def fmt_span(k):
try:
return parse_list(k, 2)
except ValueError as e:
msg = "Using full span because {}"
print(msg.format(str(e)))
return [0]
def fmt_span(k, size):
try:
return parse_list(k, 2)
except ValueError:
return [0, size]
make_path(out_path)
def fmt_span(k, size):
try:
return parse_list(k, 2)
except ValueError:
return [0, size]
# Create a file manager
mgmt = Boss2np(in_path)
# Get full shape
full_shape = mgmt.full_shape
z_max, y_max, x_max = full_shape
# Get all the deltas
z_off, y_off, x_off = parse_list(args['delta'], 3)
# Get the span across Z
z_span = np.int64(fmt_span(args['z'], z_max))
y_span = np.int64(fmt_span(args['y'], y_max))
x_span = np.int64(fmt_span(args['x'], x_max))
# Get all the spans
full_spans = [
list(np.clip(z_span + z_off, 0, z_max)),
list(np.clip(y_span + y_off, 0, y_max)),
list(np.clip(x_span + x_off, 0, x_max)),
]
# Get the input resolution
resolution = parse_list(args['scale'], 3)
z_scale = 2**resolution[0]
# Format input and output paths
in_path = format_path(args['files'])
out_path = format_path(args['out'])
make_path(out_path)
def fmt_span(k):
try:
return parse_list(k, 2)
except ValueError as e:
msg = "Using full span because {}"
print(msg.format(str(e)))
return [0]
# Get all the deltas
z_off, y_off, x_off = parse_list(args['delta'], 3)
# Get the input spans
in_spans = [
list(z_off + np.int64(fmt_span(args['z']))),
list(y_off + np.int64(fmt_span(args['y']))),
list(x_off + np.int64(fmt_span(args['x']))),
]
# Create tif generator
tif_gen = tif2np(in_path, in_spans)
# Get the shape and data type
full_shape, input_type = tif_gen.next()
# Get the full z_span
full_z0 = in_spans[0][0]