import numpy as np
from skimage.morphology import disk, square
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def maxref_neighbor_coords(mask, ref, fill_coord=(0, 0), structure=None, centre=None):
# find pixel of a neighbour with the highest reference value
highest_coords = []
# Get coordinates of mask
true_pixel_coords = np.argwhere(mask)
if structure is None:
structure, centre = square_neighbour(r=1, return_centre=True)
else:
if isinstance(structure, str):
if structure == '4-connect':
# 4 nearest neighbours
structure, centre = disk_neighbour(1, return_centre=True)
elif structure == '8-connect':
# 8 nearest neighbours
structure, centre = square_neighbour(r=1, return_centre=True)
if centre is None:
centre = structure.shape
centre = ( np.ceil(centre[0]/2).astype(int) - 1 , np.ceil(centre[1]/2).astype(int) - 1 )
# For each pixel within the mask, find its valid neighbors
for y, x in true_pixel_coords:
neighbors = get_valid_neighbors(ref, x, y, structure=structure, centre=centre)
if neighbors:
# Find the pixel with the highest reference value among the neighbors
highest_neighbor = max(neighbors, key=lambda x: x[1]) # Find the highest neighbor
highest_coord = highest_neighbor[0] # Get the coordinates of the highest ref pixel
else:
highest_coord = fill_coord
highest_coords.append(highest_coord)
return highest_coords
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def get_valid_neighbors(data, x, y, structure, centre):
neighbors = []
ycoord, xcoord = get_neighbor_coord(structure, x,y, centre[1], centre[0])
for y, x in zip(ycoord, xcoord):
try:
neighbors.append(((y, x), data[y, x]))
except IndexError:
continue
return neighbors
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def get_neighbor_coord(struct, x, y, x_ref, y_ref):
idx = np.where(struct)
ycoord = idx[0] - y_ref + y
xcoord = idx[1] - x_ref + x
return (ycoord, xcoord)
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def disk_neighbour(r, return_centre=False):
struct = disk(r, dtype='bool')
struct[r, r] = False
if return_centre:
return struct, (r,r)
else:
return struct
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def square_neighbour(r, return_centre=False):
# r is the degree of seperation from
struct = square(r*2+1, dtype='bool')
struct[r, r] = False
if return_centre:
return struct, (r,r)
else:
return struct
