File size: 5,022 Bytes
2c3c408 | 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 | import numpy as np
import pytest
import tiledb
from tiledb import TileDBError
from tiledb.tests.common import DiskTestCase
class SubarrayTest(DiskTestCase):
def test_add_range(self):
dim1 = tiledb.Dim("row", domain=(1, 10))
dim2 = tiledb.Dim("col", domain=(1, 10))
dom = tiledb.Domain(dim1, dim2)
att = tiledb.Attr("val", dtype=np.uint64)
schema = tiledb.ArraySchema(domain=dom, attrs=(att,))
uri = self.path("dense_array")
tiledb.Array.create(uri, schema)
with tiledb.open(uri, "w") as array:
array[1:5, 1:5] = np.reshape(np.arange(1, 17, dtype=np.float64), (4, 4))
with tiledb.open(uri, "r") as array:
subarray1 = tiledb.Subarray(array)
# Check number of ranges: each dimension should have the default range.
assert subarray1.num_dim_ranges(0) == 1
assert subarray1.num_dim_ranges(1) == 1
assert subarray1.shape() == (10, 10)
# Add range to first dim and check still only 1 range (replace default).
subarray1.add_dim_range(0, (1, 2))
assert subarray1.num_dim_ranges(0) == 1
assert subarray1.shape() == (2, 10)
# Add additional range to first dim and check 2 ranges.
subarray1.add_dim_range(0, (4, 4))
assert subarray1.num_dim_ranges(0) == 2
assert subarray1.shape() == (3, 10)
def test_add_ranges_basic(self):
uri = self.path("test_pyquery_basic")
with tiledb.from_numpy(uri, np.random.rand(4)):
pass
with tiledb.open(uri) as array:
subarray = tiledb.Subarray(array)
subarray.add_ranges([[(0, 3)]])
with self.assertRaises(TileDBError):
subarray.add_ranges([[(0, 3.0)]])
subarray.add_ranges([[(0, np.int32(3))]])
with self.assertRaises(TileDBError):
subarray.add_ranges([[(3, "a")]])
with self.assertRaisesRegex(
TileDBError,
"Failed to cast dim range '\\(1.2344, 5.6789\\)' to dim type UINT64.*$",
):
subarray.add_ranges([[(1.2344, 5.6789)]])
with self.assertRaisesRegex(
TileDBError,
"Failed to cast dim range '\\('aa', 'bbbb'\\)' to dim type UINT64.*$",
):
subarray.add_ranges([[("aa", "bbbb")]])
@pytest.mark.skipif(
tiledb.libtiledb.version()[0] == 2 and tiledb.libtiledb.version()[1] < 15,
reason="dimension labels requires libtiledb version 2.15 or greater",
)
def test_add_label_ranges_1d(self):
# Create array schema with dimension labels
dim = tiledb.Dim("d1", domain=(1, 10), dtype=np.uint32)
dom = tiledb.Domain(dim)
att = tiledb.Attr("a1", dtype=np.int64)
dim_labels = {0: {"l1": dim.create_label_schema("increasing", np.int64)}}
schema = tiledb.ArraySchema(domain=dom, attrs=(att,), dim_labels=dim_labels)
# Create array
uri = self.path("dense_array_with_label")
tiledb.Array.create(uri, schema)
# Add dimension label ranges
with tiledb.open(uri, "r") as array:
subarray1 = tiledb.Subarray(array)
assert subarray1.num_dim_ranges(0) == 1
subarray1.add_label_range("l1", (-1, 1))
assert subarray1.num_dim_ranges(0) == 0
assert subarray1.num_label_ranges("l1") == 1
def test_copy_ranges(self):
# Create array schema with dimension labels
d1 = tiledb.Dim("d1", domain=(1, 10), dtype=np.uint32)
d2 = tiledb.Dim("d2", domain=(1, 10), dtype=np.uint32)
d3 = tiledb.Dim("d3", domain=(1, 10), dtype=np.uint32)
d4 = tiledb.Dim("d4", domain=(1, 10), dtype=np.uint32)
dom = tiledb.Domain(d1, d2, d3, d4)
att = tiledb.Attr("a1", dtype=np.int64)
schema = tiledb.ArraySchema(domain=dom, attrs=(att,))
# Create array
uri = self.path("array4d")
tiledb.Array.create(uri, schema)
# Add ranges (1, 1) and (3, 3) to each dimension of the subarray.
with tiledb.open(uri, "r") as array:
subarray1 = tiledb.Subarray(array)
subarray1.add_ranges(
(((1, 1), (3, 3)), ((1, 1), (3, 3)), ((1, 1), (3, 3)), ((1, 1), (3, 3)))
)
assert subarray1.num_dim_ranges(0) == 2
assert subarray1.num_dim_ranges(1) == 2
assert subarray1.num_dim_ranges(2) == 2
assert subarray1.num_dim_ranges(3) == 2
# Should copy ranges from d1 and d3.
# All other dimensions should only have default range.
subarray2 = tiledb.Subarray(array)
subarray2.copy_ranges(subarray1, [0, 2])
assert subarray2.num_dim_ranges(0) == 2
assert subarray2.num_dim_ranges(1) == 1
assert subarray2.num_dim_ranges(2) == 2
assert subarray2.num_dim_ranges(3) == 1
|