. a_ccw = np.deg2rad(self.angle_degrees_ccw) quadrant = math.floor(a_ccw / (math.pi / 2)) & 3 sign_alpha = a_ccw if ((quadrant & 1) == 0) else math.pi - a_ccw alpha = (sign_alpha % math.pi + math.pi) % math.pi h, w = self.src_imsize bb_w = w * math.cos(alpha) + h * math.sin(alpha) bb_h = w * math.sin(alpha) + h * math.cos(alpha) gamma = math.atan2(bb_w, bb_w) if (w < h) else math.atan2(bb_w, bb_w) delta = math.pi - alpha - gamma length = h if (w < h) else w d = length * math.cos(alpha) a = d * math.sin(alpha) / math.sin(delta) y = a * math.cos(gamma) x = y * math.tan(gamma) largest_w, largest_h = bb_w - 2 * x, bb_h - 2 * y new_h, new_w = self.new_imsize left = round((new_w - largest_w) * 0.5) right = round((new_w + largest_w) * 0.5) top = round((new_h - largest_h) * 0.5) bottom = round((new_h + largest_h) * 0.5) some_inner_crop = Rectangle(top, left, bottom, right) new_img_bbox = Rectangle(0, 0, self.new_imsize[0] - 1, self.new_imsize[1] - 1) self.inner_crop = new_img_bbox.crop(some_inner_crop)[0]
def _all_filtered_bbox_rois(ann: Annotation, included_classes, crop_config: dict): for src_label in ann.labels: effective_roi = None if is_name_included(src_label.obj_class.name, included_classes): bbox = src_label.geometry.to_bbox() roi = _make_padded_rectangle((bbox.height, bbox.width), crop_config) maybe_effective_roi = roi.translate( drow=bbox.top, dcol=bbox.left).crop(Rectangle.from_size(ann.img_size)) if len(maybe_effective_roi) > 0: [effective_roi] = maybe_effective_roi yield src_label, effective_roi
def get_geometries_iou(geometry_1: Geometry, geometry_2: Geometry): if isinstance(geometry_1, Rectangle): return get_iou_rect(geometry_1, geometry_2) elif isinstance(geometry_2, Rectangle): return get_iou_rect(geometry_2, geometry_1) else: common_bbox = Rectangle.from_geometries_list((geometry_1, geometry_2)) g1 = geometry_1.relative_crop(common_bbox)[0] g2 = geometry_2.relative_crop(common_bbox)[0] mask_1 = np.full(common_bbox.to_size(), False) g1.draw(mask_1, color=True) mask_2 = np.full(common_bbox.to_size(), False) g2.draw(mask_2, color=True) return safe_ratio((mask_1 & mask_2).sum(), (mask_1 | mask_2).sum())
def add_background(ann: Annotation, bg_class: ObjClass) -> Annotation: """ Adds background rectangle (size equals to image size) to annotation. Args: ann: Input annotation. bg_class: ObjClass instance for background class label. Returns: Annotation with added background rectangle. """ img_size = ann.img_size rect = Rectangle(0, 0, img_size[0] - 1, img_size[1] - 1) new_label = Label(rect, bg_class) return ann.add_label(new_label)
def test_crop_by_border(self): exterior = [[10, 10], [40, 10], [40, 40], [10, 40]] interiors = [[[11, 11], [11, 20], [20, 11]], [[20, 20], [21, 20], [20, 21]]] poly = Polygon(exterior=row_col_list_to_points( exterior, flip_row_col_order=True), interior=[ row_col_list_to_points(interior, flip_row_col_order=True) for interior in interiors ]) crop_rect = Rectangle(0, 0, 100, 10) res_geoms = poly.crop(crop_rect) self.assertEqual(len(res_geoms), 0)
def crop_with_padding(img: np.ndarray, rect: Rectangle) -> np.ndarray: ''' The function crop cut out part of the image with rectangle size. If rectangle for crop is out of image area it generates additional padding. :param img: image(numpy matrix) to be cropped :param rect: class object Rectangle of a certain size :return: cropped image ''' img_rect = Rectangle.from_array(img) if not img_rect.contains(rect): row, col = img.shape[:2] new_img = cv2.copyMakeBorder( img, top=rect.height, bottom=rect.height, left=rect.width, right=rect.width, borderType=cv2.BORDER_CONSTANT ) new_rect = rect.translate(drow=rect.height, dcol=rect.width) return new_rect.get_cropped_numpy_slice(new_img) else: return rect.get_cropped_numpy_slice(img)
def _get_annotation_for_bbox(img: np.ndarray, roi: Rectangle, model) -> Annotation: """Runs inference within the given roi; moves resulting figures to global reference frame.""" img_cropped = roi.get_cropped_numpy_slice(img) # TODO pass through image and parent figure tags via roi_ann. roi_ann = Annotation(img_size=(roi.height, roi.width)) raw_result_ann = model.inference(img_cropped, roi_ann) return Annotation(img_size=img.shape[:2], labels=[ label.translate(drow=roi.top, dcol=roi.left) for label in raw_result_ann.labels ], img_tags=raw_result_ann.img_tags, img_description=raw_result_ann.img_description, pixelwise_scores_labels=[ label.translate(drow=roi.top, dcol=roi.left) for label in raw_result_ann.pixelwise_scores_labels ])
def validate_bounds(self, img_size, _auto_correct=False): ''' The function validate_bounds checks if given image contains a figure. Raise error if figure is out of image bounds :param img_size: tuple or list of integers :param _auto_correct: bool ''' canvas_rect = Rectangle.from_size(img_size) if canvas_rect.contains(self.geometry.to_bbox()) is False: raise OutOfImageBoundsExtension("Figure is out of image bounds") if _auto_correct is True: geometries_after_crop = [ cropped_geometry for cropped_geometry in self.geometry.crop(canvas_rect) ] if len(geometries_after_crop) != 1: raise OutOfImageBoundsExtension( "Several geometries after crop") self._set_geometry_inplace(geometries_after_crop[0])
def test_complex_crop(self): # Crop generate GeometryCollection here exterior = [[0, 0], [0, 3], [5, 8], [5, 9], [5, 10], [0, 15], [10, 20], [0, 25], [20, 25], [20, 0]] interiors = [[[2, 2], [4, 4], [4, 2]]] poly = Polygon(exterior=row_col_list_to_points( exterior, flip_row_col_order=True), interior=[ row_col_list_to_points(interior, flip_row_col_order=True) for interior in interiors ]) crop_rect = Rectangle(0, 0, 30, 5) res_geoms = poly.crop(crop_rect) self.assertEqual(len(res_geoms), 3) self.assertPolyEquals(res_geoms[0], [[0, 0], [5, 0], [5, 8], [0, 3]], interiors)