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proximity.py
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1767 lines (1490 loc) · 59.8 KB
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import warnings
from functools import partial
from math import sqrt
try:
import dask.array as da
except ImportError:
da = None
try:
from scipy.spatial import cKDTree
except ImportError:
cKDTree = None
import math as _math
import numpy as np
import xarray as xr
from numba import cuda, prange
try:
import cupy
except ImportError:
class cupy(object):
ndarray = False
from xrspatial.pathfinding import _available_memory_bytes
from xrspatial.utils import (
_validate_raster,
cuda_args, get_dataarray_resolution, has_cuda_and_cupy,
is_cupy_array, is_dask_cupy, ngjit,
)
from xrspatial.dataset_support import supports_dataset
EUCLIDEAN = 0
GREAT_CIRCLE = 1
MANHATTAN = 2
PROXIMITY = 0
ALLOCATION = 1
DIRECTION = 2
def _distance_metric_mapping():
DISTANCE_METRICS = {}
DISTANCE_METRICS["EUCLIDEAN"] = EUCLIDEAN
DISTANCE_METRICS["GREAT_CIRCLE"] = GREAT_CIRCLE
DISTANCE_METRICS["MANHATTAN"] = MANHATTAN
return DISTANCE_METRICS
# create dictionary to map distance metric presented by string and the
# corresponding metric presented by integer.
DISTANCE_METRICS = _distance_metric_mapping()
@ngjit
def euclidean_distance(x1: float, x2: float, y1: float, y2: float) -> float:
"""
Calculates Euclidean (straight line) distance between (x1, y1) and
(x2, y2).
Parameters
----------
x1 : float
x-coordinate of the first point.
x2 : float
x-coordinate of the second point.
y1 : float
y-coordinate of the first point.
y2 : float
y-coordinate of the second point.
Returns
-------
distance : float
Euclidean distance between two points.
References
----------
- Wikipedia: https://en.wikipedia.org/wiki/Euclidean_distance#:~:text=In%20mathematics%2C%20the%20Euclidean%20distance,being%20called%20the%20Pythagorean%20distance. # noqa
Examples
--------
.. sourcecode:: python
>>> # Imports
>>> from xrspatial import euclidean_distance
>>> point_a = (142.32, 23.23)
>>> point_b = (312.54, 432.01)
>>> # Calculate Euclidean Distance
>>> dist = euclidean_distance(
... point_a[0],
... point_b[0],
... point_a[1],
... point_b[1])
>>> print(dist)
442.80462599209596
"""
x = x1 - x2
y = y1 - y2
return np.sqrt(x * x + y * y)
@ngjit
def manhattan_distance(x1: float, x2: float, y1: float, y2: float) -> float:
"""
Calculates Manhattan distance (sum of distance in x and y directions)
between (x1, y1) and (x2, y2).
Parameters
----------
x1 : float
x-coordinate of the first point.
x2 : float
x-coordinate of the second point.
y1 : float
y-coordinate of the first point.
y2 : float
y-coordinate of the second point.
Returns
-------
distance : float
Manhattan distance between two points.
References
----------
- Wikipedia: https://en.wikipedia.org/wiki/Taxicab_geometry
Examples
--------
.. sourcecode:: python
>>> from xrspatial import manhattan_distance
>>> point_a = (142.32, 23.23)
>>> point_b = (312.54, 432.01)
>>> # Calculate Manhattan Distance
>>> dist = manhattan_distance(
... point_a[0],
... point_b[0],
... point_a[1],
... point_b[1])
>>> print(dist)
579.0
"""
x = x1 - x2
y = y1 - y2
return abs(x) + abs(y)
@ngjit
def great_circle_distance(
x1: float, x2: float, y1: float, y2: float, radius: float = 6378137
) -> float:
"""
Calculates great-circle (orthodromic/spherical) distance between
(x1, y1) and (x2, y2), assuming each point is a longitude,
latitude pair.
Parameters
----------
x1 : float
x-coordinate (longitude) between -180 and 180 of the first point.
x2: float
x-coordinate (longitude) between -180 and 180 of the second point.
y1: float
y-coordinate (latitude) between -90 and 90 of the first point.
y2: float
y-coordinate (latitude) between -90 and 90 of the second point.
radius: float, default=6378137
Radius of sphere (earth).
Returns
-------
distance : float
Great-Circle distance between two points.
References
----------
- Wikipedia: https://en.wikipedia.org/wiki/Great-circle_distance#:~:text=The%20great%2Dcircle%20distance%2C%20orthodromic,line%20through%20the%20sphere's%20interior). # noqa
Examples
--------
.. sourcecode:: python
>>> from xrspatial import great_circle_distance
>>> point_a = (123.2, 82.32)
>>> point_b = (178.0, 65.09)
>>> # Calculate Great Circle Distance
>>> dist = great_circle_distance(
... point_a[0],
... point_b[0],
... point_a[1],
... point_b[1])
>>> print(dist)
2378290.489801402
"""
if x1 > 180 or x1 < -180:
raise ValueError(
"Invalid x-coordinate of the first point."
"Must be in the range [-180, 180]"
)
if x2 > 180 or x2 < -180:
raise ValueError(
"Invalid x-coordinate of the second point."
"Must be in the range [-180, 180]"
)
if y1 > 90 or y1 < -90:
raise ValueError(
"Invalid y-coordinate of the first point."
"Must be in the range [-90, 90]"
)
if y2 > 90 or y2 < -90:
raise ValueError(
"Invalid y-coordinate of the second point."
"Must be in the range [-90, 90]"
)
lat1, lon1, lat2, lon2 = (
np.radians(y1),
np.radians(x1),
np.radians(y2),
np.radians(x2),
)
dlon = lon2 - lon1
dlat = lat2 - lat1
a = np.sin(dlat / 2.0) ** 2 + \
np.cos(lat1) * np.cos(lat2) * np.sin(dlon / 2.0) ** 2
# earth radius: 6378137
return radius * 2 * np.arcsin(np.sqrt(a))
@ngjit
def _distance(x1, x2, y1, y2, metric):
if metric == EUCLIDEAN:
d = euclidean_distance(x1, x2, y1, y2)
elif metric == GREAT_CIRCLE:
d = great_circle_distance(x1, x2, y1, y2)
else:
# metric == MANHATTAN:
d = manhattan_distance(x1, x2, y1, y2)
return np.float32(d)
@ngjit
def _calc_direction(x1, x2, y1, y2):
# Calculate direction from (x1, y1) to a source cell (x2, y2).
# The output values are based on compass directions,
# 90 to the east, 180 to the south, 270 to the west, and 360 to the north,
# with 0 reserved for the source cell itself
if x1 == x2 and y1 == y2:
return 0
x = x2 - x1
y = y2 - y1
d = np.arctan2(-y, x) * 57.29578
if d < 0:
d = 90.0 - d
elif d > 90.0:
d = 360.0 - d + 90.0
else:
d = 90.0 - d
return np.float32(d)
def _vectorized_calc_direction(x1, x2, y1, y2):
"""Array-based compass direction from (x1, y1) to (x2, y2).
Uses the same conversion constant (57.29578) as _calc_direction
to ensure identical floating-point behaviour.
"""
dx = x2 - x1
dy = y2 - y1
d = np.arctan2(-dy, dx) * 57.29578
result = np.where(d < 0, 90.0 - d,
np.where(d > 90.0, 360.0 - d + 90.0, 90.0 - d))
result[(x1 == x2) & (y1 == y2)] = 0.0
return result.astype(np.float32)
# =====================================================================
# GPU (CuPy / CUDA) backend
# =====================================================================
@cuda.jit(device=True)
def _gpu_euclidean_distance(x1, x2, y1, y2):
dx = x1 - x2
dy = y1 - y2
return _math.sqrt(dx * dx + dy * dy)
@cuda.jit(device=True)
def _gpu_manhattan_distance(x1, x2, y1, y2):
return abs(x1 - x2) + abs(y1 - y2)
@cuda.jit(device=True)
def _gpu_great_circle_distance(x1, x2, y1, y2):
if x1 == x2 and y1 == y2:
return 0.0
lat1 = y1 * 0.017453292519943295
lon1 = x1 * 0.017453292519943295
lat2 = y2 * 0.017453292519943295
lon2 = x2 * 0.017453292519943295
dlon = lon2 - lon1
dlat = lat2 - lat1
a = (_math.sin(dlat / 2.0) ** 2
+ _math.cos(lat1) * _math.cos(lat2)
* _math.sin(dlon / 2.0) ** 2)
return 6378137.0 * 2.0 * _math.asin(_math.sqrt(a))
@cuda.jit(device=True)
def _gpu_distance(x1, x2, y1, y2, metric):
if metric == EUCLIDEAN:
return _gpu_euclidean_distance(x1, x2, y1, y2)
elif metric == GREAT_CIRCLE:
return _gpu_great_circle_distance(x1, x2, y1, y2)
else:
return _gpu_manhattan_distance(x1, x2, y1, y2)
@cuda.jit(device=True)
def _gpu_calc_direction(x1, x2, y1, y2):
if x1 == x2 and y1 == y2:
return 0.0
dx = x2 - x1
dy = y2 - y1
d = _math.atan2(-dy, dx) * 57.29578
if d < 0.0:
d = 90.0 - d
elif d > 90.0:
d = 360.0 - d + 90.0
else:
d = 90.0 - d
return d
@cuda.jit
def _proximity_cuda_kernel(target_xs, target_ys, target_vals, n_targets,
y_coords, x_coords, max_distance,
distance_metric, process_mode, out):
iy, ix = cuda.grid(2)
if iy >= out.shape[0] or ix >= out.shape[1]:
return
px = x_coords[ix]
py = y_coords[iy]
best_dist = 1.0e38
best_idx = -1
for k in range(n_targets):
d = _gpu_distance(px, target_xs[k], py, target_ys[k], distance_metric)
if d < best_dist:
best_dist = d
best_idx = k
if best_idx >= 0 and best_dist <= max_distance:
if process_mode == PROXIMITY:
out[iy, ix] = best_dist
elif process_mode == ALLOCATION:
out[iy, ix] = target_vals[best_idx]
else:
out[iy, ix] = _gpu_calc_direction(
px, target_xs[best_idx], py, target_ys[best_idx])
def _process_cupy(raster_data, x_coords, y_coords, target_values,
max_distance, distance_metric, process_mode):
"""GPU proximity using CUDA brute-force nearest-target kernel."""
import cupy as cp
# Find target pixels on GPU
if len(target_values) == 0:
mask = cp.isfinite(raster_data) & (raster_data != 0)
else:
mask = cp.isin(raster_data, cp.asarray(target_values))
mask &= cp.isfinite(raster_data)
target_rows, target_cols = cp.where(mask)
n_targets = int(target_rows.shape[0])
if n_targets == 0:
return cp.full(raster_data.shape, cp.nan, dtype=cp.float32)
# Collect target world-coordinates and values
y_dev = cp.asarray(y_coords, dtype=cp.float64)
x_dev = cp.asarray(x_coords, dtype=cp.float64)
target_ys = y_dev[target_rows]
target_xs = x_dev[target_cols]
target_vals = raster_data[target_rows, target_cols].astype(cp.float32)
# Pre-fill output with NaN (pixels with no target within range stay NaN)
out = cp.full(raster_data.shape, cp.nan, dtype=cp.float32)
griddim, blockdim = cuda_args(raster_data.shape)
_proximity_cuda_kernel[griddim, blockdim](
target_xs, target_ys, target_vals, n_targets,
y_dev, x_dev,
np.float64(max_distance),
np.int32(distance_metric),
np.int32(process_mode),
out,
)
return out
def _process_dask_cupy(raster, x_coords, y_coords, target_values,
max_distance, distance_metric, process_mode):
"""Dask+CuPy bounded proximity via map_overlap with per-chunk GPU kernel.
Each chunk (plus overlap padding of ``max_distance / cellsize`` pixels)
is processed on GPU independently. Only valid for finite max_distance
where the padding guarantees all relevant targets are visible within
each overlapped chunk.
"""
import cupy as cp
cellsize_x, cellsize_y = get_dataarray_resolution(raster)
pad_y = int(max_distance / abs(cellsize_y) + 0.5)
pad_x = int(max_distance / abs(cellsize_x) + 0.5)
# Build 2D coordinate grids as dask+cupy arrays matching raster chunks.
# Each chunk is small (chunk_h x chunk_w x 8 bytes); the full grid is
# never materialised.
x_cp = cp.asarray(x_coords, dtype=cp.float64)
y_cp = cp.asarray(y_coords, dtype=cp.float64)
x_da = da.from_array(x_cp, chunks=(x_cp.shape[0],))
y_da = da.from_array(y_cp, chunks=(y_cp.shape[0],))
xs = da.tile(x_da, (raster.shape[0], 1)).rechunk(raster.data.chunks)
ys = da.repeat(y_da, raster.shape[1]).reshape(
raster.shape).rechunk(raster.data.chunks)
# Capture closure vars for the chunk function
tv = target_values
md = max_distance
dm = distance_metric
pm = process_mode
def _chunk_func(data_chunk, xs_chunk, ys_chunk):
# Use middle row/col to avoid NaN from boundary padding
x_1d = xs_chunk[xs_chunk.shape[0] // 2, :]
y_1d = ys_chunk[:, ys_chunk.shape[1] // 2]
return _process_cupy(data_chunk, x_1d, y_1d, tv, md, dm, pm)
return da.map_overlap(
_chunk_func,
raster.data, xs, ys,
depth=(pad_y, pad_x),
boundary=np.nan,
meta=cp.array((), dtype=cp.float32),
)
@ngjit
def _process_proximity_line(
source_line,
xs,
ys,
pan_near_x,
pan_near_y,
is_forward,
line_id,
width,
max_distance,
line_proximity,
nearest_xs,
nearest_ys,
values,
distance_metric,
):
"""
Process proximity for a line of pixels in an image.
Parameters
----------
source_line : numpy.array
Input data.
pan_near_x : numpy.array
pan_near_y : numpy.array
is_forward : boolean
Will we loop forward through pixel.
line_id : np.int64
Index of the source_line in the image.
width : np.int64
Image width.
It is the number of pixels in the `source_line`.
max_distance : np.float32, maximum distance considered.
line_proximity : numpy.array
1d numpy array of type np.float32, calculated proximity from
source_line.
values : numpy.array
1d numpy array. A list of target pixel values
to measure the distance from. If this option is not provided
proximity will be computed from non-zero pixel values.
Returns
-------
self: numpy.array
1d numpy array of type np.float32. Corresponding proximity of
source_line.
"""
start = width - 1
end = -1
step = -1
if is_forward:
start = 0
end = width
step = 1
n_values = len(values)
for pixel in prange(start, end, step):
is_target = False
# Is the current pixel a target pixel?
if n_values == 0:
if source_line[pixel] != 0 and np.isfinite(source_line[pixel]):
is_target = True
else:
for i in prange(n_values):
if source_line[pixel] == values[i]:
is_target = True
if is_target:
line_proximity[pixel] = 0.0
nearest_xs[pixel] = pixel
nearest_ys[pixel] = line_id
pan_near_x[pixel] = pixel
pan_near_y[pixel] = line_id
continue
# Are we near(er) to the closest target to the above (below) pixel?
near_distance_square = max_distance ** 2 * 2.0
if pan_near_x[pixel] != -1:
# distance_square
x1 = xs[pan_near_y[pixel], pan_near_x[pixel]]
y1 = ys[pan_near_y[pixel], pan_near_x[pixel]]
x2 = xs[line_id, pixel]
y2 = ys[line_id, pixel]
dist = _distance(x1, x2, y1, y2, distance_metric)
dist_sqr = dist ** 2
if dist_sqr < near_distance_square:
near_distance_square = dist_sqr
else:
pan_near_x[pixel] = -1
pan_near_y[pixel] = -1
# Are we near(er) to the closest target to the left (right) pixel?
last = pixel - step
if pixel != start and pan_near_x[last] != -1:
x1 = xs[pan_near_y[last], pan_near_x[last]]
y1 = ys[pan_near_y[last], pan_near_x[last]]
x2 = xs[line_id, pixel]
y2 = ys[line_id, pixel]
dist = _distance(x1, x2, y1, y2, distance_metric)
dist_sqr = dist ** 2
if dist_sqr < near_distance_square:
near_distance_square = dist_sqr
pan_near_x[pixel] = pan_near_x[last]
pan_near_y[pixel] = pan_near_y[last]
# Are we near(er) to the closest target to the
# topright (bottom left) pixel?
tr = pixel + step
if tr != end and pan_near_x[tr] != -1:
x1 = xs[pan_near_y[tr], pan_near_x[tr]]
y1 = ys[pan_near_y[tr], pan_near_x[tr]]
x2 = xs[line_id, pixel]
y2 = ys[line_id, pixel]
dist = _distance(x1, x2, y1, y2, distance_metric)
dist_sqr = dist ** 2
if dist_sqr < near_distance_square:
near_distance_square = dist_sqr
pan_near_x[pixel] = pan_near_x[tr]
pan_near_y[pixel] = pan_near_y[tr]
# Update our proximity value.
if (
pan_near_x[pixel] != -1
and max_distance * max_distance >= near_distance_square
and (
line_proximity[pixel] < 0
or near_distance_square < line_proximity[pixel]
* line_proximity[pixel]
)
):
line_proximity[pixel] = sqrt(near_distance_square)
nearest_xs[pixel] = pan_near_x[pixel]
nearest_ys[pixel] = pan_near_y[pixel]
return
def _kdtree_chunk_fn(block, y_coords_1d, x_coords_1d,
tree, block_info, max_distance, p,
process_mode, target_vals, target_coords):
"""Query k-d tree for nearest target for every pixel in block."""
if block_info is None or block_info == []:
return np.full(block.shape, np.nan, dtype=np.float32)
y_start = block_info[0]['array-location'][0][0]
x_start = block_info[0]['array-location'][1][0]
h, w = block.shape
chunk_ys = y_coords_1d[y_start:y_start + h]
chunk_xs = x_coords_1d[x_start:x_start + w]
yy, xx = np.meshgrid(chunk_ys, chunk_xs, indexing='ij')
query_pts = np.column_stack([yy.ravel(), xx.ravel()])
dists, indices = tree.query(query_pts, p=p,
distance_upper_bound=max_distance)
n_targets = len(target_vals)
oob = indices >= n_targets
safe_idx = np.where(oob, 0, indices)
if process_mode == PROXIMITY:
result = dists.astype(np.float32)
result[result == np.inf] = np.nan
elif process_mode == ALLOCATION:
result = target_vals[safe_idx].astype(np.float32)
result[oob] = np.nan
else: # DIRECTION
query_x = xx.ravel()
query_y = yy.ravel()
target_x = target_coords[safe_idx, 1]
target_y = target_coords[safe_idx, 0]
result = _vectorized_calc_direction(
query_x, target_x, query_y, target_y)
result[oob] = np.nan
result[dists == 0] = 0.0
return result.reshape(h, w)
def _target_mask(chunk_data, target_values):
"""Boolean mask of target pixels in *chunk_data*."""
if len(target_values) == 0:
return np.isfinite(chunk_data) & (chunk_data != 0)
return np.isin(chunk_data, target_values) & np.isfinite(chunk_data)
def _stream_target_counts(raster, target_values, y_coords, x_coords,
chunks_y, chunks_x):
"""Stream all dask chunks, counting targets per chunk.
Caches per-chunk coordinate arrays and pixel values within a 25%
memory budget to reduce re-reads in later phases.
Returns
-------
target_counts : ndarray, shape (n_tile_y, n_tile_x), dtype int64
total_targets : int
coords_cache : dict (iy, ix) -> ndarray shape (N, 2)
values_cache : dict (iy, ix) -> ndarray shape (N,), dtype float32
"""
n_tile_y = len(chunks_y)
n_tile_x = len(chunks_x)
target_counts = np.zeros((n_tile_y, n_tile_x), dtype=np.int64)
coords_cache = {}
values_cache = {}
cache_bytes = 0
budget = int(0.25 * _available_memory_bytes())
y_offsets = np.zeros(n_tile_y + 1, dtype=np.int64)
np.cumsum(chunks_y, out=y_offsets[1:])
x_offsets = np.zeros(n_tile_x + 1, dtype=np.int64)
np.cumsum(chunks_x, out=x_offsets[1:])
for iy in range(n_tile_y):
for ix in range(n_tile_x):
chunk_data = raster.data.blocks[iy, ix].compute()
mask = _target_mask(chunk_data, target_values)
rows, cols = np.where(mask)
n = len(rows)
target_counts[iy, ix] = n
if n > 0:
coords = np.column_stack([
y_coords[y_offsets[iy] + rows],
x_coords[x_offsets[ix] + cols],
])
vals = chunk_data[rows, cols].astype(np.float32)
entry_bytes = coords.nbytes + vals.nbytes
if cache_bytes + entry_bytes <= budget:
coords_cache[(iy, ix)] = coords
values_cache[(iy, ix)] = vals
cache_bytes += entry_bytes
total_targets = int(target_counts.sum())
return target_counts, total_targets, coords_cache, values_cache
def _chunk_offsets(chunks):
"""Return cumulative offset array of length len(chunks)+1."""
offsets = np.zeros(len(chunks) + 1, dtype=np.int64)
np.cumsum(chunks, out=offsets[1:])
return offsets
def _collect_region_targets(raster, jy_lo, jy_hi, jx_lo, jx_hi,
target_values, target_counts,
y_coords, x_coords,
y_offsets, x_offsets,
coords_cache, values_cache):
"""Collect target (y, x) coords and pixel values from chunks.
Uses cache where available, re-reads uncached chunks via .compute().
Returns (coords ndarray (N, 2), vals ndarray (N,)) or (None, None).
"""
coord_parts = []
val_parts = []
for iy in range(jy_lo, jy_hi):
for ix in range(jx_lo, jx_hi):
if target_counts[iy, ix] == 0:
continue
if (iy, ix) in coords_cache:
coord_parts.append(coords_cache[(iy, ix)])
val_parts.append(values_cache[(iy, ix)])
else:
chunk_data = raster.data.blocks[iy, ix].compute()
mask = _target_mask(chunk_data, target_values)
rows, cols = np.where(mask)
if len(rows) > 0:
coords = np.column_stack([
y_coords[y_offsets[iy] + rows],
x_coords[x_offsets[ix] + cols],
])
coord_parts.append(coords)
val_parts.append(
chunk_data[rows, cols].astype(np.float32)
)
if not coord_parts:
return None, None
return np.concatenate(coord_parts), np.concatenate(val_parts)
def _min_boundary_distance(iy, ix, y_coords, x_coords,
y_offsets, x_offsets,
jy_lo, jy_hi, jx_lo, jx_hi,
n_tile_y, n_tile_x):
"""Lower bound on distance from any pixel in chunk (iy, ix) to any point
outside the search region [jy_lo:jy_hi, jx_lo:jx_hi].
For each of the 4 sides where the search region doesn't reach the raster
edge, compute the gap between the chunk's edge pixel coordinate and the
first pixel outside the search region. The minimum of these gaps is
a valid lower bound for both L1 and L2 norms.
Returns float (inf if search covers the full raster).
"""
gaps = []
# Top boundary
if jy_lo > 0:
# chunk's top-edge row in pixel space
chunk_top_row = y_offsets[iy]
# first row outside region (above)
outside_row = y_offsets[jy_lo] - 1
gap = abs(float(y_coords[chunk_top_row]) - float(y_coords[outside_row]))
gaps.append(gap)
# Bottom boundary
if jy_hi < n_tile_y:
chunk_bot_row = y_offsets[iy + 1] - 1
outside_row = y_offsets[jy_hi]
gap = abs(float(y_coords[chunk_bot_row]) - float(y_coords[outside_row]))
gaps.append(gap)
# Left boundary
if jx_lo > 0:
chunk_left_col = x_offsets[ix]
outside_col = x_offsets[jx_lo] - 1
gap = abs(float(x_coords[chunk_left_col]) - float(x_coords[outside_col]))
gaps.append(gap)
# Right boundary
if jx_hi < n_tile_x:
chunk_right_col = x_offsets[ix + 1] - 1
outside_col = x_offsets[jx_hi]
gap = abs(float(x_coords[chunk_right_col]) - float(x_coords[outside_col]))
gaps.append(gap)
return min(gaps) if gaps else np.inf
def _tiled_chunk_query(raster, iy, ix, y_coords, x_coords,
y_offsets, x_offsets,
target_values, target_counts,
coords_cache, values_cache,
max_distance, p,
n_tile_y, n_tile_x, process_mode):
"""Expanding-ring local KDTree for one output chunk.
Returns ndarray shape (h, w), dtype float32.
"""
h = int(y_offsets[iy + 1] - y_offsets[iy])
w = int(x_offsets[ix + 1] - x_offsets[ix])
# Build query points for this chunk
chunk_ys = y_coords[y_offsets[iy]:y_offsets[iy + 1]]
chunk_xs = x_coords[x_offsets[ix]:x_offsets[ix + 1]]
yy, xx = np.meshgrid(chunk_ys, chunk_xs, indexing='ij')
query_pts = np.column_stack([yy.ravel(), xx.ravel()])
ring = 0
while True:
jy_lo = max(iy - ring, 0)
jy_hi = min(iy + 1 + ring, n_tile_y)
jx_lo = max(ix - ring, 0)
jx_hi = min(ix + 1 + ring, n_tile_x)
covers_full = (jy_lo == 0 and jy_hi == n_tile_y
and jx_lo == 0 and jx_hi == n_tile_x)
target_coords, target_vals = _collect_region_targets(
raster, jy_lo, jy_hi, jx_lo, jx_hi,
target_values, target_counts,
y_coords, x_coords, y_offsets, x_offsets,
coords_cache, values_cache,
)
if target_coords is None:
if covers_full:
# No targets in entire raster
return np.full((h, w), np.nan, dtype=np.float32)
ring += 1
continue
tree = cKDTree(target_coords)
ub = max_distance if np.isfinite(max_distance) else np.inf
dists, indices = tree.query(query_pts, p=p, distance_upper_bound=ub)
n_targets = len(target_vals)
oob = indices >= n_targets
safe_idx = np.where(oob, 0, indices)
# Always compute dists for convergence check
dist_result = dists.reshape(h, w).astype(np.float32)
dist_result[dist_result == np.inf] = np.nan
def _converged():
if covers_full:
return True
max_nearest = (np.nanmax(dist_result)
if not np.all(np.isnan(dist_result)) else 0.0)
min_bd = _min_boundary_distance(
iy, ix, y_coords, x_coords, y_offsets, x_offsets,
jy_lo, jy_hi, jx_lo, jx_hi, n_tile_y, n_tile_x,
)
return max_nearest < min_bd
if _converged():
if process_mode == PROXIMITY:
return dist_result
elif process_mode == ALLOCATION:
result = target_vals[safe_idx].astype(np.float32)
result[oob] = np.nan
return result.reshape(h, w)
else: # DIRECTION
query_x = xx.ravel()
query_y = yy.ravel()
target_x = target_coords[safe_idx, 1]
target_y = target_coords[safe_idx, 0]
result = _vectorized_calc_direction(
query_x, target_x, query_y, target_y)
result[oob] = np.nan
result[dists == 0] = 0.0
return result.reshape(h, w)
ring += 1
def _build_tiled_kdtree(raster, y_coords, x_coords, target_values,
max_distance, p, target_counts,
coords_cache, values_cache,
chunks_y, chunks_x, process_mode):
"""Tiled (eager) KDTree query — memory-safe fallback."""
H, W = raster.shape
result_bytes = H * W * 4 # float32
avail = _available_memory_bytes()
if result_bytes > 0.8 * avail:
raise MemoryError(
f"Proximity result array ({H}x{W}, {result_bytes / 1e9:.1f} GB) "
f"exceeds 80% of available memory ({avail / 1e9:.1f} GB)."
)
warnings.warn(
"proximity: target coordinates exceed 50% of available memory; "
"using tiled KDTree fallback (slower but memory-safe).",
ResourceWarning,
stacklevel=4,
)
n_tile_y = len(chunks_y)
n_tile_x = len(chunks_x)
y_offsets = _chunk_offsets(chunks_y)
x_offsets = _chunk_offsets(chunks_x)
result = np.full((H, W), np.nan, dtype=np.float32)
for iy in range(n_tile_y):
for ix in range(n_tile_x):
chunk_result = _tiled_chunk_query(
raster, iy, ix, y_coords, x_coords,
y_offsets, x_offsets,
target_values, target_counts,
coords_cache, values_cache,
max_distance, p, n_tile_y, n_tile_x, process_mode,
)
r0 = int(y_offsets[iy])
r1 = int(y_offsets[iy + 1])
c0 = int(x_offsets[ix])
c1 = int(x_offsets[ix + 1])
result[r0:r1, c0:c1] = chunk_result
return da.from_array(result, chunks=raster.data.chunks)
def _build_global_kdtree(raster, y_coords, x_coords, target_values,
max_distance, p, target_counts,
coords_cache, values_cache,
chunks_y, chunks_x, process_mode):
"""Global KDTree query — fast, lazy via da.map_blocks."""
n_tile_y = len(chunks_y)
n_tile_x = len(chunks_x)
y_offsets = _chunk_offsets(chunks_y)
x_offsets = _chunk_offsets(chunks_x)
target_coords, target_vals = _collect_region_targets(
raster, 0, n_tile_y, 0, n_tile_x,
target_values, target_counts,
y_coords, x_coords, y_offsets, x_offsets,
coords_cache, values_cache,
)
tree = cKDTree(target_coords)
chunk_fn = partial(
_kdtree_chunk_fn,
y_coords_1d=y_coords,
x_coords_1d=x_coords,
tree=tree,
max_distance=max_distance if np.isfinite(max_distance) else np.inf,
p=p,
process_mode=process_mode,
target_vals=target_vals,
target_coords=target_coords,
)
return da.map_blocks(
chunk_fn,
raster.data,
dtype=np.float32,
meta=np.array((), dtype=np.float32),
)
def _process_dask_kdtree(raster, x_coords, y_coords,
target_values, max_distance, distance_metric,
process_mode):
"""Memory-guarded k-d tree query for dask arrays.
Phase 0: stream through chunks counting targets (with caching).
Then choose global tree (fast, lazy) or tiled tree (memory-safe, eager)
based on estimated memory usage.
"""
p = 2 if distance_metric == EUCLIDEAN else 1 # Manhattan: p=1
chunks_y, chunks_x = raster.data.chunks
# Phase 0: streaming count pass
target_counts, total_targets, coords_cache, values_cache = \
_stream_target_counts(
raster, target_values, y_coords, x_coords, chunks_y, chunks_x,
)
if total_targets == 0:
return da.full(raster.shape, np.nan, dtype=np.float32,
chunks=raster.data.chunks)
# Memory decision: 16 bytes coords + 4 bytes value + ~32 bytes tree overhead
estimate = total_targets * 52